10.1111/tpj.13752

Affinity proteomics reveals extensive phosphorylation of the Brassica chromosome axis protein <scp>ASY</scp>1 and a network of associated proteins at prophase I of meiosis
Cited by: 45
Author(s): Kim Osman, Jianhua Yang, Elisabeth Roitinger, Christophe Lambing, Stefan Heckmann, Elaine C. Howell, María Cuacos, Richard Imre, Gerhard Dürnberger, Karl Mechtler, Susan J. Armstrong, F. Christopher H. Franklin
Software Mentions: 2
Published: almost 9 years ago

10.1111/tpj.13124

Meta‐analysis and meta‐regression of transcriptomic responses to water stress in Arabidopsis
Cited by: 36
Author(s): Joshua S. Rest, Olivia Wilkins, Yuan Wei, Michael D. Purugganan, Jessica Gurevitch
Software Mentions: 2
Published: over 10 years ago

10.1002/pld3.69

Photosynthetic response to increased irradiance correlates to variation in transcriptional response of lipid‐remodeling and heat‐shock genes
Cited by: 7
Author(s): Roxanne van Rooijen, Jeremy Harbinson, Mark G. M. Aarts
Software Mentions: 2
Published: about 8 years ago

10.1016/j.placenta.2010.10.010

Genome-wide expression profile of first trimester villous and extravillous human trophoblast cells
Cited by: 114
Author(s): Richard Apps, Andrew Sharkey, Lucy Gardner, Victoria Male, Matthew Trotter, Nigel Miller, Robyn A. North, Sandra A. Founds, Ashley Moffett
Software Mentions: 2
Published: over 15 years ago

10.1186/1471-213X-9-54

Smad4-dependent pathways control basement membrane deposition and endodermal cell migration at early stages of mouse development
Cited by: 48
Author(s): Ita Costello, Christine A. Biondi, Jennifer Taylor, Elizabeth K. Bikoff, Elizabeth J. Robertson
Software Mentions: 2
Published: almost 17 years ago

10.3389/fonc.2021.676124

Malignant Tumor Purity Reveals the Driven and Prognostic Role of CD3E in Low-Grade Glioma Microenvironment
Cited by: 10
Author(s): Xiuqin Lu, Chuanyu Li, Wenhao Xu, Yuanyuan Wu, Jian Wang, Shuxian Chen, Ye Zhang, Hao Huang, Haiyang Huang, Wangrui Liu
Software Mentions: 2
Published: about 5 years ago

10.14814/phy2.13871

A transcriptomics model of estrogen action in the ovine fetal hypothalamus: evidence for estrogenic effects of ICI 182,780
Cited by: 4
Author(s): María Belén Rabaglino, Maureen Keller‐Wood, Charles E. Wood
Software Mentions: 2
Published: about 8 years ago

10.3389/fonc.2020.01147

Development and Validation of a Gene Signature for Prediction of Relapse in Stage I Testicular Germ Cell Tumors
Cited by: 2
Author(s): Jianguo Zhou, Jie Yang, Sanli Jin, Siyu Xiao, Lei Shi, Zhang Ting-you, Hu Ma, Udo S. Gaipl
Software Mentions: 2
Published: about 6 years ago

10.3389/fonc.2021.627504

A New RBPs-Related Signature Predicts the Prognosis of Colon Adenocarcinoma Patients
Cited by: 16
Author(s): Kai‐Kai Chang, Chong Yuan, Xueguang Liu
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.615967

Identification of Proteins Deregulated by Platinum-Based Chemotherapy as Novel Biomarkers and Therapeutic Targets in Non-Small Cell Lung Cancer
Cited by: 4
Author(s): Sarah-Louise Ryan, Keyur A. Dave, Sam Beard, Martina Gyimesi, M. McTaggart, Katherine B. Sahin, Christopher J. Molloy, Neha S. Gandhi, Eric D. Boittier, Connor O’Leary, Esha Shah, Emma Bolderson, Anne‐Marie Baird, Derek J. Richard, Kenneth J. O’Byrne, Mark N. Adams
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.634075

Development and Validation of Novel Biomarkers Related to M2 Macrophages Infiltration by Weighted Gene Co-Expression Network Analysis in Prostate Cancer
Cited by: 7
Author(s): Ning Xu, Ru‐Nan Dong, Tingting Lin, Lin Tian, Yunzhi Lin, Shao‐Hao Chen, Jiang Zhu, Zhi‐Bin Ke, Fei Huang, Ye‐Hui Chen, Xue-Yi Xue
Software Mentions: 2
Published: about 5 years ago

10.3389/fonc.2021.714866

Identification of Hub Genes Related to Liver Metastasis of Colorectal Cancer by Integrative Analysis
Cited by: 9
Author(s): Sicheng Liu, Yaguang Zhang, Su Zhang, Lei Qiu, Bo Zhang, Junhong Han
Software Mentions: 2
Published: about 5 years ago

10.1186/s13048-020-00760-2

miR-362-3p acts as a tumor suppressor by targeting SERBP1 in ovarian cancer
Cited by: 6
Author(s): Shujun Cao, Na Li, Xihong Liao
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.698835

SNAP25 Inhibits Glioma Progression by Regulating Synapse Plasticity via GLS-Mediated Glutaminolysis
Cited by: 13
Author(s): Qiongzhen Huang, Changlin Lian, Yaoyuan Dong, Huijun Zeng, Boyang Liu, Ningbo Xu, Zhenyan He
Software Mentions: 2
Published: about 5 years ago

10.14814/phy2.12988

Reduced mitochondrial mass and function add to age-related susceptibility toward diet-induced fatty liver in C57BL/6J mice
Cited by: 27
Author(s): Kerstin Lohr, Fiona Pachl, Amin Moghaddas Gholami, Kerstin E. Geillinger, Hannelore Daniel, Bernhard Küster, Martin Klingenspor
Software Mentions: 2
Published: almost 10 years ago

10.3389/fonc.2020.00183

Genomics and Prognosis Analysis of Epithelial-Mesenchymal Transition in Glioma
Cited by: 54
Author(s): Chuming Tao, Kai Huang, Jin Shi, Qing Hu, Kuangxun Li, Xingen Zhu
Software Mentions: 2
Published: over 6 years ago

10.3390/ph14020118

Integrative Genomic–Epigenomic Analysis of Clozapine-Treated Patients with Refractory Psychosis
Cited by: 6
Author(s): Yerye Gibrán Mayén-Lobo, José Jaime Martínez‐Magaña, Blanca Estela Pérez-Aldana, Alberto Ortega-Vázquez, Alma Delia Genis‐Mendoza, David José Dávila-Ortiz de Montellano, Ernesto Soto-Reyes, Humberto Nicolini, Marisol López-López, Nancy Monroy-Jaramillo
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-213X-11-2

Targets downstream of Cdk8 in Dictyostelium development
Cited by: 4
Author(s): David Greene, Gareth Bloomfield, Jason Skelton, Alasdair Ivens, Catherine J. Pears
Software Mentions: 2
Published: over 15 years ago

10.1186/1757-2215-7-50

Changes in granulosa cells gene expression associated with growth, plateau and atretic phases in medium bovine follicles
Cited by: 53
Author(s): Gabriel Douville, Marc‐André Sirard
Software Mentions: 2
Published: over 12 years ago

10.7717/peerj.8348

Prognostic value of CLIC3 mRNA overexpression in bladder cancer
Cited by: 9
Author(s): Mei Chen, Shufang Zhang, Xiaohong Wen, Hui Cao, Yuanhui Gao
Software Mentions: 2
Published: over 6 years ago

10.3389/fonc.2020.591739

Prognostic Signatures Based on Thirteen Immune-Related Genes in Colorectal Cancer
Cited by: 15
Author(s): Xiaobo Ma, Yuanyuan Xu, Min Zhu, Lu Wang
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.10746

Overexpressed PLAU and its potential prognostic value in head and neck squamous cell carcinoma
Cited by: 19
Author(s): Zhexuan Li, Chang‐Han Chen, Juncheng Wang, Ming Wei, Guancheng Liu, Yuexiang Qin, Li She, Yong Liu, Donghai Huang, Yongquan Tian, Guanghao Zhu, Xin Zhang
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2020.547942

CircRNA_000864 Upregulates B-cell Translocation Gene 2 Expression and Represses Migration and Invasion in Pancreatic Cancer Cells by Binding to miR-361-3p
Cited by: 20
Author(s): Lei Huang, Junxiang Han, Huifan Yu, Jialing Liu, Lili Gui, Zhengkun Wu, Xinxu Zhao, Shiqi Su, Gaohang Fu, Fēi Li
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.11813

Aberrant expression of PROS1 correlates with human papillary thyroid cancer progression
Cited by: 4
Author(s): Jing Wang, Minxiang Lei, Zhijie Xu
Software Mentions: 2
Published: about 5 years ago

10.7717/peerj.10628

Tumor microenvironment related novel signature predict lung adenocarcinoma survival
Cited by: 6
Author(s): Juan Chen, Rui Zhou
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2020.00605

LUM Expression and Its Prognostic Significance in Gastric Cancer
Cited by: 32
Author(s): Xiaowei Chen, Xin Li, Xin Hu, Fei Jiang, Yan Shen, Rui Xu, Leilei Wu, Pingmin Wei, Xiaobing Shen
Software Mentions: 2
Published: over 6 years ago

10.3389/fonc.2021.692774

An Adaptive Transfer-Learning-Based Deep Cox Neural Network for Hepatocellular Carcinoma Prognosis Prediction
Cited by: 7
Author(s): Hua Chai, Xia Long, Lei Zhang, Jiarui Yang, Zhongyue Zhang, Xiangjun Qian, Yuedong Yang, Weidong Pan
Software Mentions: 2
Published: almost 5 years ago

10.7717/peerj.3890

voomDDA: discovery of diagnostic biomarkers and classification of RNA-seq data
Cited by: 14
Author(s): Gökmen Zararsız, Dinçer Göksülük, Bernd Klaus, Selçuk Korkmaz, Vahap Eldem, Erdem Karabulut, Ahmet Öztürk
Software Mentions: 2
Published: almost 9 years ago

10.3389/fonc.2020.575737

Combination of T-Cell Bispecific Antibodies With PD-L1 Checkpoint Inhibition Elicits Superior Anti-Tumor Activity
Cited by: 25
Author(s): Johannes Sam, Sara Colombetti, Tanja Fauti, Andreas Roller, Marlene Biehl, Linda Fahrni, Valeria Nicolini, Mario Perro, Tapan K. Nayak, Esther Bommer, Anne Schoenle, Μaria Karagianni, Marine Le Clech, Nathalie Steinhoff, Christian Klein, Pablo Umaña, Marina Bacac
Software Mentions: 2
Published: almost 6 years ago

10.7717/peerj.9633

Identification of 10 Hub genes related to the progression of colorectal cancer by co-expression analysis
Cited by: 7
Author(s): Jie Meng, Rui Su, Yun Liao, Yanyan Li, Ling Li
Software Mentions: 2
Published: about 6 years ago

10.3389/fonc.2021.711736

A Novel Prognostic Model Based on Autophagy-Related Long Non-Coding RNAs for Clear Cell Renal Cell Carcinoma
Cited by: 11
Author(s): Xinyuan Li, Haitao Yu, Zongjie Wei, Xin Gou, Simin Liang, Fu Liu
Software Mentions: 2
Published: about 5 years ago

10.7717/peerj.2130

The<i>in vitro</i>and<i>in vivo</i>effects of constitutive light expression on a bioluminescent strain of the mouse enteropathogen<i>Citrobacter rodentium</i>
Cited by: 5
Author(s): Hannah Read, Grant Mills, Sarah H. Johnson, Peter Tsai, James Dalton, Lars Barquist, Cristin G. Print, Wayne M. Patrick, Siouxsie Wiles
Software Mentions: 2
Published: about 10 years ago

10.7717/peerj.11655

Accuracy of triggering receptor expressed on myeloid cells 1 in diagnosis and prognosis of acute myocardial infarction: a prospective cohort study
Cited by: 5
Author(s): Zhenjun Ji, Rui Zhang, Mingming Yang, Wenjie Zuo, Yuyu Yao, Yangyang Qu, Yamin Su, Zhuyuan Liu, Ziran Gu, Genshan Ma
Software Mentions: 2
Published: about 5 years ago

10.7717/peerj.2433

Metaproteomics of saliva identifies human protein markers specific for individuals with periodontitis and dental caries compared to orally healthy controls
Cited by: 53
Author(s): Daniel Belstrøm, Rosa Rakownikow Jersie-Christensen, David Lyon, Christian Damgaard, Lars Juhl Jensen, Palle Holmstrup, Jesper V. Olsen
Software Mentions: 2
Published: about 10 years ago

10.3389/fped.2021.576585

Identification of Potential Diagnostic Gene Targets for Pediatric Sepsis Based on Bioinformatics and Machine Learning
Cited by: 2
Author(s): Ying Qiao, Bo Zhang, Ying Liu
Software Mentions: 2
Published: over 5 years ago

10.3389/fped.2021.617298

Differential Expression Profiles and Functional Analysis of Long Non-coding RNAs in Children With Dilated Cardiomyopathy
Cited by: 0
Author(s): Dongxiao Cai, Bo Han, Wei Sun, Li Zhang, Jing Wang, Diandong Jiang, Honglei Jia
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.9458

Transcriptome analysis reveals a reprogramming energy metabolism-related signature to improve prognosis in colon cancer
Cited by: 1
Author(s): Xinxin Zhang, Jiu Hua Xu, Yujia Lan, Fenghua Guo, Yun Xiao, Yixue Li, Xia Li
Software Mentions: 2
Published: about 6 years ago

10.3892/mmr.2015.3745

Involvement of enhancer of zeste homolog 2 in cisplatin-resistance in ovarian cancer cells by interacting with several genes
Cited by: 7
Author(s): Huali Wang, Yunhai Yu, Chen Chen, Qian Wang, Taiyi Huang, Fangzhen Hong, Lin Zhu
Software Mentions: 2
Published: over 11 years ago

10.1523/ENEURO.0152-18.2018

Combinatorial Expression of<i>Grp</i>and<i>Neurod6</i>Defines Dopamine Neuron Populations with Distinct Projection Patterns and Disease Vulnerability
Cited by: 39
Author(s): Daniel J. Kramer, Davide Risso, Polina Kosillo, John Ngai, Helen S. Bateup
Software Mentions: 2
Published: over 8 years ago

10.3389/fphar.2020.622212

Ursolic Acid Regulates Cell Cycle and Proliferation in Colon Adenocarcinoma by Suppressing Cyclin B1
Cited by: 9
Author(s): Minhui Yang, Changxiao Hu, Yibo Cao, Wei Liang, Xiangdong Yang, Tianbao Xiao
Software Mentions: 2
Published: over 5 years ago

10.18632/oncotarget.6599

Overcoming melanoma resistance to vemurafenib by targeting CCL2-induced miR-34a, miR-100 and miR-125b
Cited by: 77
Author(s): Elisabetta Vergani, Lorenza Di Guardo, Matteo Dugo, Sara Rigoletto, Gabrina Tragni, Roberta Ruggeri, Francesco Perrone, Elena Tamborini, Annunziata Gloghini, Flavio Arienti, Barbara Vergani, Paola Deho, Loris De Cecco, Viviana Vallacchi, Paola Frati, Eriomina Shahaj, Antonello Villa, Mario Santinami, Filippo de Braud, Licia Rivoltini, Monica Rodolfo
Software Mentions: 2
Published: almost 11 years ago

10.1053/j.gastro.2018.05.050

Selection and Application of Tissue microRNAs for Nonendoscopic Diagnosis of Barrett’s Esophagus
Cited by: 35
Author(s): Xiaodun Li, Sam O. Kleeman, Sally B Coburn, Carlo Fumagalli, Juliane Perner, Sriganesh Jammula, Ruth M. Pfeiffer, Linda D. Orzolek, Haiping Hao, Philip R. Taylor, Ahmad Miremadi, Núria Galeano-Dalmau, Pierre Lao-Sirieix, Maria Tennyson, Shona MacRae, Michael B. Cook, Rebecca C. Fitzgerald
Software Mentions: 2
Published: about 8 years ago

10.3390/genes9110525

Profiling Cellular Processes in Adipose Tissue during Weight Loss Using Time Series Gene Expression
Cited by: 5
Author(s): Samar Tareen, Michiel E. Adriaens, Ilja C. W. Arts, Theo M. de Kok, Roel Vink, Nadia Roumans, Marleen A. van Baak, E.C.M. Mariman, Chris T. Evelo, Martina Kutmon
Software Mentions: 2
Published: almost 8 years ago

10.3390/genes10030206

Identification of Novel Interaction Partners of Ets-1: Focus on DNA Repair
Cited by: 1
Author(s): Guillaume Brysbaert, Jérôme de Ruyck, Marc Aumercier, Marc F. Lensink
Software Mentions: 2
Published: over 7 years ago

10.3390/genes10090678

Focal Recurrent Copy Number Alterations Characterize Disease Relapse in High Grade Serous Ovarian Cancer Patients with Good Clinical Prognosis: A Pilot Study
Cited by: 8
Author(s): Matteo Dugo, Andrea Devecchi, Loris De Cecco, Erika Cecchin, Delia Mezzanzanica, Marialuisa Sensi, Marina Bagnoli
Software Mentions: 2
Published: about 7 years ago

10.1186/s10020-021-00342-y

The antioxidant N-acetylcysteine promotes immune response and inhibits epithelial-mesenchymal transition to alleviate pulmonary fibrosis in chronic obstructive pulmonary disease by suppressing the VWF/p38 MAPK axis
Cited by: 19
Author(s): Lihua Julie Zhu, Fei Xu, Xiuhua Kang, Jing Zhou, Qinqin Yao, Lefu Yang, Wei Zhang
Software Mentions: 2
Published: about 5 years ago

10.3390/genes11030334

Effect of Transgenesis on mRNA and miRNA Profiles in Cucumber Fruits Expressing Thaumatin II
Cited by: 7
Author(s): Magdalena Pawełkowicz, Agnieszka Skarzyńska, Małgorzata Sroka, M. Szwacka, Tomasz Pniewski, Wojciech Pląder
Software Mentions: 2
Published: over 6 years ago

10.1186/s10020-020-00252-5

Identification of an RNA binding protein-related gene signature in hepatocellular carcinoma patients
Cited by: 8
Author(s): Li Wang, Na Zhou, Jing Qu, Man Jiang
Software Mentions: 2
Published: almost 6 years ago

10.3390/genes11040372

Validation of the Reference Genes for the Gene Expression Studies in Chicken DT40 Cell Line
Cited by: 6
Author(s): Aleksandra Dunisławska, Anna Sławińska, Maria Siwek
Software Mentions: 2
Published: over 6 years ago

10.3390/genes11080914

Using Micro- and Macro-Level Network Metrics Unveils Top Communicative Gene Modules in Psoriasis
Cited by: 2
Author(s): Reyhaneh Naderi, Homa Mollaei, Arne Elofsson, Saman Hosseini Ashtiani
Software Mentions: 2
Published: about 6 years ago

10.1002/mgg3.607

The promising novel biomarkers and candidate small molecule drugs in kidney renal clear cell carcinoma: Evidence from bioinformatics analysis of high‐throughput data
Cited by: 31
Author(s): Bo Zhang, Qiong Wu, Ziheng Wang, Ran Xu, Xinyi Hu, Yidan Sun, Qiuhong Wang, Fei Ju, Shengxiang Ren, Chenlin Zhang, Qin Lin, Qianqian Ma, You Zhou
Software Mentions: 2
Published: over 7 years ago

10.1523/ENEURO.0313-19.2020

Registered Report: Transcriptional Analysis of Savings Memory Suggests Forgetting is Due to Retrieval Failure
Cited by: 0
Author(s): Tania Rosiles, Melissa Nguyen, Monica Duron, Annette Garcia, George Garcia, Hannah Gordon, Lorena Juarez, Irina Calin‐Jageman, Robert Calin-Jageman
Software Mentions: 2
Published: about 6 years ago

10.1002/mgg3.713

Identification of novel biomarkers and small molecule drugs in human colorectal cancer by microarray and bioinformatics analysis
Cited by: 28
Author(s): Juan Chen, Ziheng Wang, Xianjuan Shen, Xiaopeng Cui, Yijun Guo
Software Mentions: 2
Published: over 7 years ago

10.3390/genes11091016

The Acidic Stress Response of the Intracellular Pathogen Brucella melitensis: New Insights from a Comparative, Genome-Wide Transcriptome Analysis
Cited by: 0
Author(s): Jonathan D. Kornspan, Tamar Zahavi, Mali Salmon‐Divon
Software Mentions: 2
Published: about 6 years ago

10.3390/molecules26133924

A Transcriptomic Approach to the Metabolism of Tetrapyrrolic Photosensitizers in a Marine Annelid
Cited by: 4
Author(s): Maria Leonor Santos, Mariaelena D’Ambrosio, Ana P. Rodrigo, A. Jorge Parola, Pedro M. Costa
Software Mentions: 2
Published: about 5 years ago

10.3390/genes12010047

Transcriptomic Analysis of a Diabetic Skin-Humanized Mouse Model Dissects Molecular Pathways Underlying the Delayed Wound Healing Response
Cited by: 6
Author(s): Carlos León, Francisco García‐García, Sara Llames, Eva García-Pérez, Marta Carretero, María Del Carmen de Arriba, Joaquı́n Dopazo, Marcela Del Río, M.J. Escámez, Lucía Martínez-Santamaría
Software Mentions: 2
Published: over 5 years ago

10.18632/oncotarget.7396

Transcriptomic analysis of aggressive meningiomas identifies PTTG1 and LEPR as prognostic biomarkers independent of WHO grade
Cited by: 32
Author(s): Melissa Schmidt, Andreas Möck, Christine Jungk, Felix Sahm, Anna Theresa Ull, Rolf Warta, Katrin Lamszus, Konstantinos Gousias, Ralf Ketter, Saskia Roesch, Carmen Rapp, Sebastian Schefzyk, Steffi Urbschat, Bernd Lahrmann, Almuth F. Keßler, Mario Löhr, Christian Senft, Niels Grabe, David Reuß, Philipp Beckhove, Manfred Westphal, Andreas von Deimling, Andreas Unterberg, Matthias Simon, Christel Herold‐Mende
Software Mentions: 2
Published: over 10 years ago

10.3390/genes12020319

Meta-Analysis of Gene Popularity: Less Than Half of Gene Citations Stem from Gene Regulatory Networks
Cited by: 3
Author(s): Ionut Sebastian Mihai, Debojyoti Das, Gabija Maršalkaite, Johan Henriksson
Software Mentions: 2
Published: over 5 years ago

10.1074/mcp.TIR119.001906

A Compact Quadrupole-Orbitrap Mass Spectrometer with FAIMS Interface Improves Proteome Coverage in Short LC Gradients
Cited by: 238
Author(s): Dorte B. Bekker-Jensen, Ana Martínez-Val, Sophia Steigerwald, Patrick Rüther, Kyle L. Fort, Tabiwang N. Arrey, Alexander Harder, Alexander Makarov, Jesper V. Olsen
Software Mentions: 2
Published: over 6 years ago

10.18632/oncotarget.8420

Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Cited by: 136
Author(s): Diana Rose E. Rañoa, Akash D. Parekh, Sean P. Pitroda, Xiaona Huang, Thomas E. Darga, Anthony Wong, Lei Huang, Jorge Andrade, Jonathan P. Staley, Takashi Satoh, Shizuo Akira, Ralph R. Weichselbaum, Nikolai N. Khodarev
Software Mentions: 2
Published: over 10 years ago

10.3390/genes12030419

Set-Based Rare Variant Expression Quantitative Trait Loci in Blood and Brain from Alzheimer Disease Study Participants
Cited by: 5
Author(s): Devanshi Patel, Xiaoling Zhang, John Farrell, Kathryn L. Lunetta, Lindsay A. Farrer
Software Mentions: 2
Published: over 5 years ago

10.1016/j.mcpro.2021.100135

A Universal Peptide Matrix Interactomics Approach to Disclose Motif-Dependent Protein Binding
Cited by: 14
Author(s): Evelyn Ramberger, Lorena Suarez-Artiles, Daniel Hernández, Mohamed Haji, Oliver Popp, Ulf Reimer, Achim Leutz, Gunnar Dittmar, Philipp Mertins
Software Mentions: 2
Published: over 5 years ago

10.1074/mcp.M114.042499

Histone Deacetylase Inhibitors (HDACi) Cause the Selective Depletion of Bromodomain Containing Proteins (BCPs)
Cited by: 24
Author(s): Marie‐Therese Mackmull, Murat Iskar, Luca Parca, Stephan Singer, Peer Bork, Alessandro Ori, Martin Beck
Software Mentions: 2
Published: over 11 years ago

10.1186/s12885-020-07596-5

Systematic profiling of diagnostic and prognostic value of autophagy-related genes for sarcoma patients
Cited by: 2
Author(s): Yuanhe Wang, Jianyi Li, Chen Shao, Xiaojie Tang, Yukun Du, Tongshuai Xu, Zheng Zhao, Huiqiang Hu, Yingyi Sheng, Chuan Hu, Yongming Xi
Software Mentions: 2
Published: over 5 years ago

10.1128/MCB.00145-13

Epigenetic Functions of Smchd1 Repress Gene Clusters on the Inactive X Chromosome and on Autosomes
Cited by: 96
Author(s): Anne-Valérie Gendrel, Y. Amy Tang, Masako Suzuki, Jonathan Godwin, Tatyana B. Nesterova, John M. Greally, Edith Heard, Neil Brockdorff
Software Mentions: 2
Published: about 13 years ago

10.18632/oncotarget.8544

Comprehensive analysis of genome-wide DNA methylation across human polycystic ovary syndrome ovary granulosa cell
Cited by: 42
Author(s): Jie Xu, Xiaojing Bao, Zhaoliang Peng, Linlin Wang, Linqing Du, Wenbin Niu, Yingpu Sun
Software Mentions: 2
Published: over 10 years ago

10.1007/s12263-015-0470-6

Network-based integration of molecular and physiological data elucidates regulatory mechanisms underlying adaptation to high-fat diet
Cited by: 7
Author(s): Davina Derous, Thomas Kelder, Evert M. van Schothorst, Marjan van Erk, Anja Voigt, К. Schimrigk, Jaap Keijer, Marijana Radonjić
Software Mentions: 2
Published: over 11 years ago

10.1186/1476-4598-8-80

Chemoresistance acquisition induces a global shift of expression of aniogenesis-associated genes and increased pro-angogenic activity in neuroblastoma cells
Cited by: 28
Author(s): Martin Michaelis, Denise Klassert, Susanne Barth, Tatyana Suhan, Rainer Breitling, Bernd Mayer, Nora Hinsch, Hans Wilhelm Doerr, Jaroslav Činátl, Jindřich Činátl
Software Mentions: 2
Published: almost 17 years ago

10.1523/ENEURO.0240-16.2016

Integrative Analysis of Disease Signatures Shows Inflammation Disrupts Juvenile Experience-Dependent Cortical Plasticity
Cited by: 16
Author(s): Mary Patricia Smith, Poromendro Burman, Masato Sadahiro, Brian Kidd, Joel T. Dudley, Hirofumi Morishita
Software Mentions: 2
Published: almost 10 years ago

10.1523/ENEURO.0397-19.2019

Identification of a Sacral, Visceral Sensory Transcriptome in Embryonic and Adult Mice
Cited by: 18
Author(s): Casey J. A. Smith-Anttila, Elizabeth A. Mason, Christine Wells, Bruce J. Aronow, Peregrine B. Osborne, Janet R. Keast
Software Mentions: 2
Published: over 6 years ago

10.1016/j.gdata.2015.06.022

Gene expression profiling of DBA/2J mice cochleae treated with l-methionine and valproic acid
Cited by: 1
Author(s): Fuyuki Miya, Hideki Mutai, Masato Fujisawa, Keith A. Boroevich, Tatsuo Matsunaga, Tatsuhiko Tsunoda
Software Mentions: 2
Published: about 11 years ago

10.1186/gb-2007-8-2-r28

A genome-wide transcriptional activity survey of rice transposable element-related genes
Cited by: 47
Author(s): Yuling Jiao, Xing Wang Deng
Software Mentions: 2
Published: over 19 years ago

10.1186/gb-2007-8-4-r49

Integration of Arabidopsis thaliana stress-related transcript profiles, promoter structures, and cell-specific expression
Cited by: 215
Author(s): Shisong Ma, Hans J. Bohnert
Software Mentions: 2
Published: over 19 years ago

10.1186/gb-2007-8-4-r63

Global analyses of mRNA translational control during early Drosophila embryogenesis
Cited by: 79
Author(s): Xiaoli Qin, Soyeon Ahn, Terence P. Speed, Gerald M. Rubin
Software Mentions: 2
Published: over 19 years ago

10.1186/gb-2007-8-12-r262

Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes
Cited by: 121
Author(s): Christina Curtis, Gary N. Landis, Donna G. Folk, Nancy B. Wehr, Nicholas Hoe, Morris Waskar, Diana Abdueva, Dmitriy Skvortsov, Daniel Ford, Allan Luu, Ananth Badrinath, Rodney L. Levine, Timothy J. Bradley, Simon Tavaré, John Tower
Software Mentions: 2
Published: over 19 years ago

10.1186/gb-2007-8-10-r228

Breaking the waves: improved detection of copy number variation from microarray-based comparative genomic hybridization
Cited by: 131
Author(s): John C. Marioni, Natalie Thorne, Armand Valsesia, Tomas Fitzgerald, Richard Redon, Heike Fiegler, T. Daniel Andrews, Barbara Elaine Stranger, Andy G. Lynch, Emmanouil T. Dermitzakis, Nigel P. Carter, Simon Tavaré, Matthew E. Hurles
Software Mentions: 2
Published: over 19 years ago

10.1186/gb-2010-11-4-r42

Monovalent and unpoised status of most genes in undifferentiated cell-enriched Drosophila testis
Cited by: 66
Author(s): Qiang Gan, Dustin E. Schones, Suk Ho Eun, Gang Wei, Kairong Cui, Keji Zhao, Xin Chen
Software Mentions: 2
Published: over 16 years ago

10.18632/oncotarget.10539

Establishment and antitumor effects of dasatinib and PKI-587 in BD-138T, a patient-derived muscle invasive bladder cancer preclinical platform with concomitant EGFR amplification and PTEN deletion
Cited by: 7
Author(s): Nakho Chang, Hye Won Lee, Ji Hyun Lim, Da Eun Jeong, Hye Jin Song, Sudong Kim, Do‐Hyun Nam, Hyun Hwan Sung, Byong Chang Jeong, Seong Il Seo, Seong Soo Jeon, Hyun Moo Lee, Han-Yong Choi, Hwang Gyun Jeon
Software Mentions: 2
Published: about 10 years ago

10.18632/oncotarget.10586

Bioinformatics facilitating the use of microarrays to delineate potential miRNA biomarkers in aristolochic acid nephropathy
Cited by: 3
Author(s): Yana Lv, Yumei Que, Qiao Su, Qiang Li, Xi Chen, Haitao Lü
Software Mentions: 2
Published: about 10 years ago

10.1186/gb-2012-13-4-r28

Mediation of Drosophila autosomal dosage effects and compensation by network interactions
Cited by: 90
Author(s): John H. Malone, Dong-Yeon Cho, Nicolas R. Mattiuzzo, Carlo G. Artieri, Lichun Jiang, Ryan K. Dale, Harold E. Smith, Jennifer McDaniel, Sarah A. Munro, Marc Salit, Justen Andrews, Teresa M. Przytycka, Brian Oliver
Software Mentions: 2
Published: over 14 years ago

10.1186/gb-2014-15-3-r51

Imperfect centered miRNA binding sites are common and can mediate repression of target mRNAs
Cited by: 107
Author(s): Hilary C. Martin, Shivangi Wani, Anita L Steptoe, K. V. Krishnan, Kátia Nones, Ehsan Nourbakhsh, Alexander V. Vlassov, Sean M. Grimmond, Nicole Cloonan
Software Mentions: 2
Published: over 12 years ago

10.1186/1476-4598-12-156

Regulation of PMP22 mRNA by G3BP1 affects cell proliferation in breast cancer cells
Cited by: 53
Author(s): Sofia Winslow, Karin Leandersson, Christer Larsson
Software Mentions: 2
Published: almost 13 years ago

10.1186/s12943-014-0286-9

ID helix-loop-helix proteins as determinants of cell survival in B-cell chronic lymphocytic leukemia cells in vitro
Cited by: 13
Author(s): Sarah R. Weiler, Jolaolu A Ademokun, John D. Norton
Software Mentions: 2
Published: over 11 years ago

10.18632/oncotarget.11136

Integrative analysis of miRNA and gene expression reveals regulatory networks in tamoxifen-resistant breast cancer
Cited by: 27
Author(s): Tejal Joshi, Daniel Eliáš, Jan Stenvang, Carla L. Alves, Fei Teng, Maria Bibi Lyng, Annè E. Lykkesfeldt, Nils Brünner, Jun Wang, Ramneek Gupta, Christopher T. Workman, Henrik J. Ditzel
Software Mentions: 2
Published: about 10 years ago

10.1186/s13059-014-0561-5

NF-κB-direct activation of microRNAs with repressive effects on monocyte-specific genes is critical for osteoclast differentiation
Cited by: 63
Author(s): Lorenzo de la Rica, Antonio García-Gómez, Natalia Ramirez Comet, Javier Rodríguez-Ubreva, Laura Ciudad, Roser Vento‐Tormo, Damiana Álvarez-Errico, Mireia García, Carmen Gómez-Vaquero, Esteban Ballestar
Software Mentions: 2
Published: over 11 years ago

10.1186/1476-4598-13-28

Integrated analysis of microRNA and mRNA expression and association with HIF binding reveals the complexity of microRNA expression regulation under hypoxia
Cited by: 129
Author(s): Carme Camps, Harpreet K. Saini, David R. Mole, Hani Choudhry, Martin Reczko, José Afonso Guerra-Assunção, Ya-Min Tian, Francesca M. Buffa, Adrian L. Harris, Artemis G. Hatzigeorgiou, Anton J. Enright, Jiannis Ragoussis
Software Mentions: 2
Published: over 12 years ago

10.1186/1476-4598-6-13

Integrative analysis of a cancer somatic mutome
Cited by: 23
Author(s): Pilar Hernández, Xavier Solé, Joan Valls, Vı́ctor Moreno, Gabriel Capellá, Ander Urruticoechea, Miguel Ángel Pujana
Software Mentions: 2
Published: over 19 years ago

10.1186/s13059-015-0594-4

Methylation-dependent SOX9 expression mediates invasion in human melanoma cells and is a negative prognostic factor in advanced melanoma
Cited by: 75
Author(s): Phil F. Cheng, Olga Shakhova, Daniel Widmer, Ossia M. Eichhoff, Daniel Zingg, Sandra C. Frommel, Benedetta Belloni, Marieke I.G. Raaijmakers, Simone M. Goldinger, Raffaella Santoro, Silvio Hemmi, Lukas Sommer, Reinhard Dummer, Mitchell P. Levesque
Software Mentions: 2
Published: over 11 years ago

10.1186/s13059-015-0630-4

Denoising perturbation signatures reveal an actionable AKT-signaling gene module underlying a poor clinical outcome in endocrine-treated ER+ breast cancer
Cited by: 5
Author(s): Andrew E. Teschendorff, Linlin Li, Zhen Yang
Software Mentions: 2
Published: over 11 years ago

10.1186/s13041-019-0436-5

Gene expression meta-analysis of Parkinson’s disease and its relationship with Alzheimer’s disease
Cited by: 43
Author(s): Jack Kelly, Rana Moyeed, Camille Carroll, Diego Albani, Xinzhong Li
Software Mentions: 2
Published: over 7 years ago

10.1186/s13059-015-0782-2

Response to Zhou and Robinson
Cited by: 0
Author(s): Doron Betel, Nicholas D. Socci, Raya Khanin, Christopher E. Mason, Franck Rapaport
Software Mentions: 2
Published: almost 11 years ago

10.1186/s13041-019-0498-4

Circular RNA expression profile in the spinal cord of morphine tolerated rats and screen of putative key circRNAs
Cited by: 17
Author(s): Yingqi Weng, Jing Wu, Lin Li, Jiali Shao, Zhengyiqi Li, Meiling Deng, Wangyuan Zou
Software Mentions: 2
Published: almost 7 years ago

10.1186/s13059-016-1066-1

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling
Cited by: 827
Author(s): Ruth Pidsley, Elena Zotenko, Timothy J. Peters, Mitchell G. Lawrence, Gail P. Risbridger, Peter L. Molloy, Susan Van Djik, Beverly S. Mühlhäusler, Clare Stirzaker, Susan J. Clark
Software Mentions: 2
Published: almost 10 years ago

10.1186/s13059-016-1084-z

Integrative analysis of genetic data sets reveals a shared innate immune component in autism spectrum disorder and its co-morbidities
Cited by: 43
Author(s): Sumaiya Nazeen, Nathan Palmer, Bonnie Berger, Isaac S. Kohane
Software Mentions: 2
Published: almost 10 years ago

10.18632/oncotarget.11553

Numb-like (NumbL) downregulation increases tumorigenicity, cancer stem cell-like properties and resistance to chemotherapy
Cited by: 37
Author(s): José Manuel García-Heredia, Eva M. Verdugo‐Sivianes, Antonio Lucena-Cacace, Sonia Molina-Pinelo, Amancio Carnero
Software Mentions: 2
Published: about 10 years ago

10.18632/oncotarget.12992

Ammonium tetrathiomolybdate treatment targets the copper transporter ATP7A and enhances sensitivity of breast cancer to cisplatin
Cited by: 38
Author(s): Cristine Chisholm, Haitao Wang, Ada Hang Heng Wong, Guelaguetza Vázquez-Ortíz, Weiping Chen, Xiaoling Xu, Chu Xia Deng
Software Mentions: 2
Published: almost 10 years ago

10.3390/microorganisms7070195

Dynamic Gene Network Analysis of Caco-2 Cell Response to Shiga Toxin-Producing Escherichia coli-Associated Hemolytic–Uremic Syndrome
Cited by: 6
Author(s): Sílvia Yumi Bando, Priscila Iamashita, Filipi Nascimento Silva, Luciano da Fontoura Costa, Cecília M. Abe, Fernanda Bernardi Bertonha, Beatriz Ernestina Cabílio Guth, André Fujita, Carlos Alberto Moreira-Filho
Software Mentions: 2
Published: about 7 years ago

10.1186/s13059-017-1331-y

The human lncRNA LINC-PINT inhibits tumor cell invasion through a highly conserved sequence element
Cited by: 153
Author(s): Oskar Marín-Béjar, Aina Maria Mas, Jovanna González, Dannys Martínez, Alejandro Athie, Xabier Morales, Mikel Galduroz, Ivan Raimondi, E Grossi, Shuling Guo, Ana Rouzaut, Igor Ulitsky, Maite Huarte
Software Mentions: 2
Published: almost 9 years ago

10.1186/s13059-017-1366-0

Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development
Cited by: 34
Author(s): Yuting Chen, Martin Widschwendter, Andrew E. Teschendorff
Software Mentions: 2
Published: almost 9 years ago

10.1186/s13059-018-1442-0

MICMIC: identification of DNA methylation of distal regulatory regions with causal effects on tumorigenesis
Cited by: 20
Author(s): Yin Tong, Jie Sun, Chi Fat Wong, Qianjin Kang, Beibei Ru, Ching Ngar Wong, Alexander C.L. Chan, Suet Yi Leung, Jiangwen Zhang
Software Mentions: 2
Published: over 8 years ago