2024-03-29T08:47:40Zhttp://nur.nu.edu.kz/oai/requestoai:nur.nu.edu.kz:123456789/22272018-08-15T03:50:07Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-01-09T10:40:32Z
urn:hdl:123456789/2227
GIW and InCoB are advancing bioinformatics in the Asia-Pacific
Schönbach, Christian
Horton, Paul
Yiu, Siu Ming
Tan, Tin Wee
Ranganathan, Shoba
bioinformatics
genes
biomarkers
GIW/InCoB2015 the joint 26th International Conference on Genome Informatics (GIW) and 14th International Conference on Bioinformatics (InCoB) held in Tokyo, September 9-11, 2015 was attended by over 200 delegates. Fifty-one out of 89 oral presentations were based on research articles accepted for publication in four BMC journal supplements and three other journals. Sixteen articles in this supplement and six articles in the BMC Systems Biology GIW/InCoB2015 Supplement are covered by this introduction. The topics range from genome informatics, protein structure informatics, image analysis to biological networks and biomarker discovery.
2017-01-09T10:40:32Z
2017-01-09T10:40:32Z
2015-12-18
Article
Schönbach, C., Horton, P., Yiu, S. M., Tan, T. W., & Ranganathan, S. (2015). GIW and InCoB are advancing bioinformatics in the Asia-Pacific. BMC Bioinformatics, 16(18), [I1]. DOI: 10.1186/1471-2105-16-S18-I1
http://nur.nu.edu.kz/handle/123456789/2227
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC Bioinformatics
oai:nur.nu.edu.kz:123456789/22292018-08-15T03:50:04Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-01-09T11:13:43Z
urn:hdl:123456789/2229
InCoB2014: Bioinformatics to tackle the data to knowledge challenge
Ranganathan, Shoba
Tan, Tin Wee
Schönbach, Christian
bioinformatics
proteins
software engineering
Since 2006, the International Conference on Bioinformatics (InCoB) has been publishing selected papers in BMC Bioinformatics. Papers within the scope of the journal from the 13th InCoB July 31-2 August, 2014 in Sydney, Australia have been compiled in this supplement. These span protein and proteome informatics, structural bioinformatics, software development and bioimaging to pharmacoinformatics and disease informatics, representing the breadth of bioinformatics research in the Asia-Pacific.
2017-01-09T11:13:43Z
2017-01-09T11:13:43Z
2014-12-08
Article
Ranganathan, S., Tan, T. W., & Schönbach, C. (2014). InCoB2014: Bioinformatics to tackle the data to knowledge challenge. BMC Bioinformatics, 15(16), [I1]. DOI: 10.1186/1471-2105-15-S16-I1
http://nur.nu.edu.kz/handle/123456789/2229
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC Bioinformatics
oai:nur.nu.edu.kz:123456789/27482018-08-15T03:50:14Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-08T04:43:59Z
urn:hdl:123456789/2748
Pathogen-driven gastrointestinal cancers: Time for a change in treatment paradigm?
Aituov, Bauyrzhan
Duisembekova, Assem
Bulenova, Assel
Alibek, Kenneth
gastric cancer
Colorectal cancer
Liver cancer
Helicobacter pylori
Cytomegalovirus
Epstein-Barr virus
John Cunningham virus
Streptococcus bovis
Hepatitis C virus
Helminthes
The regulation of cancerous tumor development is converged upon by multiple pathways and factors. Besides environmental factors, gastrointestinal (GI) tract cancer can be caused by chronic inflammation, which is generally induced by bacteria, viruses, and parasites. The role of these inducers in cancer development, cell differentiation and transformation, cell cycle deregulation, and in the expression of tumor-associated genes cannot be ignored. Although Helicobacter pylori activates many oncogenic pathways, particularly those in gastric and colorectal cancers, the role of viruses in tumor development is also significant. Viruses possess significant oncogenic potential to interfere with normal cell cycle control and genome stability, stimulating the growth of deregulated cells. An increasing amount of recent data also implies the association of GI cancers with bacterial colonization and viruses.This review focuses on host-cell interactions that facilitate primary mechanisms of tumorigenesis and provides new insights into novel GI cancer treatments.
2017-11-08T04:43:59Z
2017-11-08T04:43:59Z
2012
Article
Aituov et al.(>3), 2012, Pathogen-driven gastrointestinal cancers: Time for a change in treatment paradigm?,Infectious Agents and Cancer
1750-9378
doi:10.1186/1750-9378-7-18
http://nur.nu.edu.kz/handle/123456789/2748
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
Infectious Agents and Cancer
oai:nur.nu.edu.kz:123456789/27852018-08-15T03:50:15Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-13T05:33:04Z
urn:hdl:123456789/2785
Targeting Mechanotransduction at theTranscriptional Level: YAPandBRD4 Are Novel Therapeutic Targets for the Reversal of Liver Fibrosis
Zhubanchaliyev, Altynbek
Temirbekuly, Aibar
Kongrtay, Kuralay
Wanshura, Leah C.
Kunz, Jeannette
fibrosis
myofibroblasts
mechanotransduction
Hippopathway
YAP
bromodomain
BRD4
Liver fibrosis is the result of a deregulated wound healing process characterized by the excessive deposition of extracellular matrix. Hepatic stellate cells (HSCs), which are activated in response to liver injury, are the major source of extracellular matrix and drive the wound healing process. However, chronic liver damage leads to perpetual HSC activation, progressive formation of pathological scar tissue and ultimately, cirrhosis and organ failure. HSC activation is triggered largely in response to mechanosignaling from the microenvironment, which induces a profibrotic nuclear transcription program that promotes HSC proliferation and extracellular matrix secretion thereby setting up a positive feedback loop leading to matrix stiffening and self-sustained, pathological, HSC activation. Despite the significant progress in our understanding of liver fibrosis, the molecular mechanisms through which the extracellular matrix promotes HSC activation are not well understood and no effective therapies have been approved to date that can target this early, reversible, stage in liver fibrosis. Several new lines of investigation now provide important insight into this area of study and identify two nuclear targets whose inhibition has the potential of reversing liver fibrosis by interfering with HSC activation: Yes-associated protein (YAP), a transcriptional co-activator and effector of the mechanosensitive Hippo pathway, and bromodomain-containing protein 4 (BRD4), an epigenetic regulator of gene expression. YAP and BRD4 activity is induced in response to mechanical stimulation of HSCs and each protein independently controls waves of early gene expression necessary for HSC activation. Significantly, inhibition of either protein can revert the chronic activation of HSCs and impede pathological progression of liver fibrosis in clinically relevant model systems. In this review we will discuss the roles of these nuclear co-activators in HSC activation, their mechanism of action in the fibrotic process in the liver and other organs, and the potential of targeting their activity with small molecule drugs for fibrosis reversal.
2017-11-13T05:33:04Z
2017-11-13T05:33:04Z
2016-12-01
Article
Zhubanchaliyev Altynbek et al.(>4), 2016(December 1), Targeting Mechanotransduction at theTranscriptional Level: YAPandBRD4 Are Novel Therapeutic Targets for the Reversal of Liver Fibrosis, Frontiers in Pharmacology
doi: 10.3389/fphar.2016.00462
http://nur.nu.edu.kz/handle/123456789/2785
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
Frontiers in Pharmacology
oai:nur.nu.edu.kz:123456789/28002018-08-15T03:50:16Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-14T04:09:19Z
urn:hdl:123456789/2800
Reverse the Resistance to PARP Inhibitors
Kim, Yevgeniy
Kim, Aleksei
Sharip, Ainur
Sharip, Aigul
Jiang, Juhong
Yang, Qing
Xie, Yingqiu
PARP
PARP inhibitor
drug resistance
DNA repair
Research Subject Categories::NATURAL SCIENCES::Biology
One of the DNA repair machineries is activated by Poly (ADP-ribose) Polymerase (PARP) enzyme. Particularly, this enzyme is involved in repair of damages to single-strand DNA, thus decreasing the chances of generating double-strand breaks in the genome. Therefore, the concept to block PARP enzymes by PARP inhibitor (PARPi) was appreciated in cancer treatment. PARPi has been designed and tested for many years and became a potential supplement for the conventional chemotherapy. However, increasing evidence indicates the appearance of the resistance to this treatment.
Specifically, cancer cells may acquire new mutations or events that overcome the positive effect of these drugs. This paper describes several molecular mechanisms of PARPi resistance which were reported most recently, and summarizes some strategies to reverse this type of drug resistance.
2017-11-14T04:09:19Z
2017-11-14T04:09:19Z
2017-02-17
Article
Kim Yevgeniy et al.(>6), 2017(February 17), Reverse the Resistance to PARP Inhibitors, International Journal of Biological Sciences, vol.13, pp.98-208
doi: 10.7150/ijbs.17240
http://nur.nu.edu.kz/handle/123456789/2800
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
International Journal of Biological Sciences
oai:nur.nu.edu.kz:123456789/28082018-08-15T03:50:15Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-14T08:22:03Z
urn:hdl:123456789/2808
Computational and Bioinformatics Techniques for Immunology
Pappalardo, Francesco
Brusic, Vladimir
Castiglione, Filippo
Schönbach, Christian
immunology
immunological bioinformatics
2017-11-14T08:22:03Z
2017-11-14T08:22:03Z
2014-12-31
Article
Pappalardo Francesco et al.(>3), 2014(December 31), Computational and Bioinformatics Techniques for Immunology, BioMed Research International, Vol.2014, 2 pages
http://dx.doi.org/10.1155/2014/263189
http://nur.nu.edu.kz/handle/123456789/2808
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
BioMed Research International
oai:nur.nu.edu.kz:123456789/28202018-08-15T03:50:16Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-15T04:36:25Z
urn:hdl:123456789/2820
Advances in Computational Immunology
Pappalardo, Francesco
Brusic, Vladimir
Pennisi, Marzio
Zhang, Guanglan
immunology
W. Schreiner
molecular dynamics
Research Subject Categories::NATURAL SCIENCES::Biology::Cell and molecular biology::Immunology
2017-11-15T04:36:25Z
2017-11-15T04:36:25Z
2015
Article
Pappalardo Francesco et al.(>3), 2015, Advances in Computational Immunology, Journal of Immunology Research, 2015, Volume 2015, 3 pages
http://dx.doi.org/10.1155/2015/170920
http://nur.nu.edu.kz/handle/123456789/2820
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
Journal of Immunology Research
oai:nur.nu.edu.kz:123456789/28212018-08-15T03:50:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-16T05:26:31Z
urn:hdl:123456789/2821
Epidemiology of Brucellosis and Genetic Diversity of Brucella abortus in Kazakhstan
Shevtsova, Elena
Shevtsov, Alexandr
Mukanov, Kasim
Filipenko, Maxim
Kamalova, Dinara
Sytnik, Igor
Syzdykov, Marat
Kuznetsov, Andrey
Akhmetova, Assel
Zharova, Mira
Karibaev, Talgat
Tarlykov, Pavel
Ramanculov, Erlan
brucellosis
zoonotic
Kazakhstan
MLVA
MLVA-16
Research Subject Categories::NATURAL SCIENCES::Biology
Brucellosis is a major zoonotic infection in Kazakhstan. However, there is limited data on its incidence in humans and animals, and the genetic diversity of prevalent strains is virtually unstudied. Additionally, there is no detailed overview of Kazakhstan brucellosis control and eradication programs. Here, we analyzed brucellosis epidemiological data, and assessed the effectiveness of eradication strategies employed over the past 70 years to counteract this infection. We also conducted multiple loci variable-number tandem repeat analysis (MLVA) of Brucella abortus strains found in Kazakhstan. We analyzed official data on the incidence of animal brucellosis in Kazakhstan. The records span more than 70 years of antibrucellosis campaigns, and contain a brief description of the applied control strategies, their effectiveness, and their impact on the incidence in humans. The MLVA-16 method was used to type 94 strains of B. abortus and serial passages of B. abortus 82, a strain used in vaccines. MLVA-8 and MLVA-11 analyses clustered strains into a total of four and sevengenotypes, respectively; it is the first time that four of these genotypes have been described. MLVA-16 analysis divided strains into 28 distinct genotypes having genetic similarity coefficient that varies from 60 to100% and a Hunter & Gaston diversity index of 0.871. MST analysis reconstruction revealed clustering into "Kazakhstani-Chinese (Central Asian)", "European" and "American" lines. Detection of multiple genotypes in a single outbreak confirms that poorly controlled trade of livestock plays a crucial role in the spread of infection. Notably, the MLVA-16 profile of the B. abortus 82 strain was unique and did not change during 33 serial passages. MLVA genotyping may thus be useful for epidemiological monitoring of brucellosis, and for tracking the source(s) of infection. We suggest that countrywide application of MLVA genotyping would improve the control of brucellosis in Kazakhstan.
2017-11-16T05:26:31Z
2017-11-16T05:26:31Z
2016-12-01
Article
Shevtsova Elena et al.(>12), 2016(December 1), Epidemiology of Brucellosis and Genetic Diversity of Brucella abortus in Kazakhstan, Plos One
DOI:10.1371/journal.pone.0167496
http://nur.nu.edu.kz/handle/123456789/2821
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
Plos One
oai:nur.nu.edu.kz:123456789/28242018-08-15T03:50:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-16T05:38:02Z
urn:hdl:123456789/2824
Association between 28 single nucleotide polymorphisms and type 2 diabetes mellitus in the Kazakh population: a case-control study
Sikhayeva, Nurgul
Iskakova, Aisha
Saigi-Morgui, Nuria
Zholdybaeva, Elena
Eap, Chin-Bin
Ramanculov, Erlan
genetic variants
kazakh cohort
metabolic syndrome
Obesity
type 2 diabetes mellitus
Research Subject Categories::NATURAL SCIENCES::Biology
Background: We evaluated the associations between single nucleotide polymorphisms and different clinical parameters related to type 2 diabetes mellitus (T2DM), obesity risk, and metabolic syndrome (MS) in a Kazakh cohort. Methods: A total of 1336 subjects, including 408 T2DM patients and 928 control subjects, were recruited from an outpatient clinic and genotyped for 32 polymorphisms previously associated with T2DM and obesity-related phenotypes in other ethnic groups. For association studies, the chi-squared test or Fisher’s exact test for binomial variables were used. Logistic regression was conducted to explore associations between the studied SNPs and the risk of developing T2DM, obesity, and MS, after adjustments for age and sex. Results: After excluding four SNPs due to Hardy-Weinberg disequilibrium, significant associations in age-matched cohorts were found betweenT2DM and the following SNPs: rs9939609 (FTO), rs13266634 (SLC30A8), rs7961581 (TSPAN8/LGR5), and rs1799883 (FABP2). In addition, examination of general unmatched T2DM and control cohorts revealed significant associations between T2DM and SNPsrs1799883 (FABP2) and rs9939609 (FTO). Furthermore, polymorphisms in the FTO gene were associated with increased obesity risk, whereas polymorphisms in the FTO and FABP2 genes were also associated with the risk of developing MS in general unmatched cohorts. Conclusion: We confirmed associations between polymorphisms within the SLC30A8, TSPAN8/LGR5, FABP2, and FTO genes and susceptibility to T2DM in a Kazakh cohort, and revealed significant associations with anthropometric and metabolic traits. In particular, FTO and FABP2 gene polymorphisms were significantly associated with susceptibility to MS and obesity in this cohort.
2017-11-16T05:38:02Z
2017-11-16T05:38:02Z
2017-07-24
Article
Sikhayeva Nurgul et al.(>5), 2017(July 24), Association between 28 single nucleotide polymorphisms and type 2 diabetes mellitus in the Kazakh population: a case-control study, BMC Medical Genetics
DOI 10.1186/s12881-017-0443-2
http://nur.nu.edu.kz/handle/123456789/2824
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC Medical Genetics
oai:nur.nu.edu.kz:123456789/28252018-08-15T03:50:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-16T09:20:03Z
urn:hdl:123456789/2825
Genetic risk factors for restenosis after percutaneous coronary intervention in Kazakh population
Zholdybayeva, Elena V.
Talzhanov, Yerkebulan A.
Aitkulova, Akbota M.
Tarlykov, Pavel V.
Kulmambetova, Gulmira N.
Iskakova, Aisha N.
Dzholdasbekova, Aliya U.
Visternichan, Olga A.
Taizhanova, Dana Zh.
Ramanculov, Yerlan M.
coronary heart disease
restenosis
SNP
genotyping
Research Subject Categories::NATURAL SCIENCES::Biology
Background: After coronary stenting, the risk of developing restenosis is from 20 to 35 %. The aim of the present study is to investigate the association of genetic variation in candidate genes in patients diagnosed with restenosis in the Kazakh population. Methods: Four hundred fifty-nine patients were recruited to the study; 91 patients were also diagnosed with diabetes and were excluded from the sampling. DNA was extracted with the salting-out method. The patients were genotyped for 53 single-nucleotide polymorphisms. Genotyping was performed on the QuantStudio 12K Flex (Life Technologies). Differences in distribution of BMI score among different genotype groups were compared by analysis of variance (ANOVA). Also, statistical analysis was performed using R and PLINK v.1.07. Haplotype frequencies and LD measures were estimated by using the software Haploview 4.2. Results: A logistic regression analysis found a significant difference in restenosis rates for different genotypes. FGB (rs1800790) is significantly associated with restenosis after stenting (OR = 2.924, P = 2.3E−06, additive model) in the Kazakh population. CD14 (rs2569190) showed a significant association in the additive (OR = 0.08033, P = 2.11E−09) and dominant models (OR = 0.05359, P = 4.15E−11). NOS3 (rs1799983) was also highly associated with development of
restenosis after stenting in additive (OR = 20.05, P = 2.74 E−12) and recessive models (OR = 22.24, P = 6.811E−10). Conclusions: Our results indicate that FGB (rs1800790), CD14 (rs2569190), and NOS3 (rs1799983) SNPs could be genetic markers for development of restenosis in Kazakh population. Adjustment for potential confounder factor BMI gave almost the same results.
2017-11-16T09:20:03Z
2017-11-16T09:20:03Z
2016
Article
Zholdybayeva Elena V. et al.(>9), 2016, Genetic risk factors for restenosis after percutaneous coronary intervention in Kazakh population, Human Genomics
DOI 10.1186/s40246-016-0077-z
http://nur.nu.edu.kz/handle/123456789/2825
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
Human Genomics
oai:nur.nu.edu.kz:123456789/28262018-08-15T03:50:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-11-16T09:20:22Z
urn:hdl:123456789/2826
Polymorphisms in genes involved in the absorption, distribution, metabolism, and excretion of drugs in the Kazakhs of Kazakhstan
Iskakova, Aisha N.
Romanova, Aliya A.
Aitkulova, Akbota M.
Sikhayeva, Nurgul S.
Zholdybayeva, Elena V.
Ramanculov, Erlan M.
Kazakhstan
single nucleotide polymorphism
adsorption
distribution
metabolism
Excretion
OpenArray
Research Subject Categories::NATURAL SCIENCES::Biology
Background: Studies of genes involved in the absorption, distribution, metabolism, and excretion (ADME) of drugs are crucial to the development of therapeutics in clinical medicine. Such data provide information that may improve our understanding of individual differences in sensitivity or resistance to certain drugs, thereby helping to avoid adverse drug reactions (ADRs) in patients and improve the quality of therapies. Here, we aimed to
analyse single nucleotide polymorphisms (SNPs) involved in the ADME of multiple drugs in Kazakhs from Kazakhstan. Results: A total of 158 SNPs involved in the ADME of various drugs were studied. We analysed 320 Kazakh DNA samples using OpenArray genotyping. Of the 158 SNPs, 75 were not found in heterozygous or homozygous
variants. Comparative analysis among Kazakhs and world populations showed a fairly high percentage of population differentiation. Conclusion: These results provide further information for pharmacogenetic databases and may contribute to the development of personalized approaches and safer therapies for the Kazakh population. Moreover, these data provide insights into the different racial groups that may have contributed to the Kazakh population.
2017-11-16T09:20:22Z
2017-11-16T09:20:22Z
2016-01-19
Article
Iskakova Aisha N., 2016(January 19), Polymorphisms in genes involved in the absorption, distribution, metabolism, and excretion of drugs in the Kazakhs of Kazakhstan, BMC Genetics
DOI 10.1186/s12863-016-0329-x
http://nur.nu.edu.kz/handle/123456789/2826
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Open Access - the content is available to the general public
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC Genetics
oai:nur.nu.edu.kz:123456789/29102018-08-15T03:50:17Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-15T03:15:47Z
urn:hdl:123456789/2910
Re: Long-term Psychological and Quality-of-life Effects of Active Surveillance and Watchful Waiting After Diagnosis of Low-risk Localised Prostate Cancer
Ibragimova, Nazgul
Zhanzak, Zhuldyz
Meyerbekova, Aizhan
Xie, Yingqiu
Egger et al performed a 10-yr cohort study among 52–79-yr-old men diagnosed with low-risk localized prostate cancer. The objective of this research was to test permanent psychological and quality-of-life effects after active surveillance/watchful waiting and other specific active treatments.
Using several validated questionnaires and protocols, a total of 582 patients were interviewed and results of 341 (59%) of them were recorded. This research analyzed nine mental conditions and six quality-of-life states. Despite minor differences in psychological domains, particularly in bowel bother, hyperarousal, avoidance, distress, and urinary incontinence, no significant disparities were detected.
2017-12-15T03:15:47Z
2017-12-15T03:15:47Z
2018-01-01
Article
Nazgul Ibragimova, Zhuldyz Zhanzak, Aizhan Meyerbekova, Yingqiu Xie, Re: Long-term Psychological and Quality-of-life Effects of Active Surveillance and Watchful Waiting After Diagnosis of Low-risk Localised Prostate Cancer, In European Urology, Volume 73, Issue 1, 2018, Pages 143-144
03022838
https://www.sciencedirect.com/science/article/pii/S0302283817309107
http://nur.nu.edu.kz/handle/123456789/2910
en
European Urology
© 2017 European Association of Urology. Published by Elsevier B.V. All rights reserved.
European Urology
oai:nur.nu.edu.kz:123456789/30042018-08-15T03:50:20Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-21T06:12:44Z
urn:hdl:123456789/3004
Nickel(II) and nickel(0) complexes of bis(diisopropylphosphino)amine: Synthesis, structure, and electrochemical activity
Dickie, Diane A.
Chacon, Brittany E.
Issabekov, Alibek
Lam, Kevin
Kemp, Richard A.
X-ray structures
Nickel complexes
Electrochemistry
CO2 reactions
Phosphorus ligands
Abstract In its neutral state, bis(diisopropylphosphino)amine HL reacts in equimolar amounts with the nickel halides NiCl2·6H2O, NiBr2, and NiI2 in ethanol solutions to give the air- and moisture-stable P,P-chelated complexes (HL)NiX2 (X=Cl, Br, I). Under similar conditions, complexes of the form [(HL)2Ni]X2 (X=BF4, NO3, ClO4) were prepared from 2:1 ligand-metal ratios of Ni(BF4)2·6H2O, Ni(NO3)2·6H2O, or Ni(ClO4)2·6H2O. Deprotonation of the ligand with NaNH2 followed by reaction with NiI2 gives L2Ni when performed in Et2O, but leads to the co-crystal L2Ni·2[NCCHC(Me)NH2] when the solvent is acetonitrile. In addition to these Ni2+ compounds, the Ni0 complex (HL)2Ni can be prepared from a toluene solution of Ni(cod)2. Each complex has been characterized by a combination of IR and multi-nuclear NMR spectroscopies, as well as single-crystal X-ray diffraction. Electrochemical studies of the complexes revealed irreversible decomposition of the (HL)NiX2 (X=Cl, Br, I) series, but electrocatalytic CO2 reduction by the [(HL)2Ni]X2 (X=BF4, NO3, ClO4) compounds.
2017-12-21T06:12:44Z
2017-12-21T06:12:44Z
2016-11-01
Article
Diane A. Dickie, Brittany E. Chacon, Alibek Issabekov, Kevin Lam, Richard A. Kemp, Nickel(II) and nickel(0) complexes of bis(diisopropylphosphino)amine: Synthesis, structure, and electrochemical activity, In Inorganica Chimica Acta, Volume 453, 2016, Pages 42-50
00201693
https://www.sciencedirect.com/science/article/pii/S0020169316304261
http://nur.nu.edu.kz/handle/123456789/3004
en
Inorganica Chimica Acta
© 2016 Elsevier B.V. All rights reserved.
Inorganica Chimica Acta
oai:nur.nu.edu.kz:123456789/30182018-08-15T03:50:20Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-22T03:34:44Z
urn:hdl:123456789/3018
Proposal for assessment of the antimicrobial efficacy of undiluted medical honey: Using a standardized phase 2/step 2 in vitro stainless steel disc carrier test model
Goerdt, Anna-Maria
Assadian, Ojan
Razavi, Behzad
Igelbrink-Holter, Dorothee
Simon, Arne
Hübner, Nils-Olaf
Partecke, Lars Ivo
Zhumadilova, Anara
Heidecke, Claus-Dieter
Kramer, Axel
Medical honey
Medihoney
Antimicrobial
Microbicidal
In vitro
MRSA
Candida albicans
Abstract PurposeThe antimicrobial efficacy of medical honeys used for professional wound care was published previously. So far, all in vitro antimicrobial tests performed have been conducted using non-standardized methods and used diluted medical honey. A standardized, reproducible phase 2/step 2 in vitro disc carrier model is proposed allowing testing the antimicrobial efficacy of undiluted medical honey. MethodsUsing a standardized disc carrier model, the log10 Reduction Factor (RF) of undiluted medical honey was determined for MSSA, MRSA, VRE, Pseudomonas aeruginosa, and Candida albicans, with and without protein challenge. ResultsAn antimicrobial efficacy was observed after 1h. Without organic challenge, log10RF >5 within 24h was achieved for all tested microorganisms, except for Staphylococcus aureus (log10RF: 4.8/24h). Challenged with 10% bovine serum albumin, a similar pattern was observed at 24h. The most susceptible organism was C. albicans (log10RF of >3/5min). Over an exposure time of 48h, the tested medical honey's antimicrobial activity under protein challenge achieved log10RFs >6 for C. albicans and >7log10 for all tested bacteria. ConclusionsIt was demonstrated that the proposed standardized phase 2/step 2 in vitro stainless steel disc carrier test model is applicable for testing the antimicrobial activity of highly viscous and undiluted compounds such as medical honey. Undiluted medical honey exhibits a strong antimicrobial efficacy even under protein challenge after 1h, which increases to >6log10 for C. albicans, and >7log10 for Gr+ and Gr− bacteria.
2017-12-22T03:34:44Z
2017-12-22T03:34:44Z
2013-07-01
Article
Anna-Maria Goerdt, Ojan Assadian, Behzad Razavi, Dorothee Igelbrink-Holter, Arne Simon, Nils-Olaf Hübner, Lars Ivo Partecke, Anara Zhumadilova, Claus-Dieter Heidecke, Axel Kramer, Proposal for assessment of the antimicrobial efficacy of undiluted medical honey: Using a standardized phase 2/step 2 in vitro stainless steel disc carrier test model, In Wound Medicine, Volume 1, 2013, Pages 20-24
22139095
https://www.sciencedirect.com/science/article/pii/S2213909513000049
http://nur.nu.edu.kz/handle/123456789/3018
en
Wound Medicine
Copyright © 2013 Elsevier GmbH. All rights reserved.
Wound Medicine
oai:nur.nu.edu.kz:123456789/30242018-08-15T03:50:21Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-22T04:14:29Z
urn:hdl:123456789/3024
Acceptability and tolerability of liquid versus gel and standard versus virucidal alcohol-based hand rub formulations among dental students
Stauffer, Fritz
Griess, Marion
Pleininger, Gabriele
Zhumadilova, Anara
Assadian, Ojan
Hand hygiene
Epidemiology
Dentistry
Compliance
Comparison
WHO
BackgroundHand hygiene is effective to prevent the transmission of microorganisms in health care settings, but compliance remains low, even when easy access to hand cleaning agents is provided. ObjectiveFormulation of alcohol-based hand rub (ABHRs) may influence staff compliance to hand hygiene. The aim of this prospective longitudinal study (1 week) was to investigate possible differences of 4 different gel or liquid ABHR formulations, with or without virucidal claim among dental students. MethodsParticipants were randomly assigned to dental treatment cubicles, equipped with either a gel or a liquid based ABHRs, with our without a virucidal claim. Participants assessed the subjective acceptability and the tolerability of test formulations on their hands over a period of 1 week using the 14 item, 7-point Lickert scale World Health Organization questionnaire. ResultsAll tested ABHRs passed the subjective acceptability criteria of ≥50% above 4 for the items “color and fragrance” and for all other items of >75% above 4 and may be regarded as “good.” Significant differences were observed between the 2 gels but not between the 2 liquid ABHRs. For subjective skin tolerability, no significant difference was observed between the liquid formulations after 1 consecutive week of application. However, the difference between the 2 gels was highly significant. ConclusionVirucidal ABHR formulations may be better accepted and tolerated over prolonged periods by dental students than anticipated. The user acceptability of ABHRs depend more on the specific product's formula than its general category.
2017-12-22T04:14:29Z
2017-12-22T04:14:29Z
2013-11-01
Article
Fritz Stauffer, Marion Griess, Gabriele Pleininger, Anara Zhumadilova, Ojan Assadian, Acceptability and tolerability of liquid versus gel and standard versus virucidal alcohol-based hand rub formulations among dental students, In American Journal of Infection Control, Volume 41, Issue 11, 2013, Pages 1007-1011
01966553
https://www.sciencedirect.com/science/article/pii/S0196655313008584
http://nur.nu.edu.kz/handle/123456789/3024
en
American Journal of Infection Control
Copyright © 2013 Association for Professionals in Infection Control and Epidemiology, Inc. Published by Mosby, Inc. All rights reserved.
American Journal of Infection Control
oai:nur.nu.edu.kz:123456789/30522018-08-15T03:50:22Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-22T08:50:29Z
urn:hdl:123456789/3052
Imaging flow cytometry for phytoplankton analysis
Dashkova, Veronika
Malashenkov, Dmitry
Poulton, Nicole
Vorobjev, Ivan
Barteneva, Natasha S.
Microalgae
Phytoplankton
Imaging flow cytometry
Viability
Metabolic activity
Abstract This review highlights the concepts and instrumentation of imaging flow cytometry technology and in particular its use for phytoplankton analysis. Imaging flow cytometry, a hybrid technology combining speed and statistical capabilities of flow cytometry with imaging features of microscopy, is rapidly advancing as a cell imaging platform that overcomes many of the limitations of current techniques and contributed significantly to the advancement of phytoplankton analysis in recent years. This review presents the various instrumentation relevant to the field and currently used for assessment of complex phytoplankton communities’ composition and abundance, size structure determination, biovolume estimation, detection of harmful algal bloom species, evaluation of viability and metabolic activity and other applications. Also we present our data on viability and metabolic assessment of Aphanizomenon sp. cyanobacteria using Imagestream X Mark II imaging cytometer. Herein, we highlight the immense potential of imaging flow cytometry for microalgal research, but also discuss limitations and future developments.
2017-12-22T08:50:29Z
2017-12-22T08:50:29Z
2017-01-01
Article
Veronika Dashkova, Dmitry Malashenkov, Nicole Poulton, Ivan Vorobjev, Natasha S. Barteneva, Imaging flow cytometry for phytoplankton analysis, In Methods, Volume 112, 2017, Pages 188-200
Viraga Haridas, Shahin Ranjbar, Ivan A. Vorobjev, Anne E. Goldfeld, Natasha S. Barteneva, Imaging flow cytometry analysis of intracellular pathogens, In Methods, Volume 112, 2017, Pages 91-104
10462023
https://www.sciencedirect.com/science/article/pii/S104620231630130X
http://nur.nu.edu.kz/handle/123456789/3052
en
Methods
© 2016 Elsevier Inc. All rights reserved.
Methods
oai:nur.nu.edu.kz:123456789/30542018-08-15T03:50:21Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-22T08:57:24Z
urn:hdl:123456789/3054
Imaging flow cytometry analysis of intracellular pathogens
Haridas, Viraga
Ranjbar, Shahin
Vorobjev, Ivan A.
Goldfeld, Anne E.
Barteneva, Natasha S.
Imaging flow cytometry
Fluorescent protein
Intracellular pathogen
Mycobacteria tuberculosis
Toxoplasma gondii
Feature Finder
Cellular heterogeneity
Colocalization
Phagosome maturation
Rab5
Rab7
Abstract Imaging flow cytometry has been applied to address questions in infection biology, in particular, infections induced by intracellular pathogens. This methodology, which utilizes specialized analytic software makes it possible to analyze hundreds of quantified features for hundreds of thousands of individual cellular or subcellular events in a single experiment. Imaging flow cytometry analysis of host cell-pathogen interaction can thus quantitatively addresses a variety of biological questions related to intracellular infection, including cell counting, internalization score, and subcellular patterns of co-localization. Here, we provide an overview of recent achievements in the use of fluorescently labeled prokaryotic or eukaryotic pathogens in human cellular infections in analysis of host-pathogen interactions. Specifically, we give examples of Imagestream-based analysis of cell lines infected with Toxoplasma gondii or Mycobacterium tuberculosis. Furthermore, we illustrate the capabilities of imaging flow cytometry using a combination of standard IDEAS™ software and the more recently developed Feature Finder algorithm, which is capable of identifying statistically significant differences between researcher-defined image galleries. We argue that the combination of imaging flow cytometry with these software platforms provides a powerful new approach to understanding host control of intracellular pathogens.
2017-12-22T08:57:24Z
2017-12-22T08:57:24Z
2017-01-01
Article
Viraga Haridas, Shahin Ranjbar, Ivan A. Vorobjev, Anne E. Goldfeld, Natasha S. Barteneva, Imaging flow cytometry analysis of intracellular pathogens, In Methods, Volume 112, 2017, Pages 91-104
10462023
https://www.sciencedirect.com/science/article/pii/S1046202316303115
http://nur.nu.edu.kz/handle/123456789/3054
en
Methods
© 2016 Elsevier Inc. All rights reserved.
Methods
oai:nur.nu.edu.kz:123456789/30532018-08-15T03:50:20Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-22T08:55:31Z
urn:hdl:123456789/3053
Multi-parametric imaging of cell heterogeneity in apoptosis analysis
Vorobjev, Ivan A.
Barteneva, Natasha S.
Apoptosis
Fluorescent microscopy
Imaging flow cytometry
Flow cytometry
Programmed cell death
Multicolor imaging
Abstract Apoptosis is a multistep process of programmed cell death where different morphological and molecular events occur simultaneously and/or consequently. Recent progress in programmed cell death analysis uncovered large heterogeneity in response of individual cells to the apoptotic stimuli. Analysis of the complex and dynamic process of apoptosis requires a capacity to quantitate multiparametric data obtained from multicolor labeling and/or fluorescent reporters of live cells in conjunction with morphological analysis. Modern methods of multiparametric apoptosis study include but are not limited to fluorescent microscopy, flow cytometry and imaging flow cytometry.In the current review we discuss the image-based evaluation of apoptosis on the single-cell and population level by imaging flow cytometry in parallel with other techniques. The advantage of imaging flow cytometry is its ability to interrogate multiparametric morphometric and fluorescence quantitative data in statistically robust manner. Here we describe the current status and future perspectives of this emerging field, as well as some challenges and limitations. We also highlight a number of assays and multicolor labeling probes, utilizing both microscopy and different variants of imaging cytometry, including commonly based assays and novel developments in the field.
2017-12-22T08:55:31Z
2017-12-22T08:55:31Z
2017-01-01
Article
Ivan A. Vorobjev, Natasha S. Barteneva, Multi-parametric imaging of cell heterogeneity in apoptosis analysis, In Methods, Volume 112, 2017, Pages 105-123
10462023
https://www.sciencedirect.com/science/article/pii/S1046202316302055
http://nur.nu.edu.kz/handle/123456789/3053
en
Methods
© 2016 Published by Elsevier Inc.
Methods
oai:nur.nu.edu.kz:123456789/30682018-08-15T03:50:23Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2017-12-26T10:06:59Z
urn:hdl:123456789/3068
Genetic diversity of Brucella abortus and Brucella melitensis in Kazakhstan using MLVA-16
Shevtsov, Alexandr
Ramanculov, Erlan
Shevtsova, Elena
Kairzhanova, Alma
Tarlykov, Pavel
Filipenko, Maxim
Dymova, Maya
Abisheva, Gulzada
Jailbekova, Aygul
Kamalova, Dinara
Chsherbakov, Andrei
Tulegenov, Samat
Akhmetova, Assel
Sytnik, Igor
Karibaev, Talgat
Mukanov, Kasim
Multi-locus variable number tandem repeat analysis (MLVA)
Brucella melitensis
Brucella abortus
Genotyping
Kazakhstan
Abstract Brucellosis is an endemic disease in Central Asia characterized by high infection rates in humans and animals. Currently, little is known about the genetic diversity of Brucella spp. circulating in the region, despite the high prevalence of brucellosis. This study aimed to analyze the genetic diversity of Brucella melitensis and Brucella abortus strains circulating in the Republic of Kazakhstan. We genotyped 128 B. melitensis and 124 B. abortus strains collected in regions with the highest prevalence of brucellosis. Genotyping was performed using multi-locus variable-number tandem-repeat analysis (MLVA). Analysis of a subset of 8 loci (MLVA-8) of 128 B. melitensis strains identified genotypes 42 (n=108), 43 (n=2), and 63 (n=19) related to the ‘East Mediterranean’ group. An MLVA-16 assay sorted 128 B. melitensis strains into 25 different genotypes. Excluding one variable locus, MLVA-15 of B. melitensis was distinct from strains originating in the Mediterranean region; however, 77% of them were identical to strains isolated in China. A minimum spanning tree for B. melitensis using MLVA-15 analysis clustered the local strains together with strains previously collected in China. MLVA-8 analysis of 124 B. abortus strains identified them as genotype 36, suggesting Eurasian distribution of this lineage. Complete MLVA-16 assay analysis clustered the strains into five genotypes, revealing little diversity of B. abortus when compared on the global scale. A minimum spanning tree for B. abortus obtained using MLVA-15 analysis clustered the 2 most prevalent genotypes (n=117) together with strains previously collected in China. Thus, MLVA analysis was used to characterize 252 strains of Brucella collected in Kazakhstan. The analysis revealed genetic homogeneity among the strains. Interestingly, identical MLVA-15 profiles were found in seemingly unrelated outbreaks in China, Turkey, and Kazakhstan. Further analysis is needed for better understanding of the epidemiology of brucellosis in Asia.
2017-12-26T10:06:59Z
2017-12-26T10:06:59Z
2015-08-01
Article
Alexandr Shevtsov, Erlan Ramanculov, Elena Shevtsova, Alma Kairzhanova, Pavel Tarlykov, Maxim Filipenko, Maya Dymova, Gulzada Abisheva, Aygul Jailbekova, Dinara Kamalova, Andrei Chsherbakov, Samat Tulegenov, Assel Akhmetova, Igor Sytnik, Talgat Karibaev, Kasim Mukanov, Genetic diversity of Brucella abortus and Brucella melitensis in Kazakhstan using MLVA-16, In Infection, Genetics and Evolution, Volume 34, 2015, Pages 173-180
15671348
https://www.sciencedirect.com/science/article/pii/S1567134815002701
http://nur.nu.edu.kz/handle/123456789/3068
en
Infection, Genetics and Evolution
Copyright © 2015 Elsevier B.V. All rights reserved.
Infection, Genetics and Evolution
oai:nur.nu.edu.kz:123456789/30832018-08-15T03:50:23Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-01-04T05:56:13Z
urn:hdl:123456789/3083
Inhibition of osteoclast differentiation and collagen antibody-induced arthritis by CTHRC1
Jin, Yong-Ri
Stohn, J. Patrizia
Wang, Qiaozeng
Nagano, Kenichi
Baron, Roland
Bouxsein, Mary L.
Rosen, Clifford J.
Adarichev, Vyacheslav A.
Lindner, Volkhard
Osteoclastogenesis
Arthritis
Bone strength
CTHRC1
NFκB
Abstract Collagen triple helix repeat-containing1 (Cthrc1) has previously been implicated in osteogenic differentiation and positive regulation of bone mass, however, the underlying mechanisms remain unclear. Here we characterized the bone phenotype of a novel Cthrc1 null mouse strain using bone histomorphometry, μCT analysis and functional readouts for bone strength. In male Cthrc1 null mice both trabecular bone as well as cortical bone formation was impaired, whereas in female Cthrc1 null mice only trabecular bone parameters were altered. Novel and highly specific monoclonal antibodies revealed that CTHRC1 is expressed by osteocytes and osteoblasts, but not osteoclasts. Furthermore, Cthrc1 null mice exhibited increased bone resorption with increased number of osteoclast and increased osteoclast activity together with enhanced expression of osteoclastogenic genes such as c-Fos, Rankl, Trap, and Nfatc1. Differentiation of bone marrow-derived monocytes isolated from Cthrc1 null mice differentiated into osteoclasts as effectively as those from wildtype mice. In the presence of CTHRC1 osteoclastogenic differentiation of bone marrow-derived monocytes was dramatically inhibited as was functional bone resorption by osteoclasts. This process was accompanied by downregulation of osteoclastogenic marker genes, indicating that extrinsically derived CTHRC1 is required for such activity. In vitro, CTHRC1 had no effect on osteogenic differentiation of bone marrow stromal cells, however, calvarial osteoblasts from Cthrc1 null mice exhibited reduced osteogenic differentiation compared to osteoblasts from wildtypes. In a collagen antibody-induced arthritis model Cthrc1 null mice suffered significantly more severe inflammation and joint destruction than wildtypes, suggesting that CTHRC1 expressed by the activated synoviocytes has anti-inflammatory effects. Mechanistically, we found that CTHRC1 inhibited NFκB activation by preventing IκBα degradation while also inhibiting ERK1/2 activation. Collectively our studies demonstrate that CTHRC1 secreted from osteocytes and osteoblasts functions as an inhibitor of osteoclast differentiation via inhibition of NFκB-dependent signaling. Furthermore, our data suggest that CTHRC1 has potent anti-inflammatory properties that limit arthritic joint destruction.
2018-01-04T05:56:13Z
2018-01-04T05:56:13Z
2017-04-01
Article
Yong-Ri Jin, J. Patrizia Stohn, Qiaozeng Wang, Kenichi Nagano, Roland Baron, Mary L. Bouxsein, Clifford J. Rosen, Vyacheslav A. Adarichev, Volkhard Lindner, Inhibition of osteoclast differentiation and collagen antibody-induced arthritis by CTHRC1, In Bone, Volume 97, 2017, Pages 153-167
87563282
https://www.sciencedirect.com/science/article/pii/S8756328217300224
http://nur.nu.edu.kz/handle/123456789/3083
en
Bone
© 2017 Elsevier Inc. All rights reserved.
Bone
oai:nur.nu.edu.kz:123456789/30942018-08-15T03:50:24Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-01-04T08:57:35Z
urn:hdl:123456789/3094
Histological and biochemical analysis of DNA damage after BNCT in rat model
Masutani, Mitsuko
Baiseitov, Diaz
Itoh, Tasuku
Hirai, Takahisa
Berikkhanova, Kulzhan
Murakami, Yasufumi
Zhumadilov, Zhaxybay
Imahori, Yoshio
Hoshi, Masaharu
Itami, Jun
BNCT
DNA damage response
BPA
γH2AX
PAR
HMGB1
Abstract To understand the mechanism of tumor cell death induced by boron neutron capture therapy (BNCT) and to optimize BNCT condition, we used rat tumor graft models and histological and biochemical analyses were carried out focusing on DNA damage response. Rat lymphosarcoma cells were grafted subcutaneously into male Wister rats. The rats with developed tumors were then treated with neutron beam irradiation 45min after injection of 330mg/kg bodyweight boronophenylalanine (10BPA) (+BPA) or saline control (–BPA). BNCT was carried out in the National Nuclear Center of the Republic of Kazakhstan (neutron flux: 1×109nvt/s, fluence: 6×1011nvt) with the presence of background γ-irradiation of 33Gy. 6 and 20h after BNCT treatment, tumors were resected, fixed and subjected to immunohistochemistry and biochemical analyses. Immunostaining of nuclei showed that double strand break (DSB) marker gamma H2AX staining was high in 20h/+BPA sample but not in 20h/–BPA samples. Poly(ADP-ribose), DSB and single strand break markers of DNA, also demonstrated this tendency. These two markers were observed at low levels in unirradiated tissues or 6h after BNCT either under −BPA and +BPA conditions. HMGB1 level increased in 6h/+BPA but not in 6h/−BPA or 20h/+BPA samples. The persistent staining of γH2AX and poly(ADP-ribose) in +BPA group suggests accumulated DSB damage after BNCT. The early HMGB1 upregulation and γH2AX and poly(ADP-ribose) observed later might be the markers for monitoring the DNA damage induced by BNCT.
2018-01-04T08:57:35Z
2018-01-04T08:57:35Z
2014-06-01
Article
Mitsuko Masutani, Diaz Baiseitov, Tasuku Itoh, Takahisa Hirai, Kulzhan Berikkhanova, Yasufumi Murakami, Zhaxybay Zhumadilov, Yoshio Imahori, Masaharu Hoshi, Jun Itami, Histological and biochemical analysis of DNA damage after BNCT in rat model, In Applied Radiation and Isotopes, Volume 88, 2014, Pages 104-108
09698043
https://www.sciencedirect.com/science/article/pii/S0969804314000803
http://nur.nu.edu.kz/handle/123456789/3094
en
Applied Radiation and Isotopes
Copyright © 2014 Elsevier Ltd. All rights reserved.
Applied Radiation and Isotopes
oai:nur.nu.edu.kz:123456789/31002018-08-15T03:50:23Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-01-04T09:57:31Z
urn:hdl:123456789/3100
Extracellular vesicles in gastrointestinal cancer in conjunction with microbiota: On the border of Kingdoms
Barteneva, Natasha S.
Baiken, Yeldar
Fasler-Kan, Elizaveta
Alibek, Kenneth
Wang, Sheng
Maltsev, Natalia
Ponomarev, Eugene D.
Sautbayeva, Zarina
Kauanova, Sholpan
Moore, Anna
Beglinger, Christoph
Vorobjev, Ivan A.
Extracellular vesicles
Exosomes
Inter-species communication
Gastrointestinal cancer
Bacteroides fragilis
Pseudokinase
Abstract Extracellular vesicle (EV) production is a universal feature of metazoan cells as well as prokaryotes (bMVs - bacterial microvesicles). They are small vesicles with phospholipid membrane carrying proteins, DNA and different classes of RNAs and are heavily involved in intercellular communication acting as vectors of information to target cells. For the last decade, the interest in EV research has exponentially increased though thorough studies of their roles in various pathologies that was not previously possible due to technical limitations. This review focuses on research evaluating the role of EV production in gastrointestinal (GI) cancer development in conjunction with GI microbiota and inflammatory diseases. We also discuss recent studies on the promising role of EVs and their content as biomarkers for early diagnosis of GI cancers.The bMVs have also been implicated in the pathogenesis of GI chronic inflammatory diseases, however, possible role of bMVs in tumorigenesis remains underestimated. We propose that EVs from eukaryotic cells as well as from different microbial, fungi, parasitic species and edible plants in GI tract act as mediators of intracellular and inter-species communication, particularly facilitating tumor cell survival and multi-drug resistance.In conclusion, we suggest that matching sequences from EV proteomes (available from public databases) with known protein sequences of microbiome gut bacteria will be useful in identification of antigen mimicry between evolutionary conservative protein sequences. Using this approach we identified Bacteroides spp. pseudokinase with activation loop and homology to PDGFRα, providing a proof-of-concept strategy. We speculate that existence of microbial pseudokinase that ‘mimics’ PDGFRα may be related to PDGFRα and Bacteroides spp. roles in colorectal carcinogenesis that require further investigation.
2018-01-04T09:57:31Z
2018-01-04T09:57:31Z
2017-12-01
Article
Natasha S. Barteneva, Yeldar Baiken, Elizaveta Fasler-Kan, Kenneth Alibek, Sheng Wang, Natalia Maltsev, Eugene D. Ponomarev, Zarina Sautbayeva, Sholpan Kauanova, Anna Moore, Christoph Beglinger, Ivan A. Vorobjev, Extracellular vesicles in gastrointestinal cancer in conjunction with microbiota: On the border of Kingdoms, In Biochimica et Biophysica Acta (BBA) - Reviews on Cancer, Volume 1868, Issue 2, 2017, Pages 372-393
0304419X
https://www.sciencedirect.com/science/article/pii/S0304419X17300975
http://nur.nu.edu.kz/handle/123456789/3100
en
Biochimica et Biophysica Acta (BBA) - Reviews on Cancer
© 2017 The Authors. Published by Elsevier B.V.
Biochimica et Biophysica Acta (BBA) - Reviews on Cancer
oai:nur.nu.edu.kz:123456789/31132018-08-15T03:50:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-01-05T03:54:52Z
urn:hdl:123456789/3113
Effects of a Single Escape Mutation on T Cell and HIV-1 Co-adaptation
Sun, Xiaoming
Shi, Yi
Akahoshi, Tomohiro
Fujiwara, Mamoru
Gatanaga, Hiroyuki
Schönbach, Christian
Kuse, Nozomi
Appay, Victor
Gao, George F.
Oka, Shinichi
Takiguchi, Masafumi
Summary The mechanistic basis for the progressive accumulation of Y135F Nef mutant viruses in the HIV-1-infected population remains poorly understood. Y135F viruses carry the 2F mutation within RW8 and RF10, which are two HLA-A∗24:02-restricted superimposed Nef epitopes recognized by distinct and adaptable CD8+ T cell responses. We combined comprehensive analysis of the T cell receptor repertoire and cross-reactive potential of wild-type or 2F RW8- and RF10-specific CD8+ T cells with peptide-MHC complex stability and crystal structure studies. We find that, by affecting direct and water-mediated hydrogen bond networks within the peptide-MHC complex, the 2F mutation reduces both TCR and HLA binding. This suggests an advantage underlying the evolution of the 2F variant with decreased CD8+ T cell efficacy. Our study provides a refined understanding of HIV-1 and CD8+ T cell co-adaptation at the population level.
2018-01-05T03:54:52Z
2018-01-05T03:54:52Z
2016-06-07
Article
Xiaoming Sun, Yi Shi, Tomohiro Akahoshi, Mamoru Fujiwara, Hiroyuki Gatanaga, Christian Schönbach, Nozomi Kuse, Victor Appay, George F. Gao, Shinichi Oka, Masafumi Takiguchi, Effects of a Single Escape Mutation on T Cell and HIV-1 Co-adaptation, In Cell Reports, Volume 15, Issue 10, 2016, Pages 2279-2291
22111247
https://www.sciencedirect.com/science/article/pii/S221112471630585X
http://nur.nu.edu.kz/handle/123456789/3113
en
Cell Reports
© 2016 The Authors.
Cell Reports
oai:nur.nu.edu.kz:123456789/33862023-11-11T14:45:16Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T03:23:38Z
urn:hdl:123456789/3386
Regulation of Cathepsin G Reduces the Activation of Proinsulin-Reactive T Cells from Type 1 Diabetes Patients
Zou, Fang
Schafer, Nadja
Palesch, David
Brucken, Ruth
Beck, Alexander
Sienczyk, Marcin
Kalbacher, Hubert
Sun, ZiLin
Boehm, Bernhard O.
Burster, Timo
Herrath, Matthias G.
Diabetes Patients
Diabetes
Autoantigenic peptides resulting from self-proteins such as proinsulin are important players in the development of type 1
diabetes mellitus (T1D). Self-proteins can be processed by cathepsins (Cats) within endocytic compartments and loaded to
major histocompatibility complex (MHC) class II molecules for CD4+ T cell inspection. However, the processing and presentation
of proinsulin by antigen-presenting cells (APC) in humans is only partially understood. Here we demonstrate that the processing
of proinsulin by B cell or myeloid dendritic cell (mDC1)-derived lysosomal cathepsins resulted in several proinsulin-derived
intermediates. These intermediates were similar to those obtained using purified CatG and, to a lesser extent, CatD, S, and V in
vitro. Some of these intermediates polarized T cell activation in peripheral blood mononuclear cells (PBMC) from T1D patients
indicative for naturally processed T cell epitopes. Furthermore, CatG activity was found to be elevated in PBMC from T1D
patients and abrogation of CatG activity resulted in functional inhibition of proinsulin-reactive T cells. Our data suggested the
notion that CatG plays a critical role in proinsulin processing and is important in the activation process of diabetogenic T cells.
2018-08-20T03:23:38Z
2018-08-20T03:23:38Z
2011-08-05
Article
Zou F, Scha¨fer N, Palesch D, Bru¨ cken R, Beck A, et al. (2011) Regulation of Cathepsin G Reduces the Activation of Proinsulin-Reactive T Cells from Type 1 Diabetes Patients. PLoS ONE 6(8): e22815. doi:10.1371/journal.pone.0022815
http://nur.nu.edu.kz/handle/123456789/3386
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
PLoS ONE
oai:nur.nu.edu.kz:123456789/33872018-08-20T21:00:39Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T04:43:41Z
urn:hdl:123456789/3387
Exogenous cathepsin G upregulates cell surface MHC class I molecules on immune and glioblastoma cells
Giese, Madleen
Turiello, Nadine
Molenda, Nicole
Palesch, David
Meid, Annika
Schroeder, Roman
Basilico, Paola
Benarafa, Charaf
Halatsch, Marc-Eric
Zimecki, Michal
Westhoff, Mike-Andrew
Rainer Wirtz, Christian
Burster, Timo
cathepsin G
MHC class I
glioblastoma stem cells
lactoferrin
CatG deficient mice
Immunology and Microbiology Section
Immune response
Immunity
Major histocompatibility complex (MHC) class I molecules present antigenic
peptides to cytotoxic T cells. During an adaptive immune response, MHC molecules are
regulated by several mechanisms including lipopolysaccharide (LPS) and interferon
gamma (IFN-g). However, it is unclear whether the serine protease cathepsin G
(CatG), which is generally secreted by neutrophils at the site of inflammation,
might regulate MHC I molecules. We identified CatG, and to a higher extend CatG
and lactoferrin (LF), as an exogenous regulator of cell surface MHC I expression of
immune cells and glioblastoma stem cells. In addition, levels of MHC I molecules
are reduced on dendritic cells from CatG deficient mice compared to their wild type
counterparts. Furthermore, cell surface CatG on immune cells, including T cells, B
cells, and NK cells triggers MHC I on THP-1 monocytes suggesting a novel mechanism
for CatG to facilitate intercellular communication between infiltrating cells and the
respective target cell. Subsequently, our findings highlight the pivotal role of CatG
as a checkpoint protease which might force target cells to display their intracellular
MHC I:antigen repertoire
2018-08-20T04:43:41Z
2018-08-20T04:43:41Z
2016-10-28
Article
Madleen Giese, Nadine Turiello, Nicole Molenda, David Palesch, Annika Meid, Roman Schroeder, Paola Basilico, Charaf Benarafa, Marc-Eric Halatsch, Michal Zimecki, Mike-Andrew Westhoff, Christian Rainer Wirtz and Timo Burste. 2016. Exogenous cathepsin G upregulates cell surface MHC class I molecules on immune and glioblastoma cells. Oncotarget.
http://nur.nu.edu.kz/handle/123456789/3387
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Oncotarget
oai:nur.nu.edu.kz:123456789/33882018-08-20T21:00:42Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T09:06:42Z
urn:hdl:123456789/3388
Characterization of Legumain
Schwarz, Gerold
Brandenburg, Jens
Reich, Michael
Burster, Timo
Driessen, Christoph
Kalbacher, Hubert
Antigen processing
Cysteine endopeptidase
Substrate specificity
The mammalian legumain, also called asparaginyl endopeptidase
(AEP), is critically involved in the processing
of bacterial antigens for MHC class II presentation.
In order to investigate the substrate specificity
of AEP in the P1’ position, we created a peptide library
and digested it with purified pig kidney AEP. Digestion
was less efficient only when proline was in
the P1’ position. Maximum AEP activity was found in
lysosomal fractions of different types of antigen presenting
cells (APC). When the multiple sclerosis-associated
autoantigen myelin basic protein (MBP) was
digested with AEP, the immunodominant epitope
83 – 99 was destroyed. Myoglobin as an alternative
substrate was AEP resistant. These results suggest
an important, but not necessarily critical role for AEP
in lysosomal antigen degradation
2018-08-20T09:06:42Z
2018-08-20T09:06:42Z
2002-11
Article
Gerold Schwarz, Jens Brandenburg, Michael Reich, Timo Burster, Christoph Driessen and Hubert Kalbacher. 2002. Characterization of Legumain. Biological Chemistry. Vol. 383. pp. 1813 – 1816.
http://nur.nu.edu.kz/handle/123456789/3388
en
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Attribution-NonCommercial-ShareAlike 3.0 United States
Biological Chemistry
oai:nur.nu.edu.kz:123456789/33892018-08-20T21:00:45Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T09:06:59Z
urn:hdl:123456789/3389
Lactoferrin Is an Allosteric Enhancer of the Proteolytic Activity of Cathepsin G
Eipper, Steffen
Steiner, Robin
Lesner, Adam
Sienczyk, Marcin
Palesch, David
Halatsch, Marc- Eric
Zaczynska, Ewa
Heim, Christopher
Hartmann, Marcus D.
Zimecki, Michal
Rainer Wirtz, Christian
Burster, Timo
lactoferrin
cathepsin G
Protease-mediated degradation of proteins is critical in a plethora of physiological processes.
Neutrophils secrete serine proteases including cathepsin G (CatG), neutrophile
elastase (NE), and proteinase 3 (PR3) together with lactoferrin (LF) as a first cellular
immune response against pathogens. Here, we demonstrate that LF increases the catalytic
activity of CatG at physiological concentration, with its highest enhancing capacity under
acidic (pH 5.0) conditions, and broadens the substrate selectivity of CatG. On a functional
level, the enzymatic activity of CatG was increased in the presence of LF in granulocytederived
supernatant. Furthermore, LF enhanced CatG-induced activation of platelets as
determined by cell surface expression of CD62P. Consequently, LF-mediated enhancement
of CatG activity might promote innate immunity during acute inflammation.
2018-08-20T09:06:59Z
2018-08-20T09:06:59Z
2016-03-17
Article
Eipper S, Steiner R, Lesner A, Sienczyk M, Palesch D, Halatsch M-E, et al. (2016) Lactoferrin Is an Allosteric Enhancer of the Proteolytic Activity of Cathepsin G. PLoS ONE 11(3): e0151509. doi:10.1371/journal.pone.0151509
http://nur.nu.edu.kz/handle/123456789/3389
en
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Attribution-NonCommercial-ShareAlike 3.0 United States
PLOS ONE
oai:nur.nu.edu.kz:123456789/33912018-08-20T21:00:47Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T09:10:18Z
urn:hdl:123456789/3391
Immune phenotypes predict survival in patients with glioblastoma multiforme
Mostafa, Haouraa
Pala, Andrej
Högel, Josef
Hlavac, Michal
Dietrich, Elvira
Westhoff, M. Andrew
Nonnenmacher, Lisa
Burster, Timo
Georgieff, Michael
Wirtz, C. Rainer
Schneider, E. Marion
Glioblastoma multiforme
CD8+ lymphocytes
NK cells
CD39-ectonucleotidase
Recursive partitioning analysis
Survival
Background: Glioblastoma multiforme (GBM), a common primary malignant brain tumor, rarely disseminates beyond
the central nervous system and has a very bad prognosis. The current study aimed at the analysis of immunological
control in individual patients with GBM.
Methods: Immune phenotypes and plasma biomarkers of GBM patients were determined at the time of diagnosis
using flow cytometry and ELISA, respectively.
Results: Using descriptive statistics, we found that immune anomalies were distinct in individual patients. Defined
marker profiles proved highly relevant for survival. A remarkable relation between activated NK cells and improved
survival in GBM patients was in contrast to increased CD39 and IL-10 in patients with a detrimental course and very
short survival. Recursive partitioning analysis (RPA) and Cox proportional hazards models substantiated the
relevance of absolute numbers of CD8 cells and low numbers of CD39 cells for better survival.
Conclusions: Defined alterations of the immune system may guide the course of disease in patients with GBM
and may be prognostically valuable for longitudinal studies or can be applied for immune intervention.
2018-08-20T09:10:18Z
2018-08-20T09:10:18Z
2016-09-01
Article
Mostafa, H., Pala, A., Högel, J., Hlavac, M., Dietrich, E., Westhoff, M. A., Nonnenmacher, L., Burster, T., Georgieff, M., Wirtz, C. R. & Schneider, E. M. 2016. Immune phenotypes predict survival in patients with glioblastoma multiforme. Journal of Hematology and Oncology. 9, 1, p. 77
http://nur.nu.edu.kz/handle/123456789/3391
en
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Attribution-NonCommercial-ShareAlike 3.0 United States
Journal of Hematology and Oncology
oai:nur.nu.edu.kz:123456789/33902018-08-20T21:00:50Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T09:10:02Z
urn:hdl:123456789/3390
CK1δ in lymphoma: gene expression and mutation analyses and validation of CK1δ kinase activity for therapeutic application
Winkler, B.Sophia
Oltmer, Franziska
Richter, Julia
Bischof, Joachim
Xu, Pengfei
Burster, Timo
Leithäuser, Frank
Knippschild, Uwe
CK1
lymphoma
therapy
inhibitor
mutationanalysis
cellcycle
The prognosis of lymphoid neoplasms has improved considerably during the last decades. However, treatment response for some lymphoid neoplasms is still poor, indicating the need for new therapeutic approaches. One promising new strategy is the inhibition of kinases regulating key signal transduction pathways, which are of central importance in tumorigenesis. Kinases of the CK1 family may represent an attractive drug target since CK1 expression and/or activity are associated with the pathogenesis of malignant diseases. Over the last years efforts were taken to develop highly potent and selective CK1-specific inhibitor compounds and their therapeutic potential has now to be proved in pre-clinical trials. Therefore, we analyzed expression and mutational status of CK1δ in several cell lines representing established lymphoma entities, and also measured the mRNA expression level in primary lymphoma tissue as well as in non-neoplastic blood cells. For a selection of lymphoma cell lines we furthermore determined CK1δ kinase activity and demonstrated therapeutic potential of CK1-specific inhibitors as a putative therapeutic option in the treatment of lymphoid neoplasms
2018-08-20T09:10:02Z
2018-08-20T09:10:02Z
2015-02-20
Article
Winkler, B. S., Oltmer, F., Richter, J., Bischof, J., Xu, P., Burster, T., L00eithäuser, F. & Knippschild, U. 2015. CK1δ in lymphoma: gene expression and mutation analyses and validation of CK1δ kinase activity for therapeutic application. Frontiers in Cell and Developmental Biology. 3, p. 9
http://nur.nu.edu.kz/handle/123456789/3390
en
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Attribution-NonCommercial-ShareAlike 3.0 United States
Frontiers in Cell and Developmental Biology
oai:nur.nu.edu.kz:123456789/33922023-11-11T14:45:20Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-20T09:13:59Z
urn:hdl:123456789/3392
Discovery and Characterization of an Endogenous CXCR4 Antagonist
O., Zirafi
K-A., Kim
L., Ständker
K. B., Mohr
D., Sauter
A., Heigele
S. F., Kluge
E., Wiercinska
D., Chudziak
R., Richter
B., Moepps
P., Gierschik
V., Vas
H., Geiger
M., Lamla
T., Weil
T., Burster
A., Zgraja
F., Daubeuf
N., Frossard
Timo, Burster
Timo, Burster
CXCL12-CXCR4 signaling controls multiple physiological
processes and its dysregulation is associated
with cancers and inflammatory diseases. To
discover as-yet-unknown endogenous ligands of
CXCR4, we screened a blood-derived peptide library
for inhibitors of CXCR4-tropic HIV-1 strains.
This approach identified a 16 amino acid fragment
of serum albumin as an effective and highly specific
CXCR4 antagonist. The endogenous peptide, termed
EPI-X4, is evolutionarily conserved and generated
from the highly abundant albumin precursor by
pH-regulated proteases. EPI-X4 forms an unusual
lasso-like structure and antagonizes CXCL12-induced
tumor cell migration, mobilizes stem cells,
and suppresses inflammatory responses in mice.
Furthermore, the peptide is abundant in the urine
of patients with inflammatory kidney diseases and
may serve as a biomarker. Our results identify EPIX4
as a key regulator of CXCR4 signaling and introduce
proteolysis of an abundant precursor protein
as an alternative concept for chemokine receptor
regulation.
2018-08-20T09:13:59Z
2018-08-20T09:13:59Z
2015-05-05
Article
Zirafi, O. , Kim, K-A. , Ständker, L. , Mohr, K. B. , Sauter, D. , Heigele, A. , Kluge, S. F. , Wiercinska, E. , Chudziak, D. , Richter, R. , Moepps, B. , Gierschik, P. , Vas, V. , Geiger, H. , Lamla, M. , Weil, T. , Burster, T. , Zgraja, A. , Daubeuf, F. , Frossard, N. 2015. Discovery and Characterization of an Endogenous CXCR4 Antagonist. Cell Reports. 11, 5, p. 737-47 11 p.
http://nur.nu.edu.kz/handle/123456789/3392
en
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Attribution-NonCommercial-ShareAlike 3.0 United States
Cell Reports
oai:nur.nu.edu.kz:123456789/34032018-08-25T21:00:37Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2018-08-25T02:42:13Z
urn:hdl:123456789/3403
CFD Modeling of Chamber Filling in a Micro- Biosensor for Protein Detection
Islamov, Meiirbek
Sypabekova, Marzhan
Kanayeva, Damira
Rojas-Solórzano, Luis
tuberculosis
biosensor
microfluidic cell
multiphase flow
Computational Fluid Dynamics
ANSYS-CFX
Tuberculosis (TB) remains one of the main causes of human death around the globe. The
mortality rate for patients infected with active TB goes beyond 50% when not diagnosed. Rapid and
accurate diagnostics coupled with further prompt treatment of the disease is the cornerstone for
controlling TB outbreaks. To reduce this burden, the existing gap between detection and treatment
must be addressed, and dedicated diagnostic tools such as biosensors should be developed. A
biosensor is a sensing micro-device that consists of a biological sensing element and a transducer
part to produce signals in proportion to quantitative information about the binding event. The
micro-biosensor cell considered in this investigation is designed to operate based on aptamers as
recognition elements against Mycobacterium tuberculosis secreted protein MPT64, combined in a
microfluidic-chamber with inlet and outlet connections. The microfluidic cell is a miniaturized
platform with valuable advantages such as low cost of analysis with low reagent consumption,
reduced sample volume, and shortened processing time with enhanced analytical capability. The
main purpose of this study is to assess the flooding characteristics of the encapsulated microfluidic
cell of an existing micro-biosensor using Computational Fluid Dynamics (CFD) techniques. The
main challenge in the design of the microfluidic cell lies in the extraction of entrained air bubbles,
which may remain after the filling process is completed, dramatically affecting the performance of
the sensing element. In this work, a CFD model was developed on the platform ANSYS-CFX using
the finite volume method to discretize the domain and solving the Navier–Stokes equations for both
air and water in a Eulerian framework. Second-order space discretization scheme and second-order
Euler Backward time discretization were used in the numerical treatment of the equations. For a
given inlet–outlet diameter and dimensions of an in-house built cell chamber, different inlet liquid
flow rates were explored to determine an appropriate flow condition to guarantee an effective
venting of the air while filling the chamber. The numerical model depicted free surface waves as
promoters of air entrainment that ultimately may explain the significant amount of air content in
the chamber observed in preliminary tests after the filling process is completed. Results
demonstrated that for the present design, against the intuition, the chamber must be filled with
liquid at a modest flow rate to minimize free surface waviness during the flooding stage of the
chamber.
2018-08-25T02:42:13Z
2018-08-25T02:42:13Z
2017-10
Article
Meiirbek Islamov, Marzhan Sypabekova, Damira Kanayeva, Luis Rojas-Solórzano. 2017. CFD Modeling of Chamber Filling in a Micro- Biosensor for Protein Detection. Biosensors
http://nur.nu.edu.kz/handle/123456789/3403
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Biosensors
oai:nur.nu.edu.kz:123456789/35152021-02-05T07:15:16Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T04:30:02Z
urn:hdl:123456789/3515
Application of advanced molecular techniques for analyzing phytoplankton population in Burabay National Nature Park Resort
Sarsembekova, Assel
phytoplankton
Burabay National Nature Park Resort
phytoplankton population
In this work, the molecular techniques as DNA extraction, DNA quantification, PCR analysis were optimized and subsequent sequencing was performed on MiSeq platform (Illumina, USA). We aimed to apply molecular methods to analyse phytoplankton population inhabiting Lake Shortan and Lake Burabay
2018-09-17T04:30:02Z
2018-09-17T04:30:02Z
2016
Master's thesis
Assel Sarsembekova. 2016. Application of advanced molecular techniques for analyzing phytoplankton population in Burabay National Nature Park Resort. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3515
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35162021-02-05T07:15:19Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T05:02:34Z
urn:hdl:123456789/3516
Concentration dependent mitostatic effect and inhibition of cell motibility by different tubulin binding drugs-comparative study
Balabiyev, Arnat
nocodazole
taxol
vinorelbine
mitotic progression
cell motility
Here, we demonstrate the comparative effects of nocodazole, taxol and vinorelbine on mitotic progression and cell motility using mouse fibroblasts and three cancer cell lines
2018-09-17T05:02:34Z
2018-09-17T05:02:34Z
2016
Master's thesis
Arnat Balabiyev. Concentration dependent mitostatic effect and inhibition of cell motibility by different tubulin binding drugs-comparative study. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3516
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35172021-02-05T07:15:22Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T05:16:36Z
urn:hdl:123456789/3517
Morphometric characteristics of cancer cells grown in embryonic microenvironment and under antiviral treatment
Shaimerdenova, Madina
cancer cell lines
cancer
embryonic microenvironment treatment
antiviral treatment
We describe here that both embryonic microenvironment treatment and antiviral treatment have the potential to serve as effective factors in changing morphometric characteristics of two highly aggressive cancer cell lines, with proven capability to decrease viability of cancer cells, reduce amount of colonies formed after treatment, alter intracellular features of cell such as nucleus and cytoskeleton and diminish aldehyde dehydrogenase activity after treatment
2018-09-17T05:16:36Z
2018-09-17T05:16:36Z
2016
Master's thesis
Madina Shaimerdenova. Morphometric characteristics of cancer cells grown in embryonic microenvironment and under antiviral treatment. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3517
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35192021-02-05T07:15:26Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T05:51:11Z
urn:hdl:123456789/3519
Co-expression of FVIII with human IGG FC Fragment or mouse IL-10 in encapsulated G8 myoblast cells as a potential treatment of hemophilia A
Kanketayeva, Zhansaya
FVIII
G8
IL-10
Fc
In this master thesis study we have shown that recombination G8 myoblasts, encapsulated in alginate-PLL microcapsules can successfully secrete detectable levels of both Fc and IL-10 out of the capsules and sustain good viability, showing the potential of co-delivering FVIII by encapsulated cells.
2018-09-17T05:51:11Z
2018-09-17T05:51:11Z
2016
Master's thesis
Zhansaya Kanketayeva. Co-expression of FVIII with human IGG FC Fragment or mouse IL-10 in encapsulated G8 myoblast cells as a potential treatment of hemophilia A. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3519
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35182021-02-05T07:15:28Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T05:50:56Z
urn:hdl:123456789/3518
Role of astrocyte aging in the pathogenesis of Alzheimer`s disease
Imangali, Nurgul
Alzheimer`s disease
In this study we presented in vitro model for replicative senescence of primary human astrocytes isolated from fetal brains
2018-09-17T05:50:56Z
2018-09-17T05:50:56Z
2016
Master's thesis
Nurgul Imangali. Role of astrocyte aging in the pathogenesis of Alzheimer`s disease. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3518
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35202021-02-05T07:15:31Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T06:08:01Z
urn:hdl:123456789/3520
Development of flow cytometry and microscopy techniques to monitor freshwater phytoplankton communities in Kazakhstani lakes
Dashkova, Veronika
freshwater phytoplankton communities
In this project, we tested an approach based on separating fluorescent viability and metabolic dyes between different excitation lasers in order to reach minimal spectral overlap with the autofluorescent signal using flow and imaging cytometry
2018-09-17T06:08:01Z
2018-09-17T06:08:01Z
2016
Master's thesis
Veronika Dashkova. Development of flow cytometry and microscopy techniques to monitor freshwater phytoplankton communities in Kazakhstani lakes. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3520
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35212021-02-05T07:15:34Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-17T08:55:08Z
urn:hdl:123456789/3521
Migration characteristics of cancer cells grown in embryonic microenvironment and under antiviral agents
Karapina, Orynbassar
cancer
cancer cells
embryonic microenvironment
This study describes a method for investigating reprogramming of cancer cells using chicken embryo extract and dimishing cancer cell progressing with acyclovir and it was used as innovative approach to address whether aggressive cancer cells with high potential to proliferate and migrate to distant organs could respond to the treatments, which could control cell fate determination
2018-09-17T08:55:08Z
2018-09-17T08:55:08Z
2016
Master's thesis
Orynbassar Karapina. Migration characteristics of cancer cells grown in embryonic microenvironment and under antiviral agents. 2016. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3521
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/35232021-02-05T07:15:36Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_514
2018-09-21T09:44:26Z
urn:hdl:123456789/3523
Oral administration of chitosan/DNA nanoparticles containing DNA coding for FVIII and FC IgG fragment or IL-10 for the modulation of immune responses to FVIII in hemophilia mice
Yerkesh, Zhadyra
Hemophilia A
FVIII
DNA
Hemophilia A is an X-linked bleeding disorder, which occurs due to deficiency of
clotting protein FVIII. Current treatment involves regular lifelong infusion of
recombinant or plasma-derived FVIII protein, which is suboptimal, invasive and very
expensive. One of the biggest challenges of the current therapy is the recognition of
FVIII by immune system as a foreign substance, leading to the development of
neutralizing antibodies, which makes further administration of FVIII ineffective.
Therefore, an alternative cost effective and safe treatment to Hemophilia A is highly
desirable. We propose chitosan-mediated oral non-viral gene therapy as a safe and costeffective
strategy for immune modulation in severe hemophilia A cases. Having a
strong affinity for DNA and forming nanoparticles, chitosan-DNA complexes protect
plasmid DNA fi-om degradation by the low pH envu-onment of the stomach and from
nucleases in the GI tract; further, safe re-administration of nanoparticles is possible. We
also propose to include in the plasmid DNA coding for the Fc fragment of IgG heavy
chain region, which contains Tregitope sequences, T cell epitopes that specifically
activate regulatory T cells or anti-inflammatory cytokine IL-10 that may modulate the
immune response against FVIII protein. Therefore, it is hypothesized that orally
administered chitosan/DNA nanoparticles will lead to clinically relevant amount of
FVIII in the host without an immune response, providing long term, cost-effective and
safe treatment for hemophilia A.
For this study we aimed to: I) optimize nanoparticles in terms of effective gene
expression in vitro; 2) treat hemophilic mice orally with chitosan nanoparticles
containing DNA coding for FVIII and for immunomodulatory elements (Fc fragment of
IgG and IL-10) to induce tolerance to FVIII. We found that the key factors contributing
to the effectiveness of gene expression in chitosan/DNA nanoparticles are the type of
chitosan, the charge ratio (N/P) and the DNA concentration. In vivo, the optimized
nanoparticles containing FVIII+Fc DNA significantly decreased antibody formation
specific to F V I I I in prophylactic group of mice, and in 4/6 mice receiving nanoparticles
containing FVIII+IL-10. It is tempting to hypothesize that this strategy might also be
extended to modulate immune responses to other antigens.
2018-09-21T09:44:26Z
2018-09-21T09:44:26Z
2016
Master's thesis
Zhadyra Yerkesh. 2016. Oral administration of chitosan/DNA nanoparticles containing DNA coding for FVIII and FC IgG fragment or IL-10 for the modulation of immune responses to FVIII in hemophilia mice. Nazarbayev University. School of Science and Technology
http://nur.nu.edu.kz/handle/123456789/3523
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
Nazarbayev University School of Science and Technology
oai:nur.nu.edu.kz:123456789/38382023-11-11T14:45:19Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2019-04-24T12:04:54Z
urn:hdl:123456789/3838
A Scorpion Defensin BmKDfsin4 Inhibits Hepatitis B Virus Replication in Vitro
Zeng, Zhengyang
Zhang, Qian
Hong, Wei
Xie, Yingqiu
Liu, Yun
Li, Wenxin
Wu, Yingliang
Cao, Zhijian
Markland, Frank S.
HBV
scorpion defensin
antiviral peptide
multifunction
Hepatitis B virus (HBV) infection is a major worldwide health problem which can cause
acute and chronic hepatitis and can significantly increase the risk of liver cirrhosis and primary
hepatocellular carcinoma (HCC). Nowadays, clinical therapies of HBV infection still mainly rely on
nucleotide analogs and interferons, the usage of which is limited by drug-resistant mutation or side
effects. Defensins had been reported to effectively inhibit the proliferation of bacteria, fungi, parasites
and viruses. Here, we screened the anti-HBV activity of 25 scorpion-derived peptides most recently
characterized by our group. Through evaluating anti-HBV activity and cytotoxicity, we found that
BmKDfsin4, a scorpion defensin with antibacterial and Kv1.3-blocking activities, has a comparable
high inhibitory rate of both HBeAg and HBsAg in HepG2.2.15 culture medium and low cytotoxicity
to HepG2.2.15. Then, our experimental results further showed that BmKDfsin4 can dose-dependently
decrease the production of HBV DNA and HBV viral proteins in both culture medium and cell lysate.
Interestingly, BmKDfsin4 exerted high serum stability. Together, this study indicates that the scorpion
defensin BmKDfsin4 also has inhibitory activity against HBV replication along with its antibacterial
and potassium ion channel Kv1.3-blocking activities, which shows that BmKDfsin4 is a uniquely
multifunctional defensin molecule. Our work also provides a good molecule material which will be
used to investigate the link or relationship of its antiviral, antibacterial and ion channel–modulating
activities in the future.
2019-04-24T12:04:54Z
2019-04-24T12:04:54Z
2016-04-27
Article
Zeng, Z.; Zhang, Q.; Hong, W.; Xie, Y.; Liu, Y.; Li, W.; Wu, Y.; Cao, Z. A Scorpion Defensin BmKDfsin4 Inhibits Hepatitis B Virus Replication in Vitro. Toxins 2016, 8, 124.
http://nur.nu.edu.kz/handle/123456789/3838
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
MDPI
oai:nur.nu.edu.kz:123456789/42272019-09-09T21:01:05Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2019-09-09T09:45:12Z
urn:hdl:123456789/4227
A quarter of patients with type 1 diabetes have co-existing non-islet autoimmunity: the findings of a UK population-based family study.
Kozhakhmetova, A
Wyatt, RC
Caygill, C
Williams, C
Long, AE
Chandler, K
Aitken, RJ
Wenzlau, JM
Davidson, HW
Gillespie, KM
Williams, AJK
HLA; gastric H+/K+-ATPase antibodies; thyroid peroxidase antibodies; tissue transglutaminase antibodies; type 1 diabetes
Individuals with type 1 diabetes (T1D) are at increased risk of coeliac disease (CD), autoimmune thyroiditis and autoimmune gastritis, but the absolute risks are unclear. The aim of this study was to investigate the prevalence of autoantibodies to tissue transglutaminase (TGA), thyroid peroxidase (TPOA) and gastric H+ /K+ -ATPase (ATPA) and their genetic associations in a well-characterized population-based cohort of individuals with T1D from the Bart's-Oxford family study for whom islet autoantibody prevalence data were already available. Autoantibodies in sera from 1072 patients (males/females 604/468; median age 11·8 years, median T1D duration 2·7 months) were measured by radioimmunoassays; HLA class II risk genotype was analysed in 973 (91%) using polymerase chain reaction with sequence specific primers (PCR-SSP). The prevalence of TGA (and/or history of CD), TPOA and ATPA in patients was 9·0, 9·6 and 8·2%, respectively; 3·1% had two or more autoantibodies. Females were at higher risk of multiple autoimmunity; TGA/CD were associated with younger age and TPOA with older age. ATPA were uncommon in patients under 5 years, and more common in older patients. Anti-glutamate decarboxylase autoantibodies were predictive of co-existing TPOA/ATPA. TGA/CD were associated with human leucocyte antigen (HLA) DR3-DQ2, with the DR3-DQ2/DR3-DQ2 genotype conferring the highest risk, followed by DR4-DQ8/DR4-DQ8. ATPA were associated with DR3-DQ2, DRB1*0404 (in males) and the DR3-DQ2/DR4-DQ8 genotype. TPOA were associated with the DR3-DQ2/DR3-DQ2 genotype. Almost one-quarter of patients diagnosed with T1D aged under 21 years have at least one other organ-specific autoantibody. HLA class II genetic profiling may be useful in identifying those at risk of multiple autoimmunity.
2019-09-09T09:45:12Z
2019-09-09T09:45:12Z
2018-03-24
Article
Kozhakhmetova A(1), Wyatt RC(1), Caygill C(1), Williams C(1), Long AE(1), Chandler K(1), Aitken RJ(1), Wenzlau JM(2), Davidson HW(2), Gillespie KM(1), Williams AJK(1). A quarter of patients with type 1 diabetes have co-existing non-islet autoimmunity: the findings of a UK population-based family study. Clin Exp Immunol. 2018 Jun;192(3):251-258. doi: 10.1111/cei.13115. Epub 2018 Mar 24.
http://nur.nu.edu.kz/handle/123456789/4227
en
Clinical and Experimental Immunology
oai:nur.nu.edu.kz:123456789/42282019-09-09T21:01:10Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2019-09-09T09:45:46Z
urn:hdl:123456789/4228
Type 1 Diabetes: Current Perspectives
Kozhakhmetova, A
Gillespie, KM
Autoimmunity; Genes; Insulin; Islet autoantibodies; Type 1 diabetes
Type 1 diabetes, resulting from the autoimmune destruction of insulin producing islet beta cells is caused by genetic and environmental determinants. Recent studies agree that counterintuitively, the major genetic susceptibility factors are decreasing in frequency as the incidence of the condition increases. This suggests a growing role for environmental determinants but these have been difficult to identify and our understanding of gene/environment effects are limited. Individuals "at-risk" can be identified accurately through the presence of multiple islet autoantibodies and current efforts in type 1 diabetes research focus on improved biomarkers and strategies to prevent or reverse the condition through immunotherapy.
2019-09-09T09:45:46Z
2019-09-09T09:45:46Z
2016
Book chapter
Kozhakhmetova A(1), Gillespie KM(2). Type 1 Diabetes: Current Perspectives. Methods Mol Biol. 2016;1433:1-9. doi: 10.1007/7651_2015_289.
http://nur.nu.edu.kz/handle/123456789/4228
en
Methods in Molecular Biology
oai:nur.nu.edu.kz:123456789/42292019-09-09T21:01:22Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2019-09-09T10:14:37Z
urn:hdl:123456789/4229
Autoantibodies to tissue transglutaminase target epitopes dependent on residues in the N-terminal domain
Kozhakhmetova, A
Wyatt, R
Elvers, K
Emery, D
Williams, C
Annis, P
Lampasona, V
Gillespie, K
Williams, A
Tissue transglutaminase, autoantibodies, epitopes, site-directed mutagenesis, radioimmunoassay
INTRODUCTION: Tissue transglutaminase (tTG), is the main autoantigen of coeliac disease (CD). Specific tTG epitopes, including N-and C-terminal sites as well as the catalytic triad, have been reported to be targeted by autoantibodies in CD, but the findings are controversial. We aimed to confirm which of the tTG sites, catalytic core, C- or N-terminus, are critical for antibody binding as this could aid the design of more specific assays and inform studies of disease pathogenesis. METHODS: Plasmid DNA encoding human tTG was mutated at sites in the catalytic core (Cys277, His335, Asp358 to alanine), N- (Arg19, Glu153 to serine) and C-terminal domains (Met659 to serine) using PAGE-purified mutagenic primers.
Antibody binding to a panel of 35S-labelled tTG mutant antigens synthesized in vitro was assessed by radioimmunoassay in sera from 111 TGA-positive individuals (mean age 40 years, range 1.1-80 years) out of 445 patients sent for measurement of CD-associated autoantibodies to the Cork University Hospital, Eire. Wilcoxon signed-ranks test (SPSS) was used for statistical analysis. RESULTS: Showed that single mutation of catalytic core amino acids C277A, D358A, H335A had little effect on the relative binding (RB) of antibodies to antigen compared with native tTG (median RB; p-values: 100%; 0.723, 93%; 6.1E-5, 106%; 0.019, respectively for each mutant, while the triple Cys277/His335/Asp358 mutation slightly decreased RB (85%; 3.7E-16). Single mutation of the N-terminal amino acids, Arg19 or Glu153, elicited significantly decreased RB in ≥90% of sera (66%; 4.2E-17, 76%; 1.0E-11, respectively), as well as for the double Arg19/Glu153 (48%; 3.1E-17) and triple Arg19/Glu153/Met659 (48%; 1.1E—15) mutants. Mutation of Met659 alone had a variable effect, decreasing binding in others (102%; 0.004). The combined Cys277/His335/Asp358 and Arg19/Glu153/Met659 tTG mutations reduced binding in 96% of sera (60%; 2.2E-19). DISCUSSION: The N-terminal domain of tTG involving amino acids Arg19 and Glu153 is important to the integrity of tTG autoantibody epitopes in CD. Simultaneous mutation of these two amino acids has the highest impact on antibody-binding to tTG, while modifying catalytic core previously reported as being important, had little effect on binding. Effect of C-terminal mutation is more variable. These findings suggest that a major epitope is located in the N-terminal, but additional regions of the antigen are likely to contribute to antibody-binding. Characterization of mechanisms and epitopes involved in anti-tTG autoimmunity is important for development of targeted therapeutic manipulations in CD patients or at-risk individuals.
2019-09-09T10:14:37Z
2019-09-09T10:14:37Z
2017-03-24
Abstract
A Kozhakhmetova, R Wyatt, K Elvers, D Emery, C Williams, P Annis, V Lampasona, K Gillespie, A Williams. Autoantibodies to tissue transglutaminase target epitopes dependent on residues in the N-terminal domain. Coeliac UK Research Conference, 24 March 2017, London, UK
http://nur.nu.edu.kz/handle/123456789/4229
en
Coeliac UK's Research Conference
oai:nur.nu.edu.kz:123456789/44352019-12-12T21:02:06Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2019-12-12T08:17:12Z
urn:hdl:123456789/4435
Genetic Diversity of Brucella melitensis in Kazakhstan in Relation to World-Wide Diversity
Shevtsova, Elena
Vergnaud, Gilles
Shevtsov, Alexandr
Shustov, Alexandr
Berdimuratova, Kalysh
Mukanov, Kasim
Syzdykov, Marat
Kuznetsov, Andrey
Lukhnova, Larissa
Izbanova, Uinkul
Filipenko, Maxim
Ramankulov, Yerlan
We describe the genetic diversity of 1327 Brucella strains from human patients in Kazakhstan using multiple-locus variable-number tandem repeat (VNTR) analysis (MLVA). All strains were assigned to the Brucella melitensis East Mediterranean group and clustered into 16 MLVA11 genotypes, nine of which are reported for the first time. MLVA11 genotype 116 predominates (86.8%) and is present all over Kazakhstan indicating existence and temporary preservation of a "founder effect" among B. melitensis strains circulating in Central Eurasia. The diversity pattern observed in humans is highly similar to the pattern previously reported in animals. The diversity observed by MLVA suggested that the epidemiological status of brucellosis in Kazakhstan is the result of the introduction of a few lineages, which have subsequently diversified at the most unstable tandem repeat loci. This investigation will allow to select the most relevant strains for testing these hypotheses via whole genome sequencing and to subsequently adjust the genotyping scheme to the Kazakhstan epidemiological situation.
2019-12-12T08:17:12Z
2019-12-12T08:17:12Z
2019-08-13
Article
Shevtsova, E., Vergnaud, G., Shevtsov, A. B., Shustov, A., Berdimuratova, K., Mukanov, K., ... & Filipenko, M. L. (2019). Genetic diversity of Brucella melitensis in Kazakhstan in relation to world-wide diversity. Frontiers in microbiology, 10, 1897.
http://nur.nu.edu.kz/handle/123456789/4435
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
FRONTIERS MEDIA SA
oai:nur.nu.edu.kz:123456789/45652020-03-31T21:00:25Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2020-03-31T05:14:38Z
urn:hdl:123456789/4565
Characterization of biochemical properties of an apurinic/apyrimidinic endonuclease from Helicobacter pylori
Turgimbayeva, Aigerim
Abeldenov, Sailau
Zharkov, Dmitry O.
Ishchenko, Alexander A.
Ramankulov, Yerlan
Saparbaev, Murat
Khassenov, Bekbolat
Helicobacter pylori
Apurinic/apyrimidinic (AP) endonucleases play critical roles in the repair of abasic sites and strand breaks in DNA. Complete genome sequences of Helicobacter pylori reveal that this bacterial specie has a single AP endonuclease. An H. pylori homolog of Xth (HpXth) is a member of exonuclease III family, which is represented by Escherichia coli Xth. Currently, it remains unknown whether this single AP endonuclease has DNA repair activities similar to those of its counterpart in E. coli and other bacteria. We report that HpXth possesses efficient AP site cleavage, 3’-repair phosphodiesterase, and 3’-phosphatase activities but not the nucleotide incision repair function...
2020-03-31T05:14:38Z
2020-03-31T05:14:38Z
2018-08-15
Article
Turgimbayeva A, Abeldenov S, Zharkov DO, Ishchenko AA, Ramankulov Y, Saparbaev M, et al. (2018) Characterization of biochemical properties of an apurinic/apyrimidinic endonuclease from Helicobacter pylori. PLoS ONE 13(8): e0202232. https://doi.org/10.1371/journal.pone.0202232
http://nur.nu.edu.kz/handle/123456789/4565
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
PLoS ONE
oai:nur.nu.edu.kz:123456789/45932020-05-04T21:00:31Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2020-05-04T10:26:06Z
urn:hdl:123456789/4593
InCoB2013 introduces Systems Biology as a major conference theme
Schönbach, Christian
Shen, Bairong
Tan, Tin Wee
Ranganathan, Shoba
Asia-Pacific Bioinformatics Network
APBioNet
International conference on Translational Biomedical Informatics
ICTBI
Research Subject Categories::NATURAL SCIENCES::Biology
The Asia-Pacific Bioinformatics Network (APBioNet) held the first International Conference on Bioinformatics (InCoB) in Bangkok in 2002 to promote North-South networking. Commencing as a forum for Asia-Pacific researchers to interact with and learn from with scientists of developed countries, InCoB has become a major regional bioinformatics conference, with participants from the region as well as North America and Europe. Since 2006, InCoB has selected the best submissions for publication in BMC Bioinformatics. In response to the growth and maturation of data-driven approaches, InCoB added BMC Genomics in 2009 and with the introduction of this conference supplement, BMC Systems Biology to its journal choices for submitting authors. Co-hosting InCoB2013 with the second International Conference for Translational Bioinformatics (ICTBI) is in line with InCoB's support for the current trend in taking bioinformatics to the bedside, along with a systems approach to solving biological problems.
2020-05-04T10:26:06Z
2020-05-04T10:26:06Z
2013-09
Article
Schönbach, C., Shen, B., Tan, T., & Ranganathan, S. (2013). InCoB2013 introduces Systems Biology as a major conference theme. BMC Systems Biology, 7(Suppl 3), S1. https://doi.org/10.1186/1752-0509-7-s3-s1
1752-0509
10.1186/1752-0509-7-S3-S1
https://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0509-7-S3-S1
https://doi.org/10.1186/1752-0509-7-S3-S1
http://nur.nu.edu.kz/handle/123456789/4593
en
BMC Systems Biology;Volume 7 Supplement 3
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC
oai:nur.nu.edu.kz:123456789/48172020-06-26T21:00:45Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2020-06-26T11:03:52Z
urn:hdl:123456789/4817
GIW and InCoB, two premier bioinformatics conferences in Asia with a combined 40 years of history
Schönbach, Christian
Horton, Paul
Yiu, Siu Ming
Tan, Tin Wee
Ranganathan, Shoba
Research Subject Categories::NATURAL SCIENCES::Biology
International Conference on Bioinformatics
InCoB
GIW
Asia-Pacific Bioinformatics Network
APBioNet
Knowledge discovery in bioinformatics thrives on joint and inclusive efforts of stakeholders. Similarly, knowledge dissemination is expected to be more effective and scalable through joint efforts. Therefore, the International Conference on Bioinformatics (InCoB) and the International Conference on Genome Informatics (GIW) were organized as a joint conference for the first time in 13 years of coexistence. The Asia-Pacific Bioinformatics Network (APBioNet) and the Japanese Society for Bioinformatics (JSBi) collaborated to host GIW/InCoB2015 in Tokyo, September 9-11, 2015. The joint endeavour yielded 51 research articles published in seven journals, 78 poster and 89 oral presentations, showcasing bioinformatics research in the Asia-Pacific region. Encouraged by the results and reduced organizational overheads, APBioNet will collaborate with other bioinformatics societies in organizing co-located bKnowledge discovery in bioinformatics thrives on joint and inclusive efforts of stakeholders. Similarly, knowledge dissemination is expected to be more effective and scalable through joint efforts. Therefore, the International Conference on Bioinformatics (InCoB) and the International Conference on Genome Informatics (GIW) were organized as a joint conference for the first time in 13 years of coexistence. The Asia-Pacific Bioinformatics Network (APBioNet) and the Japanese Society for Bioinformatics (JSBi) collaborated to host GIW/InCoB2015 in Tokyo, September 9-11, 2015. The joint endeavour yielded 51 research articles published in seven journals, 78 poster and 89 oral presentations, showcasing bioinformatics research in the Asia-Pacific region. Encouraged by the results and reduced organizational overheads, APBioNet will collaborate with other bioinformatics societies in organizing co-located bioinformatics research and training meetings in the future. InCoB2016 will be hosted in Singapore, September 21-23, 2016.ioinformatics research and training meetings in the future. InCoB2016 will be hosted in Singapore, September 21-23, 2016.
2020-06-26T11:03:52Z
2020-06-26T11:03:52Z
2015
Article
Schönbach, C., Horton, P., Yiu, S.-M., Tan, T. W., & Ranganathan, S. (2015). GIW and InCoB, two premier bioinformatics conferences in Asia with a combined 40 years of history. BMC Genomics, 16(S12). https://doi.org/10.1186/1471-2164-16-s12-i1
1471-2164
https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-16-S12-I1
https://doi.org/10.1186/1471-2164-16-S12-I1
http://nur.nu.edu.kz/handle/123456789/4817
en
BMC Genomics;
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC
oai:nur.nu.edu.kz:123456789/48192020-06-26T21:00:48Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2020-06-22T11:16:12Z
urn:hdl:123456789/4819
InCoB2014: Mining Biological Data From Genomics for Transforming Industry and Health
Schönbach, Christian
Tan, Tin Wee
Ranganathan, Shoba
Research Subject Categories::NATURAL SCIENCES::Biology
International Conference on Bioinformatics
InCoB2014
mining biological data
genomics
The 13th International Conference on Bioinformatics (InCoB2014) was held for the first time in Australia, at Sydney, July 31-2 August, 2014. InCoB is the annual scientific gathering of the Asia-Pacific Bioinformatics Network (APBioNet), hosted since 2002 in the Asia-Pacific region. Of 106 full papers submitted to the BMC track of InCoB2014, 50 (47.2%) were accepted in BMC Bioinformatics, BMC Genomics and BMC Systems Biology supplements, with three papers in a new BMC Medical Genomics supplement. While the majority of presenters and authors were from Asia and Australia, the increasing number of US and European conference attendees augurs well for the international flavour of InCoB. Next year's InCoB will be held jointly with the Genome Informatics Workshop (GIW), September 9-11, 2015 in Tokyo, Japan, with a view to integrate bioinformatics communities in the region.
2020-06-22T11:16:12Z
2020-06-22T11:16:12Z
2014
Article
Schönbach, C., Tan, T., & Ranganathan, S. (2014). InCoB2014: mining biological data from genomics for transforming industry and health. BMC Genomics, 15(Suppl 9), I1. https://doi.org/10.1186/1471-2164-15-s9-i1
1471-2164
https://doi.org/10.1186/1471-2164-15-S9-I1
https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-S9-I1
http://nur.nu.edu.kz/handle/123456789/4819
en
BMC Genomics;
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
BMC
oai:nur.nu.edu.kz:123456789/58282021-09-20T21:00:38Zcom_123456789_434com_123456789_70com_123456789_67col_123456789_435
2021-09-20T07:14:42Z
urn:hdl:123456789/5828
INVOLVEMENT OF 3′,5′-CYCLIC INOSINE MONOPHOSPHATE IN CYSTATHIONINE Γ-LYASE-DEPENDENT REGULATION OF THE VASCULAR TONE
Mitidieri, Emma
Vellecco, Valentina
Brancaleone, Vincenzo
Vanacore, Domenico
Manzo, Onorina L.
Martin, Emil
Sharina, Iraida
Krutsenko, Yekaterina
Monti, Maria Chiara
Morretta, Elva
Papapetropoulos, Andreas
Caliendo, Giuseppe
Frecentese, Francesco
Cirino, Giuseppe
Sorrentino, Raffaella
Bianca, Roberta d'Emmanuele di Villa
Bucci, Mariarosaria
Type of access: Open Access
l-cysteine donors
l-cysteine or hydrogen sulfide (H2S) donors induce a biphasic effect on precontracted isolated vessels. The contractile effect occurs within a concentration range of 10 nM to 3 μM followed by vasodilatation at 30–100 μM. Here, we have investigated the signalling involved in the H2S-induced contraction.
2021-09-20T07:14:42Z
2021-09-20T07:14:42Z
2021-04-30
Article
Mitidieri, E., Vellecco, V., Brancaleone, V., Vanacore, D., Manzo, O. L., Martin, E., Sharina, I., Krutsenko, Y., Monti, M. C., Morretta, E., Papapetropoulos, A., Caliendo, G., Frecentese, F., Cirino, G., Sorrentino, R., d’Emmanuele Di Villa Bianca, R., & Bucci, M. (2021). Involvement of 3′,5′‐cyclic inosine monophosphate in cystathionine γ‐lyase‐dependent regulation of the vascular tone. British Journal of Pharmacology, 178(18), 3765–3782. https://doi.org/10.1111/bph.15516
http://nur.nu.edu.kz/handle/123456789/5828
en
http://creativecommons.org/licenses/by-nc-sa/3.0/us/
Attribution-NonCommercial-ShareAlike 3.0 United States
British Journal of Pharmacology