10.18632/aging.102092

Exosomes derived from microRNA-199a-overexpressing mesenchymal stem cells inhibit glioma progression by down-regulating AGAP2
Cited by: 67
Author(s): Lei Yu, Si Gui, Yawei Liu, Xiaoyu Qiu, Guozhong Zhang, Xian Zhang, Jun Pan, Jun Fan, Songtao Qi, Binghui Qiu
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-15-829

Profiling of the embryonic Atlantic halibut (Hippoglossus hippoglossus L.) transcriptome reveals maternal transcripts as potential markers of embryo quality
Cited by: 29
Author(s): Maren Mommens, Jorge M.O. Fernandes, Knut Erik Tollefsen, Ian A. Johnston, Igor Babiak
Software Mentions: 1
Published: almost 12 years ago

10.1186/s12864-015-1393-8

Pichia pastoris regulates its gene-specific response to different carbon sources at the transcriptional, rather than the translational, level
Cited by: 70
Author(s): Roland Prielhofer, Stephanie P. Cartwright, Alexandra B. Graf, Minoska Valli, Roslyn M. Bill, Diethard Mattanovich, Brigitte Gasser
Software Mentions: 1
Published: over 11 years ago

10.15252/embj.201386874

Nuclear <scp>ARRB</scp> 1 induces pseudohypoxia and cellular metabolism reprogramming in prostate cancer
Cited by: 54
Author(s): Vincent Zecchini, Basetti Madhu, Roslin Russell, Nelma Pértega‐Gomes, Anne Y. Warren, Edoardo Gaude, Joana Borlido, Rory Stark, Heather Ireland-Zecchini, Roheet Bantval Rao, Helen E. Scott, Joan Boren, Charles E. Massie, Mohammad Asim, Kevin M. Brindle, John R. Griffiths, Christian Frezza, David E. Neal, Ian G. Mills
Software Mentions: 1
Published: over 12 years ago

10.7717/peerj.7882

Downregulated miR-383-5p contributes to the proliferation and migration of gastric cancer cells and is associated with poor prognosis
Cited by: 34
Author(s): Chao Wei, Jianjun Gao
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12859-019-2944-9

Prediction of regulatory targets of alternative isoforms of the epidermal growth factor receptor in a glioblastoma cell line
Cited by: 4
Author(s): Claus Weinholdt, Henri Wichmann, Johanna Kotrba, David H. Ardell, Matthias Kappler, Alexander W. Eckert, Dirk Vordermark, Ivo Große
Software Mentions: 1
Published: almost 7 years ago

10.7717/peerj.4704

Identification of potential crucial genes and pathways associated with vein graft restenosis based on gene expression analysis in experimental rabbits
Cited by: 1
Author(s): Qiang Liu, Xiujie Yin, Mingzhu Li, Li Wan, Liqiao Liu, Xiang Zhong, Kebin Liu, Qun Wang
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2164-14-135

Why so many unknown genes? Partitioning orphans from a representative transcriptome of the lone star tick Amblyomma americanum
Cited by: 42
Author(s): Amanda K. Gibson, Zach Smith, Clay Fuqua, Keith Clay, John K. Colbourne
Software Mentions: 1
Published: over 13 years ago

10.1186/s12885-020-07316-z

Interconnectivity between molecular subtypes and tumor stage in colorectal cancer
Cited by: 13
Author(s): Robert R.J. Coebergh van den Braak, Sanne ten Hoorn, Anieta M. Sieuwerts, Jurriaan B. Tuynman, Marcel Smid, Saskia M. Wilting, John W.M. Martens, Cornelis J.A. Punt, John A. Foekens, Jan Paul Medema, Jan N.M. IJzermans, Louis Vermeulen
Software Mentions: 1
Published: almost 6 years ago

10.7717/peerj.6464

Functional genomics screen with pooled shRNA library and gene expression profiling with extracts of <i>Azadirachta indica</i> identify potential pathways for therapeutic targets in head and neck squamous cell carcinoma
Cited by: 3
Author(s): Neeraja M. Krishnan, Hiroto Katoh, Vinayak Palve, Manisha Pareek, Reiko Sato, Shumpei Ishikawa, Binay Panda
Software Mentions: 1
Published: over 7 years ago

10.3390/ani10091680

Identification of the Key microRNAs and miRNA-mRNA Interaction Networks during the Ovarian Development of Hens
Cited by: 8
Author(s): Jing Li, Chong Li, Qi Li, Wenting Li, Hong Li, Guoxi Li, Xiangtao Kang, Xiaojun Liu, Yadong Tian
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-10-236

Transcriptomics reveals extensive inducible biotransformation in the soil-dwelling invertebrate Folsomia candida exposed to phenanthrene
Cited by: 65
Author(s): Benjamin Nota, Mirte Bosse, Bauke Ylstra, Nico M. van Straalen, Dick Roelofs
Software Mentions: 1
Published: over 17 years ago

10.1186/s12885-018-4546-8

Gene expression profiling of 1200 pancreatic ductal adenocarcinoma reveals novel subtypes
Cited by: 55
Author(s): Liang Zhao, Hongya Zhao, Hong Yan
Software Mentions: 1
Published: about 8 years ago

10.7717/peerj.7124

Molecular mechanisms linking peri-implantitis and type 2 diabetes mellitus revealed by transcriptomic analysis
Cited by: 22
Author(s): YU Tian-Liang, Aneesha Acharya, Nikos Mattheos, Simin Li, Dirk Ziebolz, Gerhard Schmalz, Rainer Haak, Jana Schmidt, Yanhui Sun
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-13-370

Development of a porcine (Sus scofa) embryo-specific microarray: array annotation and validation
Cited by: 19
Author(s): Stephen Tsoi, Chi Zhou, Jason R. Grant, J. Alex Pasternak, J.R. Dobrinsky, Philippe Rigault, Julie Nieminen, Marc‐André Sirard, Claude Robert, G. R. Foxcroft, Michael K. Dyck
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-12-123

Comparative tissue transcriptomics reveal prompt inter-organ communication in response to local bacterial kidney infection
Cited by: 15
Author(s): Jorrit Boekel, Örjan Källskog, Monica Rydén-Aulin, Mikael Rhen, Agneta Richter‐Dahlfors
Software Mentions: 1
Published: over 15 years ago

10.18632/aging.202320

Identification of the ceRNA networks in α-MSH-induced melanogenesis of melanocytes
Cited by: 12
Author(s): Ling Jiang, Jinhua Huang, Yibo Hu, Lei Li, Yujie Ouyang, Yan Liu, Hui Li, Si Li, Lun Yang, Yan Yang, Lihua Huang, Hong Xiang, Rong Xiao, Jing Chen, Qinghai Zeng
Software Mentions: 1
Published: over 5 years ago

10.18632/aging.103460

Comprehensive characterization of the tumor microenvironment for assessing immunotherapy outcome in patients with head and neck squamous cell carcinoma
Cited by: 6
Author(s): Jian Zhang, Xi Zhong, Huali Jiang, Hualong Jiang, Tao Xie, Yunhong Tian, Rong Li, Baiyao Wang, Jiexia Zhang, Yawei Yuan
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12859-020-03785-y

Latent-space embedding of expression data identifies gene signatures from sputum samples of asthmatic patients
Cited by: 1
Author(s): Shaoke Lou, Tianxiao Li, Daniel Spakowicz, Xiting Yan, Geoffrey Chupp, Mark Gerstein
Software Mentions: 1
Published: almost 6 years ago

10.18632/aging.102857

Adipose-derived mesenchymal stem cells-derived exosome-mediated microRNA-342-5p protects endothelial cells against atherosclerosis
Cited by: 52
Author(s): Xiaohui Xing, Zhongchen Li, Xin Yang, Mengyou Li, Chao Liu, Yingxin Pang, Zhang Liyong, Xueyuan Li, Guangcun Liu, Yi Xiao
Software Mentions: 1
Published: over 6 years ago

10.1128/EC.00335-13

High-Throughput Chemical Screening for Antivirulence Developmental Phenotypes in Trypanosoma brucei
Cited by: 9
Author(s): Paula MacGregor, Alasdair Ivens, Steven Shave, Iain T. Collie, David W. Gray, Manfred Auer, Keith R. Matthews
Software Mentions: 1
Published: over 12 years ago

10.1186/s12859-018-2428-3

TNER: a novel background error suppression method for mutation detection in circulating tumor DNA
Cited by: 12
Author(s): Shibing Deng, Maruja Lira, Donghui Huang, Kai Wang, Crystal E. Valdez, Jennifer Kinong, Paul A. Rejto, Jadwiga Bienkowska, James S. Hardwick, Tongxin Xie
Software Mentions: 1
Published: almost 8 years ago

10.7717/peerj.12141

Comprehensive analysis of abnormal expression, prognostic value and oncogenic role of the hub gene FN1 in pancreatic ductal adenocarcinoma <i>via</i> bioinformatic analysis and <i>in vitro</i> experiments
Cited by: 3
Author(s): Xiaohua Lei, Guodong Chen, Jiangtao Li, Wu Wen, Jianping Gong, Jie Fu
Software Mentions: 1
Published: almost 5 years ago

10.18632/aging.102111

Genetic polymorphisms and transcription profiles associated with intracranial aneurysm: a key role for NOTCH3
Cited by: 2
Author(s): Mengqi Li, Xinlong Dong, Shi Chen, Weihan Wang, Chao Yang, Bochuan Li, Degang Liang, Weidong Yang, Xiaozhi Liu, Xinyu Yang
Software Mentions: 1
Published: about 7 years ago

10.18632/aging.203158

Comprehensive signature analysis of drug metabolism differences in the White, Black and Asian prostate cancer patients
Cited by: 8
Author(s): Liu Yang, Jiawei Zhou, Cundong Liu, Jing Yang, De-Ying Liao, Zhen Liang, Xiao Xie, Qing Zhou, Kai Xue, Wenbing Guo, Ming Xia, Jiaju Zhou, Junjie Bao, Cheng Yang, Haifeng Duan, Hongyi Wang, Zhipeng Huang, Shan‐Chao Zhao, Ming-Kun Chen
Software Mentions: 1
Published: about 5 years ago

10.7717/peerj.10395

Comprehensive analysis of circRNA expression profiles and circRNA-associated competing endogenous RNA networks in IgA nephropathy
Cited by: 8
Author(s): Haiyang Liu, Di Liu, Yexin Liu, Ming Xia, Yan Li, Li Mei, Hong Liu
Software Mentions: 1
Published: over 5 years ago

10.18632/aging.104195

Exploring the mechanism of resistance to sorafenib in two hepatocellular carcinoma cell lines
Cited by: 2
Author(s): Zhang Zhi, Cheng-Zu He, Yaqin Qin, Jianjun Liao, Shang-Tao Huang, Steven Mo, Hong-Mian Li, Jian Lin
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-11-312

Plasmodium infection alters Anopheles gambiae detoxification gene expression
Cited by: 43
Author(s): Rute C. Félix, Pie Müller, Vera Ribeiro, Hilary Ranson, Henrique Silveira
Software Mentions: 1
Published: over 16 years ago

10.1186/s12896-015-0218-9

Transcriptome study and identification of potential marker genes related to the stable expression of recombinant proteins in CHO clones
Cited by: 9
Author(s): Uroš Jamnikar, Petra Nikolić, Aleš Belič, Marjanca Blas, Dominik Gaser, Andrej Francky, Holger Laux, Andrej Blejec, Špela Baebler, Kristina Gruden
Software Mentions: 1
Published: almost 11 years ago

10.18632/aging.104079

Effect of lncRNA WT1-AS regulating WT1 on oxidative stress injury and apoptosis of neurons in Alzheimer's disease via inhibition of the miR-375/SIX4 axis
Cited by: 32
Author(s): Quanbao Wang, Xiumin Ge, Jie Zhang, Licheng Chen
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-015-1372-0

Genome-wide expression analysis suggests a crucial role of dysregulation of matrix metalloproteinases pathway in undifferentiated thyroid carcinoma
Cited by: 31
Author(s): Jesús Espinal-Enríquez, Said Muñoz-Montero, Iván Imaz-Rosshandler, Aldo J Huerta-Verde, Carmen Mejía, Enrique Hernández‐Lemus
Software Mentions: 1
Published: over 11 years ago

10.14814/phy2.12661

Novel hepatic microRNAs upregulated in human nonalcoholic fatty liver disease
Cited by: 37
Author(s): Jarkko Soronen, Hannele Yki‐Järvinen, You Zhou, Sanja Sädevirta, Antti‐Pekka Sarin, Marja Leivonen, Ksenia Sevastianova, Julia Perttilä, Pirkka‐Pekka Laurila, Alexander Sigrüener, Gerd Schmitz, Vesa M. Olkkonen
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2164-13-447

Genetic module and miRNome trait analyses reflect the distinct biological features of endothelial progenitor cells from different anatomic locations
Cited by: 22
Author(s): Cheng-Chung Cheng, Hung-Hao Lo, Tse‐Shun Huang, Yi-Chieh Cheng, Shi-Ting Chang, Shing‐Jyh Chang, Hsei–Wei Wang
Software Mentions: 1
Published: almost 14 years ago

10.18632/aging.103568

Methylation-dependent MCM6 repression induced by LINC00472 inhibits triple-negative breast cancer metastasis by disturbing the MEK/ERK signaling pathway
Cited by: 11
Author(s): Guoli Shao, Xulong Fan, Pusheng Zhang, Xuewen Li, Lei Huang, Shufeng Ji
Software Mentions: 1
Published: over 5 years ago

10.14814/phy2.12537

Renal stromal miRNAs are required for normal nephrogenesis and glomerular mesangial survival
Cited by: 34
Author(s): Yu Leng Phua, Jessica Chu, April K. Marrone, Andrew J. Bodnar, Sunder Sims‐Lucas, Jacqueline Ho
Software Mentions: 1
Published: almost 11 years ago

10.14814/phy2.13440

Exposure to electronic cigarette vapors affects pulmonary and systemic expression of circadian molecular clock genes
Cited by: 38
Author(s): Ariane Lechasseur, Éric Jubinville, Joanie Routhier, Jean‐Christophe Bérubé, Mélanie Hamel‐Auger, Maude Talbot, Jennifer Lamothe, Sophie Aubin, Marie‐Ève Paré, Marie‐Josée Beaulieu, Yohan Bossé, Caroline Duchaine, Mathieu C. Morissette
Software Mentions: 1
Published: almost 9 years ago

10.1186/s12885-017-3114-y

Effect of myeloid differentiation primary response gene 88 on expression profiles of genes during the development and progression of Helicobacter-induced gastric cancer
Cited by: 19
Author(s): Ivonne Lozano‐Pope, Arnika Sharma, Michael Matthias, Kelly S. Doran, Marygorret Obonyo
Software Mentions: 1
Published: over 9 years ago

10.14814/phy2.12793

Significant obesity-associated gene expression changes occur in the stomach but not intestines in obese mice
Cited by: 7
Author(s): Jing Chen, Lihong Chen, Philippe Sanséau, Johannes M. Freudenberg, Deepak K. Rajpal
Software Mentions: 1
Published: over 10 years ago

10.1080/07853890.2021.1966087

Screening differentially expressed genes between endometriosis and ovarian cancer to find new biomarkers for endometriosis
Cited by: 8
Author(s): Zhenzhen Lu, Ying Gao
Software Mentions: 1
Published: over 5 years ago

10.1016/j.ebiom.2019.03.072

Identification of novel differentially methylated sites with potential as clinical predictors of impaired respiratory function and COPD
Cited by: 19
Author(s): Mairead Lesley Bermingham, Richard M Martin, Riccardo E. Marioni, Stewart W. Morris, Konrad Rawlik, Yanni Zeng, Archie Campbell, Paul Redmond, Heather C. Whalley, Mark Adams, Caroline Hayward, Ian J. Deary, David J. Porteous, Andrew M. McIntosh, Kathryn Evans
Software Mentions: 1
Published: over 7 years ago

10.1155/2021/7257405

Application of Bioinformatics Methods to Identify Key Genes and Functions in Chronic Pelvic Pain
Cited by: 1
Author(s): Wenchao Sun, Qiji Ju
Software Mentions: 1
Published: about 5 years ago

10.1136/annrheumdis-2018-214539

Synovial cellular and molecular signatures stratify clinical response to csDMARD therapy and predict radiographic progression in early rheumatoid arthritis patients
Cited by: 177
Author(s): Frances Humby, Myles Lewis, Nandhini Ramamoorthi, Jason A. Hackney, Michael R. Barnes, Michèle Bombardieri, Audi Setiadi, Stephen Kelly, F Bene, Maria DiCicco, Sudeh Riahi, Vidalba Rocher, Nora Ng, Ilias Lazarou, Rebecca Hands, Désirée van der Heijde, Robert Landewé, Annette H M van der Helm-van Mil, Alberto Cauli, Iain B. McInnes, Christopher D. Buckley, Ernest Choy, Peter Taylor, Michael J. Townsend, Costantino Pitzalis
Software Mentions: 1
Published: over 7 years ago

10.1002/emmm.201303123

Inhibition of phosphodiesterase‐4 promotes oligodendrocyte precursor cell differentiation and enhances <scp>CNS</scp> remyelination
Cited by: 45
Author(s): Yasir Ahmed Syed, Alexandra Baer, Matthias P. Hofer, Ginez A. González, Jon Rundle, Szymon Myrta, Jeffrey K. Huang, Chao Zhao, Moritz J. Rossner, Matthew Trotter, Gert Lubec, Robin J.M. Franklin, Mark R. Kotter
Software Mentions: 1
Published: almost 13 years ago

10.1002/pld3.290

Overexpression of exogenous<i>biuret hydrolase</i>in rice plants confers tolerance to biuret toxicity
Cited by: 4
Author(s): Kumiko Ochiai, Asuka Uesugi, Yuki Masuda, Megumi Nishii, Töru Matoh
Software Mentions: 1
Published: almost 6 years ago

10.18632/aging.202785

Silencing long non-coding RNA MIAT ameliorates myocardial dysfunction induced by myocardial infarction via MIAT/miR-10a-5p/EGR2 axis
Cited by: 16
Author(s): Xiaohong Cao, Qinghua Ma, Bin Wang, Qingqiang Qian, Ning Liu, Tiejun Liu, Xiaoliu Dong
Software Mentions: 1
Published: over 5 years ago

10.1089/ars.2018.7551

Putative Role of Nuclear Factor-Kappa B But Not Hypoxia-Inducible Factor-1α in Hypoxia-Dependent Regulation of Oxidative Stress in Hematopoietic Stem and Progenitor Cells
Cited by: 7
Author(s): Camilla Halvarsson, Emma Rörby, Pernilla Eliasson, Stefan Lang, Shamit Soneji, Jan Ingvar Jönsson
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-11-82

Transcriptional changes in response to X chromosome dosage in the mouse: implications for X inactivation and the molecular basis of Turner Syndrome
Cited by: 55
Author(s): Alexandra M. Lopes, Paul S. Burgoyne, Andrew Ojarikre, Julien Bauer, Carole A. Sargent, António Amorim, Nabeel A. Affara
Software Mentions: 1
Published: over 16 years ago

10.3390/antiox10010025

Crosstalk between Long-Term Sublethal Oxidative Stress and Detrimental Inflammation as Potential Drivers for Age-Related Retinal Degeneration
Cited by: 11
Author(s): Lara Macchioni, Davide Chiasserini, Letizia Mezzasoma, Magdalena Davidescu, Pier Luigi Orvietani, Katia Fettucciari, Leonardo Salviati, Barbara Cellini, Ilaria Bellezza
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2407-10-262

High-throughput miRNA profiling of human melanoma blood samples
Cited by: 143
Author(s): Petra Leidinger, Andreas Keller, Anne Borries, Jörg Reichrath, Knuth Rass, Sven Jäger, Hans‐Peter Lenhof, Eckart Meese
Software Mentions: 1
Published: about 16 years ago

10.15252/embj.2020106272

Cellular stress promotes NOD1/2‐dependent inflammation via the endogenous metabolite sphingosine‐1‐phosphate
Cited by: 32
Author(s): Gang Pei, Joanna Żyła, Lichun He, Pedro Moura-Alves, Heidrun Steinle, Philippe Saikali, Laura Lozza, Natalie E. Nieuwenhuizen, January Weiner, Hans-Joachim Mollenkopf, Kornelia Ellwanger, Christine Arnold, Mojie Duan, Yulia A. Dagil, Мikhail Pashenkov, Ivo Gomperts Boneca, Thomas A. Kufer, Anca Dorhoi, Stefan H. E. Kaufmann
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-13-239

Yeast glucose pathways converge on the transcriptional regulation of trehalose biosynthesis
Cited by: 28
Author(s): Eva Apweiler, Katrin Sameith, Thanasis Margaritis, Nathalie Brabers, Loes van de Pasch, Linda V. Bakker, Dik van Leenen, Frank C. P. Holstege, Patrick Kemmeren
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2164-8-350

Cadmium triggers an integrated reprogramming of the metabolism of Synechocystis PCC6803, under the control of the Slr1738 regulator
Cited by: 85
Author(s): Laetitia Houot, Martin Floutier, Benoît Marteyn, Magali Michaut, Antoine Picciocchi, Pierre Legrain, Jean-Christophe Aude, Corinne Cassier‐Chauvat, Franck Chauvat
Software Mentions: 1
Published: almost 19 years ago

10.1186/1471-2164-14-37

Transcriptional profiling of the Arabidopsis abscission mutant hae hsl2by RNA-Seq
Cited by: 77
Author(s): Chad E. Niederhuth, O. Rahul Patharkar, John C. Walker
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-11-256

Validation of a mouse xenograft model system for gene expression analysis of human acute lymphoblastic leukaemia
Cited by: 18
Author(s): A. Lacey Samuels, Violet K. Peeva, Rachael A. Papa, Martin J Firth, Richard W. Francis, Alex H. Beesley, Richard B. Lock, Ursula R. Kees
Software Mentions: 1
Published: over 16 years ago

10.1186/1746-4811-8-18

Evaluation of alternative RNA labeling protocols for transcript profiling with Arabidopsis AGRONOMICS1 tiling arrays
Cited by: 7
Author(s): Marlen Müller, Andrea Patrignani, Hubert Rehrauer, Wilhelm Gruissem, Lars Hennig
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2164-15-1114

Genes associated with thermosensitive genic male sterility in rice identified by comparative expression profiling
Cited by: 21
Author(s): Yufang Pan, Qiaofeng Li, Zhizheng Wang, Yang Wang, Rui Ma, Lili Zhu, Guangcun He, Rongzhi Chen
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-7-252

Microarray analysis after RNA amplification can detect pronounced differences in gene expression using limma
Cited by: 451
Author(s): Ilhem Diboun, Lorenz Wernisch, Christine A. Orengo, M Koltzenburg
Software Mentions: 1
Published: almost 20 years ago

10.3390/plants8030064

Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage
Cited by: 34
Author(s): Weilong Kong, Hua Zhong, Ziyun Gong, Xuefeng Fang, Tong Sun, Xiaoxiao Deng, Yangsheng Li
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2105-8-218

Novel and simple transformation algorithm for combining microarray data sets
Cited by: 12
Author(s): Ki Yeol Kim, Dong Hyuk Ki, Hana Jeong, Hei Cheul Jeung, Hyun Cheol Chung, Sun Young Rha
Software Mentions: 1
Published: about 19 years ago

10.17179/excli2019-1893

Common transcriptional programs and the role of chemokine (C-C motif) ligand 20 (CCL20) in cell migration of cholangiocarcinoma.
Cited by: 3
Author(s): Hay Mar Win Maung, Waraporn Chan-On, Nawapol Kunkeaw, Prasong Khaenam
Software Mentions: 1
Published: over 6 years ago

10.1016/j.plantsci.2015.02.002

Phylloxera (Daktulosphaira vitifoliae Fitch) alters the carbohydrate metabolism in root galls to allowing the compatible interaction with grapevine (Vitis ssp.) roots
Cited by: 29
Author(s): Michaela Griesser, N.C. Lawo, Sara Crespo-Martínez, Katharina Schoedl‐Hummel, Krzysztof Wieczorek, Mirosława Górecka, Falk Liebner, Thomas Zweckmair, Nancy Stralis Pavese, David P. Kreil, Astrid Forneck
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pbio.3000941

YAP/TAZ deficiency reprograms macrophage phenotype and improves infarct healing and cardiac function after myocardial infarction
Cited by: 64
Author(s): Masum M. Mia, Dasan Mary Cibi, Siti Aishah Binte Abdul Ghani, Weihua Song, Nicole Tee, Sujoy Ghosh, Junhao Mao, Eric N. Olson, Manvendra K. Singh
Software Mentions: 1
Published: over 5 years ago

10.1155/2021/4738264

Effect of BuShen JiangZhi Recipe on Atherosclerosis in ApoE−/- Mice by Regulating the Expression of Anpep via mmu_circRNA_22187
Cited by: 0
Author(s): Yan Li, Qingling Jia, Hui Cao, Pingyi He, Xing Shen, Yan Huang, Chuan Chen, Dingzhu Shen
Software Mentions: 1
Published: almost 5 years ago

10.1186/s12864-019-5557-9

Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles
Cited by: 19
Author(s): Rayner González-Prendes, Raquel Quintanilla, Emilio Mármol-Sánchez, Ramona N. Pena, María Ballester, Tainã Figueiredo Cardoso, Arianna Manunza, J. Casellas, Ángela Cánovas, Isabel Dı́az, J. L. Noguera, Anna Castelló, A. Mercadé, Marcel Amills
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pbio.1000568

The Gene Regulatory Cascade Linking Proneural Specification with Differentiation in Drosophila Sensory Neurons
Cited by: 51
Author(s): Sebastián Cachero, T. Ian Simpson, Petra I. zur Lage, Lina Ma, Fay Newton, Eimear E. Holohan, J. Douglas Armstrong, Andrew P. Jarman
Software Mentions: 1
Published: over 15 years ago

10.1186/s12864-017-3878-0

Whole-transcriptome analysis delineates the human placenta gene network and its associations with fetal growth
Cited by: 46
Author(s): Maya A. Deyssenroth, Shouneng Peng, Ke Hao, Luca Lambertini, Carmen J. Marsit, Jia Chen
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pbio.0050174

Epigenetic Natural Variation in Arabidopsis thaliana
Cited by: 395
Author(s): Matthew Vaughn, Miloš Tanurdžić, Zachary B. Lippman, Hongmei Jiang, Robert Carrasquillo, Pablo D. Rabinowicz, Neilay Dedhia, W. Richard McCombie, Nicolas Agier, Agnès Bulski, Vincent Colot, R. W. Doerge, Robert A. Martienssen
Software Mentions: 1
Published: about 19 years ago

10.1128/AEM.00638-16

Pichia pastoris Exhibits High Viability and a Low Maintenance Energy Requirement at Near-Zero Specific Growth Rates
Cited by: 42
Author(s): Corinna Rebnegger, Tim Vos, Alexandra B. Graf, Minoska Valli, Jack T. Pronk, Pascale Daran‐Lapujade, Diethard Mattanovich
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2164-6-124

Comparative analyses of six solanaceous transcriptomes reveal a high degree of sequence conservation and species-specific transcripts
Cited by: 77
Author(s): Willem Albert Rensink, Yuandan Lee, Jia Liu, Stacey Iobst, Shuai Ouyang, C. Robin Buell
Software Mentions: 1
Published: almost 21 years ago

10.1186/1471-2164-13-274

Defining new criteria for selection of cell-based intestinal models using publicly available databases
Cited by: 46
Author(s): Jon Christensen, Sara El-Gebali, Manuela Natoli, Thierry Sengstag, Mauro Delorenzi, Susanne Bentz, Hanifa Bouzourène, Martı́n Rumbo, Armando Felsani, Sanna Siissalo, Jouni Hirvonen, Maya R Vila, Piercarlo Saletti, Michel Aguet, Pascale Anderle
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2105-10-45

Comparison of small n statistical tests of differential expression applied to microarrays
Cited by: 75
Author(s): Carl Murie, Owen Z. Woody, Anna Y. Lee, Robert Nadon
Software Mentions: 1
Published: over 17 years ago

10.1186/1471-2105-9-409

Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios
Cited by: 121
Author(s): Johan Staaf, Johan Vallon‐Christersson, David Lindgren, Gunnar Juliusson, Richard Rosenquist, Mattias Höglund, Åke Borg, Markus Ringnér
Software Mentions: 1
Published: almost 18 years ago

10.1186/1471-2407-10-599

Prioritizing genes associated with prostate cancer development
Cited by: 33
Author(s): Ivan P. Gorlov, Kanishka Sircar, Hongya Zhao, Sankar N. Maity, Nora M. Navone, Olga Y. Gorlova, Patricia Troncoso, Curtis A. Pettaway, Jin Young Byun, Christopher J. Logothetis
Software Mentions: 1
Published: almost 16 years ago

10.18632/aging.102356

Circular RNA hsa_circ_0000515 acts as a miR-326 sponge to promote cervical cancer progression through up-regulation of ELK1
Cited by: 106
Author(s): Qiong Tang, Zhigang Chen, Liang Zhao, Hai Xu
Software Mentions: 1
Published: over 6 years ago

10.1080/21623945.2019.1649578

Identification of biomarkers, pathways and potential therapeutic agents for white adipocyte insulin resistance using bioinformatics analysis
Cited by: 16
Author(s): Yemin Zhang, Yuyang Zheng, Yalin Fu, Changhua Wang
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pbio.0020258

Interdependency of Brassinosteroid and Auxin Signaling in Arabidopsis
Cited by: 525
Author(s): Jennifer L. Nemhauser, Todd C. Mockler, Joanne Chory
Software Mentions: 1
Published: almost 22 years ago

10.1371/journal.pbio.3000270

Foxp1 is critical for the maintenance of regulatory T-cell homeostasis and suppressive function
Cited by: 37
Author(s): Jiajun Ren, Lei Han, Jialei Tang, Yuanhua Liu, Xiaoxue Deng, Qiuyue Liu, Pei Hao, Xiaoming Feng, Bin Li, Hui Hu, Haikun Wang
Software Mentions: 1
Published: about 7 years ago

10.1186/s13075-019-2082-9

Integrated systems analysis of salivary gland transcriptomics reveals key molecular networks in Sjögren’s syndrome
Cited by: 9
Author(s): Hong Ki Min, Su‐Jin Moon, Kyung-Su Park, Ki-Jo Kim
Software Mentions: 1
Published: over 6 years ago

10.1186/ar3695

Tight regulation of wingless-type signaling in the articular cartilage - subchondral bone biomechanical unit: transcriptomics in Frzb-knockout mice
Cited by: 39
Author(s): Liesbet Lodewyckx, F. Cailotto, Sarah Thysen, Frank P. Luyten, Rik Lories
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-14-121

Comparative transcriptomics reveals different strategies of Trichodermamycoparasitism
Cited by: 222
Author(s): Lea Atanasova, Stéphane Le Crom, Sabine Gruber, Fanny Coulpier, Verena Seidl‐Seiboth, Christian P. Kubicek, Irina S. Druzhinina
Software Mentions: 1
Published: over 13 years ago

10.1186/s12859-015-0808-5

Practical impacts of genomic data “cleaning” on biological discovery using surrogate variable analysis
Cited by: 50
Author(s): Andrew E. Jaffe, Thomas M. Hyde, Joel E. Kleinman, Daniel R. Weinbergern, Joshua G. Chenoweth, Ronald D.G. McKay, Jeffrey T. Leek, Carlo Colantuoni
Software Mentions: 1
Published: almost 11 years ago

10.1186/1471-2164-9-78

Effect of thyroid hormone concentration on the transcriptional response underlying induced metamorphosis in the Mexican axolotl (Ambystoma)
Cited by: 47
Author(s): Robert B. Page, S. Randal Voss, Amy Samuels, Jeramiah J. Smith, Srikrishna Putta, Christopher K. Beachy
Software Mentions: 1
Published: over 18 years ago

10.18632/aging.203478

LINC01087 inhibits glioma cell proliferation and migration, and increases cell apoptosis via miR-384/Bcl-2 axis
Cited by: 6
Author(s): Yaohui Tian, Linwei Jia, Zhifeng Liu, Yong-Han Chen
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pbio.3000168

Opposing signaling pathways regulate morphology in response to temperature in the fungal pathogen Histoplasma capsulatum
Cited by: 20
Author(s): Lauren Rodriguez, Mark Voorhies, Sarah A. Gilmore, Sinem Beyhan, Anthony Myint, Anita Sil
Software Mentions: 1
Published: almost 7 years ago

10.1186/1471-2164-9-388

Dynamic RNA profiling in Plasmodium falciparum synchronized blood stages exposed to lethal doses of artesunate
Cited by: 61
Author(s): Onguma Natalang, Emmanuel Bischoff, Guillaume Deplaine, Caroline Proux, Marie‐Agnès Dillies, Odile Sismeiro, Ghislaine Guigon, Serge Bonnefoy, Jintana Patarapotikul, Odile Mercereau–Puijalon, Jean‐Yves Coppée, Peter H. David
Software Mentions: 1
Published: about 18 years ago

10.1186/1471-2164-14-861

The role of Dichaete in transcriptional regulation during Drosophila embryonic development
Cited by: 32
Author(s): J. Aleksić, Enrico Ferrero, Bettina Fischer, Shih Pei Shen, Steven Russell
Software Mentions: 1
Published: over 12 years ago

10.1186/s12864-018-5413-3

Genomic changes associated with adaptation to arid environments in cactophilic Drosophila species
Cited by: 20
Author(s): Rahul Rane, Stephen L. Pearce, Fang Li, Chris Coppin, Michele Schiffer, Jennifer Shirriffs, Carla M. Sgrò, Philippa C. Griffin, Guojie Zhang, Siu Fai Lee, Ary A. Hoffmann, John G. Oakeshott
Software Mentions: 1
Published: over 7 years ago

10.1186/s12864-020-6768-9

PretiMeth: precise prediction models for DNA methylation based on single methylation mark
Cited by: 4
Author(s): Jie Tang, Jianxiao Zou, Xiaoran Zhang, Mei Fan, Qi Tian, Shuyao Fu, Shihong Gao, Shicai Fan
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-14-631

Efficient utilization of aerobic metabolism helps Tibetan locusts conquer hypoxia
Cited by: 27
Author(s): Dejian Zhao, Zhenyu Zhang, Arianne Cease, Jon F. Harrison, Le Kang
Software Mentions: 1
Published: almost 13 years ago

10.1186/1471-2164-13-305

De novo transcriptome sequencing in a songbird, the dark-eyed junco (Junco hyemalis): genomic tools for an ecological model system
Cited by: 34
Author(s): Mark P. Peterson, Danielle J. Whittaker, Shruthi Ambreth, Suhas Sureshchandra, Aaron Buechlein, Ram Podicheti, Jeong-Hyeon Choi, Zhao Lai, Keithanne Mockatis, John K. Colbourne, Haixu Tang, Ellen D. Ketterson
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-9-173

Transcriptome architecture across tissues in the pig
Cited by: 46
Author(s): André Luiz Julien Ferraz, Alejandro González-Ojeda, Manel López‐Béjar, Lana Teixeira Fernandes, Anna Castelló, Josep María Folch, Miguel Pérez‐Enciso
Software Mentions: 1
Published: over 18 years ago

10.18632/aging.101220

Progressive changes in non-coding RNA profile in leucocytes with age
Cited by: 11
Author(s): Maider Muñoz-Culla, Haritz Irizar, Ana Gorostidi, Ainhoa Alberro, Iñaki Osorio-Querejeta, Javier Ruíz‐Martínez, Javier Olascoaga, Adolfo López de Munaín, David Otaegui
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2164-12-501

Temporal transcriptome changes induced by MDV in marek's disease-resistant and -susceptible inbred chickens
Cited by: 35
Author(s): Ying Yu, Juan Luo, Apratim Mitra, Shuang Chang, Fei Tian, Huanmin Zhang, Ping Yuan, Huaijun Zhou, Jiuzhou Song
Software Mentions: 1
Published: almost 15 years ago

10.1186/s12859-018-2410-0

Discovering the ‘Dark matters’ in expression data of miRNA based on the miRNA-mRNA and miRNA-lncRNA networks
Cited by: 3
Author(s): Cong Pian, Guangle Zhang, Sanling Wu, Fēi Li
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pcbi.1007061

The ability of transcription factors to differentially regulate gene expression is a crucial component of the mechanism underlying inversion, a frequently observed genetic interaction pattern
Cited by: 4
Author(s): Saman Amini, Annika Jacobsen, Olga Ivanova, Philip Lijnzaad, Jaap Heringa, Frank C. P. Holstege, K. Anton Feenstra, Patrick Kemmeren
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2407-14-353

Investigation of HOXA9 promoter methylation as a biomarker to distinguish oral cancer patients at low risk of neck metastasis
Cited by: 16
Author(s): Kenichiro Uchida, Ratna Veeramachaneni, Bing Huey, Aditi Bhattacharya, Brian L. Schmidt, Donna G. Albertson
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pcbi.1005460

Highly accessible AU-rich regions in 3’ untranslated regions are hotspots for binding of regulatory factors
Cited by: 48
Author(s): Mireya Plass, Simon Rasmussen, Anders Krogh
Software Mentions: 1
Published: over 9 years ago

10.1007/s00403-014-1476-4

The effect of two endogenous retinoids on the mRNA expression profile in human primary keratinocytes, focusing on genes causing autosomal recessive congenital ichthyosis
Cited by: 13
Author(s): Hans Törmä, Anders Bergström, G. Ghiasifarahani, Berit Berne
Software Mentions: 1
Published: about 12 years ago

10.1186/s12864-016-2623-4

Cyclic AMP signaling restricts activation and promotes maturation and antioxidant defenses in astrocytes
Cited by: 37
Author(s): Sonia Paco, Manuela Hummel, Virginia Plá, Lauro Sumoy, Fernando Aguado
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2105-9-S4-S9

Reconstructing networks of pathways via significance analysis of their intersections
Cited by: 29
Author(s): Mirko Francesconi, Daniel Remondini, Nicola Neretti, John M. Sedivy, Leon N. Cooper, E. Verondini, Luciano Milanesi, Gastone Castellani
Software Mentions: 1
Published: over 18 years ago