Dissection of a complex transcriptional response using genome‐wide transcriptional modelling by Martino Barenco, Daniel Brewer, Efterpi Papouli, Daniela Tomescu, Robin Callard, Jaroslav Stark, Michael Hubank

“…We examined the transcriptional response to DNA damage in a human T cell line (MOLT4) using microarrays. By measuring both mRNA accumulation and degradation over a short time course, we were able to construct a mechanistic model of the transcriptional response. …”
Get full text

Genome-wide profiling of micro-RNA expression in gefitinib-resistant human lung adenocarcinoma using microarray for the identification of miR-149-5p modulation by Yong Hu, Xiaobing Qin, Dali Yan, Haixia Cao, Leilei Zhou, Fan Fan, Jialan Zang, Jie Ni, Xiaoyue Xu, Huanhuan Sha, Siwen Liu, Shaorong Yu, Jianzhong Wu, Rong Ma, Jifeng Feng

“…We compared the micro-RNA expression profiles of the HCC827 cells HCC827/GR-8-1 using Agilent micro-RNA microarrays. The micro-RNAs, such as the miR-149-5p, were up- or downregulated and associated with acquired gefitinib resistance. …”
Get full text

QCanvas: An Advanced Tool for Data Clustering and Visualization of Genomics Data by Nayoung Kim, Herin Park, Ningning He, Hyeon Young Lee, Sukjoon Yoon

Get full text

A practical distribution pattern of α-SMA-positive carcinoma associated fibroblasts indicates poor prognosis of patients with pancreatic ductal adenocarcinoma by Bo Li, Meilong Shi, Yang Wang, Penghao Li, Xiaoyi Yin, Guoxiao Zhang, Xiaochao Kang, Huan Wang, Suizhi Gao, Kailian Zheng, Xiaohan Shi, Xiongfei Xu, Yukun Zhou, Hui Jiang, Wei Jing, Shiwei Guo, Gang Jin

“…We utilized a tissue microarray to assess the spatial intensity of α-SMA expression within the tumor microenvironment. …”
Get full text

A Versatile High‐Throughput Single‐Cell Screening Platform for Profiling Antigen‐Specific Long‐Lived B Cells in Blood and Bone Marrow by Tian Zhao, Yuqing Lei, Chang Liu, Dong Zhang, Kaiyi Li, Sisi Shan, Chenyu Li, Zimeng Wei, Yuhan Yang, Ting Zhang, Kai Sun, Haoran Sun, Linqi Zhang, Peng Liu

Get full text

Tissue‐based quantitative proteomics to screen and identify the potential biomarkers for early recurrence/metastasis of esophageal squamous cell carcinoma by Xu‐Wei Cai, Wei‐Wei Yu, Wen Yu, Qin Zhang, Wen Feng, Mi‐Na Liu, Meng‐Hong Sun, Jia‐Qing Xiang, Ya‐Wei Zhang, Xiao‐Long Fu

“…Thirteen proteins were selected by cutoff value of 0.67 fold for underexpression and 1.5‐fold for overexpression. …”
Get full text

Investigation of local corrosion behavior and mechanism for TA2/HAl77-2/316L SS coupling systems under seawater liquid film by Hong Ju, Hanzhi Li, Lu Fang, Haitong Lu, Yifan Wei

“…Local corrosion parameters, such as the maximum potential difference (ΔEmax), the maximum anode current density (Ia,max), the local corrosion intensity factor (LCII), and the cathode to anode area ratio (Sc/Sa) were obtained to quantitatively characterize the local corrosion degree of microarray electrodes. The results showed that HAl77-2 and most of the 316L SS electrode wires in the microarray electrodes served as anodes, while TA2 and the remainder of the 316L SS electrode wires performed as cathodes. …”
Get full text

Transcriptional responses in different mouse models of septic liver injury differ from those in patients with septic liver injury by Qin Yan, Qin Yan, Qin Yan, Wei Fan, Wei Fan, Wei Fan, Xinsen He, Xinsen He, Xinsen He, Shi Zheng, Shi Zheng, Shi Zheng, Xiaolin Zhong, Xiaolin Zhong, Xiaolin Zhong

Get full text

Differential gene expression analysis in patients with primary hyperhidrosis by Ting Pu, Muhammad Ameen Jamal, Muhammad Nauman Tahir, Salman Ullah, Maher Un Nisa Awan, Asif Shahzad, Faisal Mahmood

“…Based on the highest expression of ITPR2 in hyperhidrosis, it was selected for PCR amplification as well as sequencing. …”
Get full text

SINGLE NUCLEOTIDE POLYMORPHISMS IN BREAST TUMOR AND EXPRESSION OF ABC-TRANSPORTERS AFTER NEOADJUVANT CHEMOTHERAPY by M. M. Tsyganov, M. K. Ibragimova, E. M. Slonimskaya, N. V. Cherdyntseva, N. V. Litviakov

“…Using a quantitative Real-time PCR, the expression of 4 multidrug resistence (MDR) genes (ABCB1, ABCC1, ABCC2, ABCG2) was studied in surgical samples after NAC. Microarray analysis was performed using high density DNA microarrays, which contain more than 750.000 SNPs. …”
Get full text

Search for polymorphic variants of candidate genes contributing to individual radiosensitivity by D. S. Isubakova, N. V. Litviakov, O. S. Tsymbal, T. V. Usova, M. Yu. Tsyplenkova, I. V. Milto, R. M. Takhauov

“…DNA was genotyped using 257 SNPs of cyclin genes and neighboring intergenic regions using DNA microarrays from the high-density CytoScan HD Array (Affymetrix, USA).Results. …”
Get full text

Role of transcriptomics in the study of oral cancer by Prabhu Manickam Natarajan, Vidhya Rekha Umapathy

“…We delve into RNA sequencing (RNA-seq), single-cell RNA sequencing (scRNA-seq), long non-coding RNA sequencing (lncRNA-seq), microarray analysis, and small RNA profiling, showcasing their unique contributions to unraveling the complexities of oral cancer. …”
Get full text

Exposing Optimal Feature Sets for Enhancing Machine Learning Performance by Hiba Mohammed Al-Marwai, Ghaleb H. Al-Gaphari, Mohammed Mohammed Zayed

“…The opposition based learning (OBL) technique is used to mitigate the risk of CSA converging towards local optima. To evaluate the effectiveness of our approach, we conduct experiments on benchmark microarray datasets from the ADNI database. …”
Get full text

Rapid Whole-Genome Sequencing in Critically Ill Infants and Children with Suspected, Undiagnosed Genetic Diseases: Evolution to a First-Tier Clinical Laboratory Test in the Era of... by Rina Kansal

Get full text

Structure preserving t-SNE of matrix framed data by Soohyun Ahn, Johan Lim, Wei Jiang, Sungim Lee, Xinlei Wang

Get full text

Genetic testing for diagnosing neurodevelopmental disorders and epilepsy: a systematic review and meta-analysis by Yu-Ming Chang, Yen-Ta Huang, Pei-Chun Lai

“…Abstract Background Identifying the genetic causes of neurodevelopmental disorders (NDDs) and epilepsy is crucial for effective treatment and genetic counseling. Our objective was to determine the diagnostic yield of chromosomal microarray (CMA) and next-generation sequencing (NGS) methods—including targeted sequencing (TS), whole-exome sequencing (WES), and whole-genome sequencing (WGS)—in individuals with NDDs or epilepsy. …”
Get full text

Successful strategy of comprehensive pre-implantation genetic testing for Duchenne muscular dystrophy and chromosome balance using karyomapping and fluorescent PCR by Suchada Mongkolchaipak, Sirivipa Piyamongkol, Chutithep Teekaput, Rungthiwa Sirapat, Wanwisa Suriya, Tawiwan Pantasri, Theera Tongsong, Wirawit Piyamongkol

Get full text

Protein-specific immune response elicited by the Shigella sonnei 1790GAHB GMMA-based candidate vaccine in adults with varying exposure to Shigella by Arlo Z. Randall, Valentino Conti, Usman Nakakana, Xiaowu Liang, Andy A. Teng, Antonio Lorenzo Di Pasquale, Melissa Kapulu, Robert Frenck, Odile Launay, Pietro Ferruzzi, Antonella Silvia Sciré, Elisa Marchetti, Christina Obiero, Jozelyn V. Pablo, Joshua Edgar, Philip Bejon, Adam D. Shandling, Joseph J. Campo, Angela Yee, Laura B. Martin, Audino Podda, Francesca Micoli

“…An ideal vaccine would provide protection against the most prevalent species, Shigella flexneri and Shigella sonnei; therefore, it could be relevant to identify common antigens. We developed a microarray containing 3,150 full-length or fragmented proteins selected across Shigella species. …”
Get full text

Identification of potential biomarkers and pathways related to major depressive disorder by integrated bioinformatic analysis and experimental validation by Ying Zeng, Lu-Qi Peng, Mei Zhang, Rong Zhong, Ke-Chao Nie, Wei Huang

“…Objective: To identify promising biomarkers for the pathogenesis of major depressive disorder (MDD). Methods: Microarray chips of MDD patients, including the GSE98793, GSE52790, and GSE39653 datasets, were obtained from the Gene Expression Omnibus database. …”
Get full text

Expression of long non-coding RNA in patients with non-IgA mesangial proliferative glomerulonephritis by CONG Shan, SUI Wei-guo, ZOU Gui-mian, XUE Wen, LI Huan, YAN Qiang, CHEN Jie-jing, LUO Ya-dan, CHEN Huai-zhou

“…Objective To study differential expression profile of mRNA and long non-coding RNA(IncRNA) through microarray analysis between non-IgA mesangial proliferative glomerulonephritis(MsPGN) patients and the controls,and then explore the potential role of IncRNA in the pathogenesis of non-IgA MsPGN.Methods Through simple random sampling,4 patients with non-IgA MsPGN and 2 controls were selected as disease group and control group,respectively.Renal cortical tissues from two groups were collected.Total RNA was extracted,quantified and prepared to ds-cDNA through reverse transcription ds-cDNA was labeled with NimbleGen one-color DNA labeling kit and used for array hybridization.All experimental data were processed through GO analysis,Pathway analysis and the gene loci correlation analysis of mRNA and IncRNA.Some IncRNAs that were closely related to non-IgA MsPGN were screened out.Finally,part of the array results was detected by PCR to verify the reliability of array test Results By fold change filtering,4317 differentially expressed mRNAs and 3502 differentially expressed IncRNAs were screened out.Five IncRNAs were found to play potential roles in the pathogenesis of non-IgA MsPGN:AF1180924(close to coding gene FGG),AK092233(close to coding gene COL18A1),AK130579(close to coding gene CREBBP),AK023598(close to coding gene LEPR),and AK055915(close to coding gene CDC42EP3).These results provided an important basis for revealing the pathogenesis of non-IgA MsPGN.Conclusions Some IncRNAs can potentially regulate related genes and plays an important role in the pathogenesis and development of non-IgA MsPGN.…”
Get full text