Identification of Gene Modules Associated with Low Temperatures Response in Bambara Groundnut by Network-Based Analysis. by Venkata Suresh Bonthala, Katie Mayes, Joanna Moreton, Martin Blythe, Victoria Wright, Sean Tobias May, Festo Massawe, Sean Mayes, Jamie Twycross

“…Therefore, in this study we developed a computational pipeline to identify and analyze the genes and gene modules associated with low temperature stress responses in bambara groundnut using the cross-species microarray technique (as bambara groundnut has no microarray chip) coupled with network-based analysis. …”
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Identification of Potential Therapeutic Targets in the Liver of Pioglitazone-Treated Type 2 Diabetes Sprague-Dawley Rats via Expression Profile Chip and iTRAQ Assay by Zhong-Xia Lu, Wen-Jun Xu, Yang-Sheng Wu, Chang-Yu Li, Yi-Tao Chen

“…After treatment with pioglitazone for 11 weeks, the effects on fasting blood glucose, body weight, and blood biochemistry parameters were evaluated. …”
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Molecular characterization of adipose tissue in the African elephant (Loxodonta africana). by Emeli M Nilsson, Hernan P Fainberg, Siew S Choong, Thomas C Giles, James Sells, Sean May, Fiona J Stansfield, William R Allen, Richard D Emes, Alison Mostyn, Nigel P Mongan, Lisa Yon

“…RNA was extracted and histological sections created and analyzed by microarray, PCR and immunohistochemistry respectively. …”
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Clustering, Pathway Enrichment, and Protein-Protein Interaction Analysis of Gene Expression in Neurodevelopmental Disorders by Ruchi Yadav, Prachi Srivastava

“…In this study, we have used four samples of microarray neuronal developmental data: control, RV (resveratrol), NGF (nerve growth factor), and RV + NGF. …”
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Long-term expansion of basal cells and the novel differentiation methods identify mechanisms for switching Claudin expression in normal epithelia by Akihito Inoko, Norihito Soga, Minako Suzuki, Tohru Kiyono, Junichi Ikenouchi, Takahiro Kojima, Yoshikatsu Sato, Daisuke Saito, Tatsuo Miyamoto, Naoki Goshima, Hideaki Ito, Kenji Kasai

“…To verify this differentiation-switching technique, we obtained microarray data comparing each differentiation state. …”
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Genetic correlation between fetal nuchal translucency thickening and cystic hygroma and exploration of pregnancy outcome by Jianli Zheng, Tiantian Wang, Huilin Sun, Yongjuan Guan, Fangfang Yang, Jing Wu, Feifei Ying, Yadong Fu, Min Li, Jianbing Liu

“…Abnormalities in chromosomal number were detected in 28 of 215 samples, with a detection rate of 13.0%, and pCNVs were detected in 12 cases, with a detection rate of 5.6%. …”
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Transcriptional changes during hepatic ischemia-reperfusion in the rat. by Valerie Zabala, Joan M Boylan, Paul Thevenot, Anderson Frank, Dewahar Senthoor, Varun Iyengar, Hannah Kim, Ari Cohen, Philip A Gruppuso, Jennifer A Sanders

“…There are few effective targeted strategies to reduce hepatic ischemia-reperfusion (IR) injury, a contributor to poor outcomes in liver transplantation recipients. …”
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Expression and Promoter Analysis of Six Heat Stress-Inducible Genes in Rice by Wirat Rerksiri, Xianwen Zhang, Hairong Xiong, Xinbo Chen

“…Six highly heat responsive genes were identified in rice by microarray data analysis. The qRT-PCR analysis confirmed that the expression of these six genes were highly heat inducible and moderately responded to salt stress, polyethylene glycol, and abscisic acid treatment, but little affected by cold treatment. …”
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Upregulated interleukin‐6 expression contributes to erlotinib resistance in head and neck squamous cell carcinoma by Aditya Stanam, Laurie Love-Homan, Tisha S. Joseph, Madelyn Espinosa-Cotton, Andrean L. Simons

“…Mechanisms of acquired resistance to the EGFR TKI erlotinib was investigated by developing erlotinib‐resistant HNSCC cell lines and comparing their gene expression profiles with their parental erlotinib‐sensitive HNSCC cell lines using microarray analyses and subsequent pathway and network analyses. …”
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Potential application of the bulk RNA sequencing in routine MPN clinics by Shenglong Li, Sanyun Wu, Mingli Xu, Xuedong Li, Xuelan Zuo, Yingying Wang

“…Additionally, data from the microarray datasets [GSE26049, GSE2191] were included in this study. …”
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Transcriptomic profile induced by calcitriol in CaSki human cervical cancer cell line. by Euclides Avila, Luis David Hernández-Monterde, Alberto Cedro-Tanda, Tomas Misael Lizardi-Aguilera, David Barrera, Francisco Vladimir Villegas-Rodriguez, Janice García-Quiroz, Lorenza Díaz, Fernando Larrea

“…We examined the transcriptional changes induced by calcitriol in CaSki cells, a cervical cell line harboring multiple copies of HPV16, the primary causal agent of cervical cancer. Our microarray findings, revealed that calcitriol regulated over 1000 protein-coding genes, exhibiting a predominantly repressive effect on the CaSki cell transcriptome by suppressing twice as many genes as it induced. …”
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MiR-145-5p arrests the cell cycle by modulating SMAD5/cyclin D1 to inhibit gastric cancer progression by Li Wang, Li Wang, Jianghong Guo, Caixia Lv, Luke Kong, Luke Kong, Jing Cui, Zhongshuai Wang, Yuanyuan Guo, Ruirui Jia, Tao Guan, Tao Guan, Baofeng Yu, Feng Li

“…PurposeThis study aimed to explore the dysregulation of miR-145-5p in gastric cancer (GC) and its effects on the proliferation and cell cycle of GC cells, exploring the potential regulatory mechanism of miR-145-5p in GC.MethodsIn this study, the TCGA database combined with Microarray was used to detect differentially expressed microRNA (miRNA) in GC tissues and cells. …”
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The novel long noncoding RNA linc00467 promotes cell survival but is down-regulated by N-Myc. by Bernard Atmadibrata, Pei Y Liu, Nicolas Sokolowski, Lihong Zhang, Matthew Wong, Andrew E Tee, Glenn M Marshall, Tao Liu

“…Moreover, Affymetrix microarray analysis revealed that one of genes significantly up-regulated by linc00467 siRNA was the tumour suppressor gene DKK1. …”
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Epidemiology of group B streptococcal infection in pregnant women and diseased infants in mainland China by Jing Huang, Xin-Zhu Lin, Yao Zhu, Chao Chen

“…Serotype III was the dominant serotype that was observed in GBS isolates. GBS detection and identification has become more commonplace, due to the availability of polymerase chain reaction and DNA microarray technologies. …”
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Signature-based small molecule screening identifies cytosine arabinoside as an EWS/FLI modulator in Ewing sarcoma. by Kimberly Stegmaier, Jenny S Wong, Kenneth N Ross, Kwan T Chow, David Peck, Renee D Wright, Stephen L Lessnick, Andrew L Kung, Todd R Golub

“…<h4>Methods and findings</h4>A gene expression signature for the EWS/FLI off state was determined with microarray expression profiling of Ewing sarcoma cell lines with EWS/FLI-directed RNA interference. …”
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Increased cycling cell numbers and stem cell associated proteins as potential biomarkers for high grade human papillomavirus+ve pre-neoplastic cervical disease. by Maurice Canham, Chara Charsou, June Stewart, Sharon Moncur, Laura Hoodless, Ramya Bhatia, Duanduan Cong, Heather Cubie, Camille Busby-Earle, Alistair Williams, Victoria McLoughlin, John D M Campbell, Kate Cuschieri, Sarah Howie

“…As cancer is increasingly presumed to develop from proliferative, tumour initiating, cancer stem cells (CSCs), and as other oncogenic viruses induce stem cell associated gene expression, we evaluated whether presence of mRNA (detected by qRT-PCR) or proteins (detected by flow cytometry and antibody based proteomic microarray) from stem cell associated genes and/or increased cell proliferation (detected by flow cytometry) could be detected in well-characterised, routinely collected cervical samples from high risk HPV+ve women. …”
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Immune Condition of Colorectal Cancer Patients Featured by Serum Chemokines and Gene Expressions of CD4+ Cells in Blood by Takuya Komura, Masaaki Yano, Akimitsu Miyake, Hisashi Takabatake, Masaki Miyazawa, Norihiko Ogawa, Akihiro Seki, Masao Honda, Takashi Wada, Shigeyuki Matsui, Shuichi Kaneko, Yoshio Sakai

“…The differences in gene expression profiles of whole blood cells and cell subpopulations between CRC patients and healthy controls were analyzed using DNA microarray. Serum cytokine/chemokine concentrations in CRC patients and healthy controls were measured via multiplex detection immunoassays. …”
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Identification of potential biomarkers for 2022 Mpox virus infection: a transcriptomic network analysis and machine learning approach by Joy Prokash Debnath, Kabir Hossen, Sabrina Bintay Sayed, Md. Sayeam Khandaker, Preonath Chondrow Dev, Saifuddin Sarker, Tanvir Hossain

“…This study aimed to identify the differentially expressed genes (DEGs) induced by the 2022 MPXV infection through comprehensive bioinformatics analyses of microarray and RNA-Seq datasets from post-infected cell types with different MPXV clades. …”
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Integrating single-cell RNA sequencing, WGCNA, and machine learning to identify key biomarkers in hepatocellular carcinoma by Gang Wang, Jiaxing Zhang, Yirong Li, Yuyu Zhang, Weiwei Dong, Hengquan Wu, Jinglan Wang, Peiqing Liao, Ziqiang Yuan, Tao Liu, Wenting He

“…Abstract The microarray and single-cell RNA-sequencing (scRNA-seq) datasets of hepatocellular carcinoma (HCC) were downloaded from the Gene Expression Omnibus (GEO) database. …”
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A novel computational approach for predicting complex phenotypes in Drosophila (starvation-sensitive and sterile) by deriving their gene expression signatures from public data. by Dobril K Ivanov, Gerrit Bostelmann, Benoit Lan-Leung, Julie Williams, Linda Partridge, Valentina Escott-Price, Janet M Thornton

“…We utilised available microarray gene-expression data for two phenotypes (starvation-sensitive and sterile) in Drosophila. …”
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