bioconductor: limma | Projects | Ecosyste.ms: Papers

10.1186/s12920-020-00740-x

Integrative analyses of gene expression profile reveal potential crucial roles of mitotic cell cycle and microtubule cytoskeleton in pulmonary artery hypertension
Cited by: 15
Author(s): Jing Luo, Haiyan Li, Zhenwei Liu, Chenlu Li, Ruochen Wang, Jinxia Fang, Saisai Lu, Jing Guo, Xiongzhao Zhu, Xiaobing Wang
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2020.00505

Analysis of Circular RNA-Related Competing Endogenous RNA Identifies the Immune-Related Risk Signature for Colorectal Cancer
Cited by: 16
Author(s): Wei Song, Jun Ren, Chuntao Wang, Yuhang Ge, Tao Fu
Software Mentions: 5
Published: over 6 years ago

10.7554/eLife.61257

Evolutionary transcriptomics implicates HAND2 in the origins of implantation and regulation of gestation length
Cited by: 30
Author(s): Mirna Marinić, Katelyn Mika, Sravanthi Chigurupati, Vincent J. Lynch
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.11418

An epigenetic switch ensures transposon repression upon dynamic loss of DNA methylation in embryonic stem cells
Cited by: 212
Author(s): Marius Walter, Aurélie Teissandier, Raquel Pérez-Palacios, Déborah Bourc’his
Software Mentions: 5
Published: over 10 years ago

10.3389/fgene.2021.617133

Weighted Correlation Gene Network Analysis Reveals New Potential Mechanisms and Biomarkers in Non-obstructive Azoospermia
Cited by: 10
Author(s): Meng Dong, Hao Li, Xue Zhang, Jichun Tan
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2020.595361

Identification of Hub Prognosis-Associated Oxidative Stress Genes in Pancreatic Cancer Using Integrated Bioinformatics Analysis
Cited by: 8
Author(s): Xin Qiu, Qin-Han Hou, Qiuyue Shi, Haixing Jiang, Shanyu Qin
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0086299

Functional Module Connectivity Map (FMCM): A Framework for Searching Repurposed Drug Compounds for Systems Treatment of Cancer and an Application to Colorectal Adenocarcinoma
Cited by: 33
Author(s): Feng Hsiang Chung, Yun Ru Chiang, Ai Lun Tseng, Yung Chuan Sung, Jean Lu, Min Chang Huang, Nianhan Ma, Hoong Chien Lee
Software Mentions: 5
Published: over 12 years ago

10.3389/fgene.2021.653209

Exploring the Imbalance of Periodontitis Immune System From the Cellular to Molecular Level
Cited by: 11
Author(s): Long-Fei He, Lijuan Liu, Ti Li, Deshu Zhuang, Jiayin Dai, Bo Wang, Liangjia Bi
Software Mentions: 5
Published: over 5 years ago

10.3390/biom9100586

Allogenic Faecal Microbiota Transfer Induces Immune-Related Gene Sets in the Colon Mucosa of Patients with Irritable Bowel Syndrome
Cited by: 5
Author(s): Savanne Holster, Guido Hooiveld, Dirk Repsilber, Willem M. de Vos, Robert Jan Brummer, Julia König
Software Mentions: 5
Published: almost 7 years ago

10.7554/eLife.49558

Long non-coding RNA GRASLND enhances chondrogenesis via suppression of the interferon type II signaling pathway
Cited by: 23
Author(s): Nguyen P.T. Huynh, Catherine C. Gloss, Jeremiah Lorentz, Ruhang Tang, Jonathan M. Brunger, Audrey McAlinden, Bo Zhang, Farshid Guilak
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.11422

The relationship between PLOD1 expression level and glioma prognosis investigated using public databases
Cited by: 5
Author(s): Lei Tian, Huandi Zhou, Guohui Wang, Wen Yan Wang, Yuehong Li, Xiaoying Xue
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.39188

Integrated systems analysis reveals conserved gene networks underlying response to spinal cord injury
Cited by: 27
Author(s): Jordan W. Squair, Seth Tigchelaar, Kyung‐Mee Moon, Jie Liu, Wolfram Tetzlaff, Brian K. Kwon, Andrei V. Krassioukov, Christopher R. West, Leonard J. Foster, Michael A. Skinnider
Software Mentions: 5
Published: almost 8 years ago

10.7554/eLife.34042

Differential 3’ processing of specific transcripts expands regulatory and protein diversity across neuronal cell types
Cited by: 21
Author(s): Saša Jereb, Hun‐Way Hwang, Eric Van Otterloo, Eve-Ellen Govek, John Fak, Yuan Yuan, Mary E. Hatten, Robert B. Darnell
Software Mentions: 5
Published: over 8 years ago

10.3389/fgene.2020.00863

N6-Methyladenosine RNA Methylation Regulators Have Clinical Prognostic Values in Hepatocellular Carcinoma
Cited by: 4
Author(s): Wei Liu, Cuiqing Zhong, Deguan Lv, Mengjie Tang, Feng Xie
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2021.670746

P2RY14 Is a Potential Biomarker of Tumor Microenvironment Immunomodulation and Favorable Prognosis in Patients With Head and Neck Cancer
Cited by: 8
Author(s): Qingxiang Li, Le Xu, Yuke Li, Rong Yang, Qiao Qiao, Yifei Wang, Lin Wang, Yuxing Guo, Chuanbin Guo
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.707713

Identification of Candidate Blood mRNA Biomarkers in Intracerebral Hemorrhage Using Integrated Microarray and Weighted Gene Co-expression Network Analysis
Cited by: 3
Author(s): Feng Jin, Lei Li, Yuehan Hao, Ling Tang, Yuye Wang, Zhiyi He
Software Mentions: 5
Published: about 5 years ago

10.1002/cam4.3353

Construction of a lipid metabolism‐related and immune‐associated prognostic signature for hepatocellular carcinoma
Cited by: 37
Author(s): Bo Hu, Xiaobo Yang, Xinting Sang
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0251800

Comparison of machine-learning methodologies for accurate diagnosis of sepsis using microarray gene expression data
Cited by: 5
Author(s): Dominik Schaack, Markus A. Weigand, Florian Uhle
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.56474

A divergent cyclin/cyclin-dependent kinase complex controls the atypical replication of a malaria parasite during gametogony and transmission
Cited by: 42
Author(s): Aurélia C. Balestra, Mohammad Zeeshan, Edward Rea, Carla Pasquarello, Lorenzo Brusini, Tobias Mourier, Amit Kumar Subudhi, Natacha Klages, Patrizia Arboit, Rajan Kumar Pandey, Declan Brady, Sue Vaughan, Anthony A. Holder, Arnab Pain, David Ferguson, Alexandre Hainard, Rita Tewari, Mathieu Brochet
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2015.00169

Identifying differential transcription factor binding in ChIP-seq
Cited by: 21
Author(s): Dai-Ying Wu, Danielle Bittencourt, Michael R. Stallcup, Kimberly D. Siegmund
Software Mentions: 5
Published: over 11 years ago

10.3389/fgene.2021.707299

Esophageal Cancer Associated Immune Genes as Biomarkers for Predicting Outcome in Upper Gastrointestinal Tumors
Cited by: 9
Author(s): Chuanhui Zhu, Qianqian Xia, Bin Gu, Mengjing Cui, Xing Zhang, Wenjing Yan, Dan Meng, Siyuan Shen, Shuqian Xie, Xueliang Li, Hua Jin, Shizhi Wang
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.722803

Identification of Potential Biomarkers for Psoriasis by DNA Methylation and Gene Expression Datasets
Cited by: 9
Author(s): Yong Liu, Shengnan Cui, Jiayi Sun, Xin Yan, Dongran Han
Software Mentions: 5
Published: about 5 years ago

10.1002/cam4.3959

IBSP, a potential recurrence biomarker, promotes the progression of colorectal cancer via Fyn/β‐catenin signaling pathway
Cited by: 8
Author(s): Cheng Yan, Ying Qin, Mengmeng Dai, Liping Liu, Yicheng Ni, Qiao Sun, Lulu Li, Yaoyao Zhou, Cheng Qiu, Yuyang Jiang
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2020.579709

Potential of Immune-Related Genes as Biomarkers for Diagnosis and Subtype Classification of Preeclampsia
Cited by: 8
Author(s): Ying Wang, Zhen Li, Guanhua Song, Jun Wang
Software Mentions: 5
Published: almost 6 years ago

10.3389/fgene.2021.622683

Bioinformatics Analysis Identifies Molecular Markers Regulating Development and Progression of Endometriosis and Potential Therapeutic Drugs
Cited by: 7
Author(s): Ying Peng, Cheng Peng, Fang Zheng, Gang Chen
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.619821

Comprehensive Profiling Reveals Distinct Microenvironment and Metabolism Characterization of Lung Adenocarcinoma
Cited by: 3
Author(s): Li Chang, Chen Tian, Yangyang Liu, Jinyan Liang, Yue Zeng, Qifan Yang, Yuting Liu, Di Wu, Jingjing Wu, Juanjuan Wang, Kai Zhang, Fei Gu, Yue Hu, Li Liu
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.11012

Changes in diversity and community assembly of jumping spiders (Araneae: Salticidae) after rainforest conversion to rubber and oil palm plantations
Cited by: 13
Author(s): André Junggebauer, Tamara R. Hartke, Daniel Ramos, Ina Schaefer, Damayanti Buchori, Purnama Hidayat, Stefan Scheu, Jochen Drescher
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pgen.1008611

A non-canonical RNAi pathway controls virulence and genome stability in Mucorales
Cited by: 17
Author(s): Carlos Pérez-Arques, María Isabel Navarro-Mendoza, Laura Murcia, Eusebio Navarro, Victoriano Garre
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2021.672674

Four Prognosis-Associated lncRNAs Serve as Biomarkers in Ovarian Cancer
Cited by: 10
Author(s): Jianfeng Zheng, Jialu Guo, Huizhi Zhang, Benben Cao, XU Guomin, Zhifen Zhang, Jinyi Tong
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pmed.1003229

Maternal dysglycaemia, changes in the infant’s epigenome modified with a diet and physical activity intervention in pregnancy: Secondary analysis of a randomised control trial
Cited by: 52
Author(s): Elie Antoun, Negusse Tadesse Kitaba, Philip Titcombe, Kathryn V. Dalrymple, Emma Garratt, Sheila J. Barton, Robert Murray, Paul Seed, Joanna D. Holbrook, Michael S. Kobor, David T.S. Lin, Julia L. MacIsaac, Graham C. Burdge, Sara L. White, Lucilla Poston, Keith M. Godfrey, Karen A. Lillycrop
Software Mentions: 5
Published: almost 6 years ago

10.3389/fgene.2021.570336

A Novel Immune-Related Prognostic Signature in Head and Neck Squamous Cell Carcinoma
Cited by: 10
Author(s): Yi Zhang, Ping Chen, Qiang Zhou, Hongyan Wang, Qingquan Hua, Jie Wang, Hongliang Zhong
Software Mentions: 5
Published: over 5 years ago

10.3389/fimmu.2019.01716

Enhanced Immunomodulation in Inflammatory Environments Favors Human Cardiac Mesenchymal Stromal-Like Cells for Allogeneic Cell Therapies
Cited by: 3
Author(s): Falk Diedrichs, Meaghan Stolk, Karsten Jürchott, Marion Haag, Michael Sittinger, Martina Seifert
Software Mentions: 5
Published: about 7 years ago

10.1155/2020/2514230

Deciphering N6-Methyladenosine-Related Genes Signature to Predict Survival in Lung Adenocarcinoma
Cited by: 26
Author(s): Jie Zhu, Min Wang, Daixing Hu
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pntd.0007361

Host species and site of collection shape the microbiota of Rift Valley fever vectors in Kenya
Cited by: 3
Author(s): David P. Tchouassi, Ephantus J. Muturi, Samwel O. Arum, Chang‐Hyun Kim, Christopher J. Fields, Baldwyn Torto
Software Mentions: 5
Published: over 7 years ago

10.3389/fimmu.2019.01629

Sonic Hedgehog Is a Determinant of γδ T-Cell Differentiation in the Thymus
Cited by: 12
Author(s): Konstantinos Mengrelis, Ching‐In Lau, Jasmine Rowell, Anisha Solanki, S. Norris, Scott R. Ross, M. Ono, Susan V. Outram, Tessa Crompton
Software Mentions: 5
Published: about 7 years ago

10.1155/2020/1980921

Identification of Differentially Expressed Genes and miRNAs Associated with Esophageal Squamous Cell Carcinoma by Integrated Analysis of Microarray Data
Cited by: 4
Author(s): Lemeng Zhang, Jianhua Chen, Tianli Cheng, Hua Yang, Changqie Pan, Haitao Li
Software Mentions: 5
Published: about 6 years ago

10.1155/2020/8832739

Identification of 5-Gene Signature Improves Lung Adenocarcinoma Prognostic Stratification Based on Differential Expression Invasion Genes of Molecular Subtypes
Cited by: 19
Author(s): Zhaoxu Zheng, Weijie Deng, Jiansheng Yang
Software Mentions: 5
Published: over 5 years ago

10.3389/fimmu.2018.02406

Molecular Signature of Aluminum Hydroxide Adjuvant in Ovine PBMCs by Integrated mRNA and microRNA Transcriptome Sequencing
Cited by: 15
Author(s): Endika Varela-Martínez, Naiara Abendaño, Javier Asín, Maialen Sistiaga-Poveda, Marta Pérez, Ramsés Reina, D. de Andrés, Lluís Luján, Begoña M. Jugo
Software Mentions: 5
Published: almost 8 years ago

10.3390/microarrays3040212

The Robustness of Pathway Analysis in Identifying Potential Drug Targets in Non-Small Cell Lung Carcinoma
Cited by: 1
Author(s): Andrew R. Dalby, Ian Bailey
Software Mentions: 5
Published: almost 12 years ago

10.3389/fmed.2021.637885

Acid pH Increases SARS-CoV-2 Infection and the Risk of Death by COVID-19
Cited by: 19
Author(s): Leandro Jimenez, Ana Campos Codo, Vanderson de Souza Sampaio, Antônio Edson Rocha Oliveira, Lucas Kaoru Kobo Ferreira, Gustavo Gastão Davanzo, Lauar de Brito Monteiro, João Victor Virgílio-da-Silva, Mayla Gabriela Silva Borba, Gabriela Fabiano de Souza, Nathalia Zini, F Gandolfi, Stéfanie Primon Muraro, José Luiz Proença-Módena, Fernando Almeida Val, Gisely Cardoso de Melo, Wuelton Marcelo Monteiro, Maurício Lacerda Nogueira, Marcus Vinícius Guimarães Lacerda, Pedro M. Moraes‐Vieira, Helder I. Nakaya
Software Mentions: 5
Published: about 5 years ago

10.3389/fphar.2020.577150

Screening and Identification of Key Biomarkers in Acquired Lapatinib-Resistant Breast Cancer
Cited by: 4
Author(s): Shengnan Bao, Yi Chen, Fan Yang, Chunxiao Sun, Mingli Yang, Li Wei, Xiang Huang, Jun Li, Hao Wu, Yongmei Yin
Software Mentions: 5
Published: about 6 years ago

10.7717/peerj.7071

Bioinformatic pipelines for whole transcriptome sequencing data exploitation in leukemia patients with complex structural variants
Cited by: 1
Author(s): Jakub Hynšt, Karla Plevová, Lenka Radová, Vojtěch Bystrý, Karol Pál, Šárka Pospı́šilová
Software Mentions: 4
Published: over 7 years ago

10.1186/1471-2164-11-441

Array comparative genomic hybridization analysis of Trichoderma reesei strains with enhanced cellulase production properties
Cited by: 80
Author(s): Marika Vitikainen, Mikko Arvas, Tiina Pakula, Merja Oja, Merja Penttilä, Markku Saloheimo
Software Mentions: 4
Published: over 16 years ago

10.1186/1471-2164-14-523

Systems perspectives on erythromycin biosynthesis by comparative genomic and transcriptomic analyses of S. erythraea E3 and NRRL23338 strains
Cited by: 38
Author(s): Yuanyuan Li, Xiao Chang, Wen-Bang Yu, Hao Li, Zhiqiang Ye, Hui Yu, Baohong Liu, Yan Zhang, Siliang Zhang, Bang‐Ce Ye, Yixue Li
Software Mentions: 4
Published: over 13 years ago

10.1186/1471-2164-11-365

Transcriptional regulation of gene expression clusters in motor neurons following spinal cord injury
Cited by: 39
Author(s): Jesper Ryge, Ole Winther, Jacob Wienecke, Albin Sandelin, Ann-Charlotte Westerdahl, Hans Hultborn, Ole Kiehn
Software Mentions: 4
Published: over 16 years ago

10.1186/1471-2164-13-42

An evaluation of two-channel ChIP-on-chip and DNA methylation microarray normalization strategies
Cited by: 17
Author(s): Michiel E. Adriaens, Magali Jaillard, Lars Eijssen, Claus Mayer, Chris T. Evelo
Software Mentions: 4
Published: over 14 years ago

10.1186/s12864-015-1706-y

Systematically dissecting the global mechanism of miRNA functions in mouse pluripotent stem cells
Cited by: 3
Author(s): Anyou Wang, Qianchuan He, Yan Zhong
Software Mentions: 4
Published: about 11 years ago

10.1186/1471-2164-15-300

Visual gene-network analysis reveals the cancer gene co-expression in human endometrial cancer
Cited by: 81
Author(s): Wei-Chun Chou, An‐Lin Cheng, Marco Brotto, Chun‐Yu Chuang
Software Mentions: 4
Published: over 12 years ago

10.1186/s12916-017-0851-3

Comprehensive DNA methylation study identifies novel progression-related and prognostic markers for cutaneous melanoma
Cited by: 55
Author(s): Jasper Wouters, Miguel Vizoso, Anna Martínez-Cardús, Francesc Carmona, Olivier Govaere, Teresa Laguna, Jesuchristopher Joseph, Peter Dynoodt, Claudia Aura, Mona Foth, Roy H. E. Cloots, Karin van den Hurk, Balázs Bálint, Ian Murphy, Enda McDermott, Kieran Sheahan, Karin Jirström, Björn Nodin, Girish Mallya-Udupi, Joost J. van den Oord, William M. Gallagher, Manel Esteller
Software Mentions: 4
Published: over 9 years ago

10.1186/s12916-020-01605-x

Circulating mRNAs are differentially expressed in pregnancies with severe placental insufficiency and at high risk of stillbirth
Cited by: 23
Author(s): Natalie J. Hannan, Owen Stock, Rebecca Spencer, Clare Whitehead, Anna L. David, Katie Groom, Scott Petersen, Amanda Henry, Joanne Said, Sean Seeho, Stefan C. Kane, Lavinia Gordon, Sally Beard, Kantaraja Chindera, Smita T. Karegodar, Richard Hiscock, Natasha Pritchard, Tu’uhevaha J Kaitu’u-Lino, Susan Walker, Stephen Tong
Software Mentions: 4
Published: over 6 years ago

10.1186/s12920-020-00780-3

Pan-cancer analysis of differential DNA methylation patterns
Cited by: 7
Author(s): Mai Shi, Stephen Kwok‐Wing Tsui, Hao Wu, Yingying Wei
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12920-017-0295-9

RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking
Cited by: 46
Author(s): Margaret M. Parker, Robert Chase, Andrew Lamb, Alejandro Reyes, Aabida Saferali, Jeong H. Yun, Blanca E. Himes, Edwin K. Silverman, Craig P. Hersh, Peter J. Castaldi
Software Mentions: 4
Published: almost 9 years ago

10.1186/s12920-018-0466-3

Comparison of DNA methylation profiles associated with spontaneous preterm birth in placenta and cord blood
Cited by: 27
Author(s): Xi-Meng Wang, Fei Tian, Lijun Fan, Chuanbo Xie, Zhongzheng Niu, Weiqing Chen
Software Mentions: 4
Published: over 7 years ago

10.1186/s12920-015-0133-x

Meta-analysis derived atopic dermatitis (MADAD) transcriptome defines a robust AD signature highlighting the involvement of atherosclerosis and lipid metabolism pathways
Cited by: 115
Author(s): David Adrian Ewald, Dana Malajian, James G. Krueger, Christopher T. Workman, Tianjiao Wang, Suyan Tian, Thomas Litman, Emma Guttman‐Yassky, Mayte Suárez‐Fariñas
Software Mentions: 4
Published: almost 11 years ago

10.1186/1755-8794-7-39

Identification of Chiari Type I Malformation subtypes using whole genome expression profiles and cranial base morphometrics
Cited by: 22
Author(s): Christina A. Markunas, Eric F. Lock, Karen Soldano, Heidi Cope, Chien‐Kuang Cornelia Ding, David S. Enterline, Gerald A. Grant, Herbert E. Fuchs, Allison E. Ashley-Koch, Simon G. Gregory
Software Mentions: 4
Published: about 12 years ago

10.1186/s12920-015-0147-4

DNA methylation subgroups in melanoma are associated with proliferative and immunological processes
Cited by: 27
Author(s): Martin Lauss, Markus Ringnér, Anna Karlsson, Katja Harbst, Christian Busch, Jürgen Geisler, Per Eystein Lønning, Johan Staaf, Göran Jönsson
Software Mentions: 4
Published: almost 11 years ago

10.1186/s12920-021-00923-0

Screening of gene markers related to the prognosis of metastatic skin cutaneous melanoma based on Logit regression and survival analysis
Cited by: 3
Author(s): Guoliang Jia, Zheyu Song, Zhijun Xu, Youmao Tao, Yue Wu, Xiaoyu Wang
Software Mentions: 4
Published: over 5 years ago

10.1186/s12920-021-00954-7

Identification of genes and pathways involved in malignant pleural mesothelioma using bioinformatics methods
Cited by: 3
Author(s): Xingsheng Liu, Kun Qian, Gaojun Lu, Peng Chen, Yi Zhang
Software Mentions: 4
Published: over 5 years ago

10.1186/s12920-020-00757-2

Integration analysis of long non-coding RNA (lncRNA) role in tumorigenesis of colon adenocarcinoma
Cited by: 40
Author(s): Arash Poursheikhani, Mohammad Reza Abbaszadegan, Negin Nokhandani, Mohammad Amin Kerachian
Software Mentions: 4
Published: about 6 years ago

10.1186/s12920-018-0403-5

Progression-specific genes identified in microdissected formalin-fixed and paraffin-embedded tissue containing matched ductal carcinoma in situ and invasive ductal breast cancers
Cited by: 12
Author(s): S Schultz, Harald Bartsch, Karl Sotlar, Karina Petat-Dutter, Michael Bonin, Steffen Kahlert, Nadia Harbeck, Ulrich Vogel, Harald Seeger, Tanja Fehm, Hans Neubauer
Software Mentions: 4
Published: almost 8 years ago

10.1155/2021/6680066

A Prognostic Model for Brain Glioma Patients Based on 9 Signature Glycolytic Genes
Cited by: 8
Author(s): Bing-xiang Xiao, Panxing Wu, Feng Lu, Yan Xiuyou, Chao Ding
Software Mentions: 4
Published: over 5 years ago

10.1155/2020/2137319

Identification of Four Pathological Stage-Relevant Genes in Association with Progression and Prognosis in Clear Cell Renal Cell Carcinoma by Integrated Bioinformatics Analysis
Cited by: 5
Author(s): Dengyong Xu, Yuzi Xu, Yiming Lv, Fei Wu, Yunlong Liu, Ming Zhu, Dake Chen, Bingjun Bai
Software Mentions: 4
Published: over 6 years ago

10.1155/2020/4251761

Identification of Potential Hub Genes Related to Diagnosis and Prognosis of Hepatitis B Virus-Related Hepatocellular Carcinoma via Integrated Bioinformatics Analysis
Cited by: 28
Author(s): Yuqin Tang, Yongqiang Zhang, Xun Hu
Software Mentions: 4
Published: almost 6 years ago

10.1155/2021/6644827

Multiomics Analysis of Genetics and Epigenetics Reveals Pathogenesis and Therapeutic Targets for Atrial Fibrillation
Cited by: 2
Author(s): Li Liu, Jianjun Huang, Baomin Wei, Jianjiao Mo, Qinjiang Wei, Chengcai Chen, Yan Wang, Xian-Nan Huang, Fengzhen He, Lingling Qin, Hehua Huang, Xue Li, Xingshou Pan
Software Mentions: 4
Published: over 5 years ago

10.1155/2020/8604340

MCM2andNUSAP1Are Potential Biomarkers for the Diagnosis and Prognosis of Pancreatic Cancer
Cited by: 16
Author(s): Yajun Deng, Hanyun Ma, Jinyong Hao, Qiqi Xie, Rui Zhao
Software Mentions: 4
Published: over 6 years ago

10.1155/2020/2123787

Identification of lncRNA and mRNA Biomarkers in Osteoarthritic Degenerative Meniscus by Weighted Gene Coexpression Network and Competing Endogenous RNA Network Analysis
Cited by: 4
Author(s): Jun Zhao, Yu Su, Jianfei Jiao, Zhengchun Wang, Xiangchun Fang, Xuefeng He, Xiaofeng Zhang, Zhao Liu, Xilin Xu
Software Mentions: 4
Published: over 6 years ago

10.1155/2014/736798

Computational Evidence of NAGNAG Alternative Splicing in Human Large Intergenic Noncoding RNA
Cited by: 2
Author(s): Xiaoyong Sun, Simon Lin, Xiaoyan Yan
Software Mentions: 4
Published: over 12 years ago

10.1155/2020/4612158

CCNB2, TOP2A, and ASPM Reflect the Prognosis of Hepatocellular Carcinoma, as Determined by Weighted Gene Coexpression Network Analysis
Cited by: 9
Author(s): Yuping Zeng, He He, Yu Zhang, Xia Wang, Yang Lin-de, Zhenmei An
Software Mentions: 4
Published: about 6 years ago

10.1155/2021/8848227

A Novel Autophagy-Related lncRNA Gene Signature to Improve the Prognosis of Patients with Melanoma
Cited by: 10
Author(s): Yi Ding, Li Tian, Min Li, Tuersong Tayier, Meilin Zhang, Long Chen, Shumei Feng
Software Mentions: 4
Published: over 5 years ago

10.1155/2020/3416807

Identification of Hub Genes as Biomarkers Correlated with the Proliferation and Prognosis in Lung Cancer: A Weighted Gene Co-Expression Network Analysis
Cited by: 2
Author(s): Xuting Xu, Limin Xu, Huilian Huang, Jing Li, Shunli Dong, Lili Jin, Zhiyong Ma, Liqin Li
Software Mentions: 4
Published: over 6 years ago

10.1155/2019/1093815

Exploring the Pathological Mechanism of Bladder Cancer Based on Tumor Mutational Burden Analysis
Cited by: 9
Author(s): Yao Ma, Xiaofei Feng, Wan-Xia Yang, Chongge You
Software Mentions: 4
Published: about 7 years ago

10.1155/2020/5974350

A Prognostic Model Based on Six Metabolism-Related Genes in Colorectal Cancer
Cited by: 14
Author(s): Yuanlin Sun, Yang Zhang, Yuchen Guo, Zihao Yang, You Xu
Software Mentions: 4
Published: about 6 years ago

10.1155/2020/9143695

Identification of Prognosis-Related Genes in Bladder Cancer Microenvironment across TCGA Database
Cited by: 7
Author(s): Xin Zhao, Yu Tang, Haoyu Ren, Yi Lei
Software Mentions: 4
Published: almost 6 years ago

10.1155/2021/6622437

CDCA3 Is a Novel Prognostic Biomarker Associated with Immune Infiltration in Hepatocellular Carcinoma
Cited by: 13
Author(s): Zhihuai Wang, Shuai Chen, Gaochao Wang, Li Sun, Xihu Qin
Software Mentions: 4
Published: over 5 years ago

10.1155/2021/6648182

L Antigen Family Member 3 Serves as a Prognostic Biomarker for the Clinical Outcome and Immune Infiltration in Skin Cutaneous Melanoma
Cited by: 4
Author(s): Jingjing Song, Cong Jin, Endong Chen, Xubin Dong, Li Zhu
Software Mentions: 4
Published: over 5 years ago

10.1155/2021/6656622

Profiles of Innate Immune Cell Infiltration and Related Core Genes in Psoriasis
Cited by: 11
Author(s): Xiaoting Gong, Wei Wang
Software Mentions: 4
Published: over 5 years ago

10.1155/2020/1932948

The SLC Family Are Candidate Diagnostic and Prognostic Biomarkers in Clear Cell Renal Cell Carcinoma
Cited by: 20
Author(s): Weiting Kang, Meng Zhang, Qiang Wang, Dawei Gu, Zhilong Huang, Hanbo Wang, Yuzhu Xiang, Qinghua Xia, Zilian Cui, Xunbo Jin
Software Mentions: 4
Published: over 6 years ago

10.1155/2020/4908427

Comprehensive Analysis of mRNA Expression Profiles in Head and Neck Cancer by Using Robust Rank Aggregation and Weighted Gene Coexpression Network Analysis
Cited by: 4
Author(s): Zijian Cao, Yin-Jie Ao, Yu Guo, Shui‐Hong Zhou
Software Mentions: 4
Published: almost 6 years ago

10.1155/2021/8834578

Identification of Potential Gene and MicroRNA Biomarkers of Acute Kidney Injury
Cited by: 3
Author(s): Siyang Wang, Jie Gao, Yiwei Song, Guangyan Cai, Xiangmei Chen
Software Mentions: 4
Published: over 5 years ago

10.3390/biomedicines9070829

Biphasic Effects of Blue Light Irradiation on Human Umbilical Vein Endothelial Cells
Cited by: 4
Author(s): Kejia Kan, Yi-Fei Mu, Marielle Bouschbacher, Carsten Sticht, Natalia Kuch, Martin Sigl, Nuh N. Rahbari, Norbert Gretz, Prama Pallavi, Michael Keese
Software Mentions: 4
Published: about 5 years ago

10.3390/biomedicines9010034

Shared Blood Transcriptomic Signatures between Alzheimer’s Disease and Diabetes Mellitus
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Author(s): Taesic Lee, Hyunju Lee
Software Mentions: 4
Published: over 5 years ago

10.3390/biom10091207

Colorectal Cancer Prediction Based on Weighted Gene Co-Expression Network Analysis and Variational Auto-Encoder
Cited by: 24
Author(s): Dongmei Ai, Yuduo Wang, Xiaoxin Li, Hongfei Pan
Software Mentions: 4
Published: about 6 years ago

10.1002/cam4.1397

Development and validation of an individualized diagnostic signature in thyroid cancer
Cited by: 16
Author(s): Li-ou Han, Xinyu Li, Mingming Cao, Yan Cao, Lihong Zhou
Software Mentions: 4
Published: over 8 years ago

10.1002/cam4.3854

Identification of MEG8/miR‐378d/SOBP axis as a novel regulatory network and associated with immune infiltrates in ovarian carcinoma by integrated bioinformatics analysis
Cited by: 7
Author(s): Jiang Lei, Zhen-Yu He, Jun Wang, Min Hu, Ping Zhou, Chen-Lu Lian, Hua Li, San‐Gang Wu, Juan Zhou
Software Mentions: 4
Published: over 5 years ago

10.1002/cam4.4022

A pharmacophore‐based classification better predicts the outcomes of HER2‐negative breast cancer patients receiving the anthracycline‐ and/or taxane‐based neoadjuvant chemotherapy
Cited by: 1
Author(s): Xuan Li, Hefen Sun, Qiqi Liu, Yang Liu, Yifeng Hou, Wei Jin
Software Mentions: 4
Published: over 5 years ago

10.1038/s41375-020-0965-z

A transcriptomic continuum of differentiation arrest identifies myeloid interface acute leukemias with poor prognosis
Cited by: 6
Author(s): Jonathan Bond, Aleksandra Krzywon, Ludovic Lhermitte, Christophe Roumier, Anne Roggy, Mohamed Belhocine, Alexander Abdulkader Kheirallah, Patrick Villarèse, Guillaume Hypolite, Francine Garnache‐Ottou, Sylvie Castaigné, Nicolas Boissel, Vahid Asnafi, Claude Preudhomme, Hervé Dombret, Elisa Laurenti, Elizabeth Macintyre
Software Mentions: 4
Published: about 6 years ago

10.1038/leu.2016.251

Hemopoietic-specific Sf3b1-K700E knock-in mice display the splicing defect seen in human MDS but develop anemia without ring sideroblasts
Cited by: 99
Author(s): Annalisa Mupo, Monika Seiler, Vijitha Sathiaseelan, Alena Pance, Yi Yang, Anant A. Agrawal, Francesco Iorio, Rubén Bautista, Suruchi Pacharne, Konstantinos Tzelepis, Nicla Manes, Penny Wright, Elli Papaemmanuil, David G. Kent, Peter Campbell, Silvia Buonamici, Niccolò Bolli, George S. Vassiliou
Software Mentions: 4
Published: about 10 years ago

10.3390/life11080835

Identification of Autophagy- and Ferroptosis-Related lncRNAs Functioned through Immune-Related Pathways in Head and Neck Squamous Carcinoma
Cited by: 9
Author(s): Qi Guo, Xuehan Zhang, Tao Shen, Xiangting Wang
Software Mentions: 4
Published: about 5 years ago

10.1186/s12944-019-1142-0

LncRNA SNHG8 is identified as a key regulator of acute myocardial infarction by RNA-seq analysis
Cited by: 26
Author(s): Liuan Zhuo, Yi-Tao Wen, Yong Wang, Zhi-Fang Liang, Gang Wu, Nong Mei-dan, Miao Liu
Software Mentions: 4
Published: almost 7 years ago

10.1186/s12936-021-03918-5

Transcriptome-based analysis of blood samples reveals elevation of DNA damage response, neutrophil degranulation, cancer and neurodegenerative pathways in Plasmodium falciparum patients
Cited by: 1
Author(s): Akua A. Karikari, Wasco Wruck, James Adjaye
Software Mentions: 4
Published: almost 5 years ago

10.1155/2020/6420425

Protein Kinase A Is Involved in Neuropathic Pain by Activating the p38MAPK Pathway to Mediate Spinal Cord Cell Apoptosis
Cited by: 9
Author(s): Yajun Deng, Liang Yang, Qiqi Xie, Fengbiao Yang, Guoqiang Li, Guang-Zhi Zhang, Shaoping Li, Zhi-Xi Wu, Jing Wang, Xuewen Kang
Software Mentions: 4
Published: over 6 years ago

10.1097/MD.0000000000023153

Identification of candidate biomarkers correlated with the pathogenesis and prognosis of breast cancer via integrated bioinformatics analysis
Cited by: 8
Author(s): Shuyu Liu, Xinkui Liu, Jiarui Wu, Wei Zhou, Mengwei Ni, Ziqi Meng, Shanshan Jia, Jingyuan Zhang, Siyu Guo, Shan Lu, Yingfei Li
Software Mentions: 4
Published: almost 6 years ago

10.1097/MD.0000000000025008

PLCG2 as a potential indicator of tumor microenvironment remodeling in soft tissue sarcoma
Cited by: 10
Author(s): Zhengtian Li, Rong Zhao, Weibo Yang, Chan Li, Jun Huang, Zhenpei Wen, Gang Du, Lingling Jiang
Software Mentions: 4
Published: over 5 years ago

10.1097/MD.0000000000024949

Tumor microenvironment immune subtypes for classification of novel clear cell renal cell carcinoma profiles with prognostic and therapeutic implications
Cited by: 5
Author(s): Qiang Wang, Jinding Hu, Weiting Kang, Jin Wang, Yuzhu Xiang, Min Fu, Hui Gao, Zhilong Huang
Software Mentions: 4
Published: over 5 years ago

10.3390/metabo11080533

Kidney Allograft Function Is a Confounder of Urine Metabolite Profiles in Kidney Allograft Recipients
Cited by: 4
Author(s): Karsten Suhre, Darshana Dadhania, John Richard Lee, Thangamani Muthukumar, Justin Chen, Steven S. Gross, Manikkam Suthanthiran
Software Mentions: 4
Published: about 5 years ago

10.3390/metabo8030041

Unbiased Lipidomic Profiling of Triple-Negative Breast Cancer Tissues Reveals the Association of Sphingomyelin Levels with Patient Disease-Free Survival
Cited by: 27
Author(s): Preeti Purwaha, Franklin Gu, Danthasinghe Waduge Badrajee Piyarathna, Theckelnaycke Rajendiran, Anindita Ravindran, Angela R. Omilian, Sao Jiralerspong, Gokul M. Das, Carl Morrison, Christine B. Ambrosone, Cristian Coarfa, Nagireddy Putluri, Arun Sreekumar
Software Mentions: 4
Published: about 8 years ago

10.3390/metabo11010029

Gut Microbiota Dysbiosis Is Associated with Elevated Bile Acids in Parkinson’s Disease
Cited by: 68
Author(s): Peipei Li, Bryan A. Killinger, Elizabeth Ensink, Ian Beddows, Ali Yılmaz, Noah Lubben, Jared Lamp, Meghan Schilthuis, Irving E. Vega, Randy Woltjer, J. Andrew Pospisilik, Patrik Brundin, Lena Brundin, Stewart F. Graham, Viviane Labrie
Software Mentions: 4
Published: over 5 years ago

10.1007/s11306-020-01750-7

SUMMER, a shiny utility for metabolomics and multiomics exploratory research
Cited by: 3
Author(s): Ling Huang, António Currais, Maxim N. Shokhirev
Software Mentions: 4
Published: almost 6 years ago

10.1016/j.pain.2013.05.021

HDAC inhibitors attenuate the development of hypersensitivity in models of neuropathic pain
Cited by: 127
Author(s): Franziska Denk, Wenlong Huang, Ben S. Sidders, Angela Bithell, Megan Crow, John Grist, Simone Sharma, Daniel Ziemek, Andrew S.C. Rice, Noel J. Buckley, Stephen B. McMahon
Software Mentions: 4
Published: about 13 years ago

10.1186/s13071-015-0974-3

Autophagic digestion of Leishmania major by host macrophages is associated with differential expression of BNIP3, CTSE, and the miRNAs miR-101c, miR-129, and miR-210
Cited by: 58
Author(s): Benjamin Frank, Ana Marcu, Antônio Luis de Oliveira Almeida Petersen, Heike Weber, Christian Stigloher, Jeremy C. Mottram, Claus‐Jürgen Scholz, Uta Schurigt
Software Mentions: 4
Published: about 11 years ago

Projects: bioconductor: limma

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Papers Mentioning limma 7,776