cran: WGCNA | Projects | Ecosyste.ms: Papers

10.3389/fgene.2019.00488

An Inflammatory Landscape for Preoperative Neurologic Deficits in Glioblastoma
Cited by: 6
Author(s): Amal Katrib, Hyun-Hwan Jeong, Nina L. Fransen, Kristin S. Henzel, Jeremy A. Miller
Software Mentions: 2
Published: over 7 years ago

10.1038/s41438-020-00421-x

Integrated transcriptome and proteome analysis provides insight into chilling-induced dormancy breaking in Chimonanthus praecox
Cited by: 22
Author(s): Zhineng Li, Ning Liu, Wei Zhang, C. F. Wu, Yunbin Jiang, Jing Ma, Mingyang Li, Shunzhao Sui
Software Mentions: 2
Published: almost 6 years ago

10.1155/2020/9502820

Integrative Analysis of MAPK14 as a Potential Biomarker for Cardioembolic Stroke
Cited by: 1
Author(s): Li Zhao, Li Xu, Qingxiu Wang
Software Mentions: 2
Published: about 6 years ago

10.1186/s13024-018-0296-y

Genome-wide RNAseq study of the molecular mechanisms underlying microglia activation in response to pathological tau perturbation in the rTg4510 tau transgenic animal model
Cited by: 46
Author(s): Hong Wang, Yupeng Li, John Ryder, Justin T. Hole, Philip J. Ebert, David Airey, Hui-Rong Qian, Benjamin A. Logsdon, Alice Fisher, Zeshan Ahmed, Tracey K. Murray, Annalisa Cavallini, Suchira Bose, Brian J. Eastwood, David A. Collier, Jeffrey L. Dage, Bradley B. Miller, Kalpana Merchant, Michael O’Neill, Ronald B. DeMattos
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41438-020-00381-2

Coexpression network analysis reveals an MYB transcriptional activator involved in capsaicinoid biosynthesis in hot peppers
Cited by: 43
Author(s): Binmei Sun, Xin Zhou, Changming Chen, Chengjie Chen, Kunhao Chen, Muxi Chen, Shaoqun Liu, Guoju Chen, Bihao Cao, Fanrong Cao, Jing Liu, Zhiwen Zhu
Software Mentions: 2
Published: about 6 years ago

10.18632/aging.102780

Immune-related key gene CLDN10 correlates with lymph node metastasis but predicts favorable prognosis in papillary thyroid carcinoma
Cited by: 16
Author(s): Zhaoyin Xiang, Cheng Zhong, Aoshuang Chang, Junjun Ling, Hou-Yu Zhao, Wei Zhou, Xianlu Zhuo
Software Mentions: 2
Published: over 6 years ago

10.1038/s41438-021-00635-7

The grapevine (Vitis vinifera L.) floral transcriptome in Pinot noir variety: identification of tissue-related gene networks and whorl-specific markers in pre- and post-anthesis phases
Cited by: 4
Author(s): Alessandro Vannozzi, Fabio Palumbo, Gabriele Magon, Margherita Lucchin, Gianni Barcaccia
Software Mentions: 2
Published: about 5 years ago

10.3389/fnins.2016.00396

Comparative Gene Expression Analysis of Two Mouse Models of Autism: Transcriptome Profiling of the BTBR and En2−/− Hippocampus
Cited by: 27
Author(s): Giovanni Provenzano, Zelia Corradi, Katia Monsorno, Tarcisio Fedrizzi, Laura Ricceri, María Luisa Scattoni, Yuri Bozzi
Software Mentions: 2
Published: about 10 years ago

10.1038/s41438-019-0128-4

Comparative transcriptome analysis uncovers the regulatory functions of long noncoding RNAs in fruit development and color changes of Fragaria pentaphylla
Cited by: 25
Author(s): Lijun Bai, Qing Chen, Long Jiang, Yuanxiu Lin, Yuntian Ye, Peng Liu, Xiaorong Wang, Haoru Tang
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2021.636550

Bovine Pre-adipocyte Adipogenesis Is Regulated by bta-miR-150 Through mTOR Signaling
Cited by: 6
Author(s): Xingyi Chen, Sayed Haidar Abbas Raza, Xinhao Ma, Jiangfang Wang, Xiaohui Wang, Chengcheng Liang, Xinran Yang, Chugang Mei, Syed Muhammad Suhail, Zan Liu
Software Mentions: 2
Published: over 5 years ago

10.1038/s41438-019-0215-6

The apricot (Prunus armeniaca L.) genome elucidates Rosaceae evolution and beta-carotenoid synthesis
Cited by: 84
Author(s): Feng-chao Jiang, Junhuan Zhang, Sen Wang, Yang Li, Yingfeng Luo, Shenghan Gao, Meiling Zhang, Shizhou Wu, Songnian Hu, Hui Sun, Yuzhu Wang
Software Mentions: 2
Published: almost 7 years ago

10.1155/2020/9705950

Identification of Long Noncoding RNA Associated ceRNA Networks in Rosacea
Cited by: 3
Author(s): Lian Wang, Ruifeng Lu, Yujia Wang, Xiaoyun Wang, Dan Hao, Xiang Wen, Yanmei Li, Minghui Zeng, Xian Jiang
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2019.01275

Comparative Transcriptome Analysis Reveals Key Pathways and Hub Genes in Rapeseed During the Early Stage of Plasmodiophora brassicae Infection
Cited by: 27
Author(s): Lixia Li, Ying Long, Hao Li, Xiaoming Wu
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41438-021-00599-8

Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger
Cited by: 27
Author(s): Shiping Cheng, Kai‐Hua Jia, Hui Liu, Rengang Zhang, Zhichao Li, Shanshan Zhou, Tian-Le Shi, Ai-Chu Ma, Congwen Yu, Chan Gao, Guanglei Cao, Zhao Wang, Shuai Nie, Jing‐Fang Guo, Si-Qian Jiao, Xue Tian, Xuemei Yan, Yu-Tao Bao, Quanzheng Yun, Xinzhu Wang, Ilga Porth, Yousry A. El‐Kassaby, Xiaoru Wang, Zhen Li, Yves Van de Peer, Jian‐Feng Mao
Software Mentions: 2
Published: about 5 years ago

10.1038/s41438-021-00610-2

Morphological, phenological, and transcriptional analyses provide insight into the diverse flowering traits of a mutant of the relic woody plant Liriodendron chinense
Cited by: 13
Author(s): Shanlin Yu, Zhaodong Hao, Peng Ye, Siqin Liu, Lingfeng Hu, Yongbao Shen, Jisen Shi, Jinhui Chen
Software Mentions: 2
Published: about 5 years ago

10.1002/cam4.3047

Identification of cancer stem cell characteristics in liver hepatocellular carcinoma by WGCNA analysis of transcriptome stemness index
Cited by: 69
Author(s): Kunhao Bai, Siyuan He, Lingling Shu, Weida Wang, Sensen Lin, Qian-Yi Zhang, Liang Li, Lei Cheng, Yong Dai
Software Mentions: 2
Published: over 6 years ago

10.1002/mgg3.515

Gene coexpression network analysis identified potential biomarkers in gestational diabetes mellitus progression
Cited by: 11
Author(s): Xuefei Zhao, Wen Li
Software Mentions: 2
Published: almost 8 years ago

10.3390/ijms22020712

An Integrative Transcriptomic Analysis of Systemic Juvenile Idiopathic Arthritis for Identifying Potential Genetic Markers and Drug Candidates
Cited by: 3
Author(s): Daeun Kim, Jaeseung Song, Sora Lee, Junghyun Jung, Wonhee Jang
Software Mentions: 2
Published: almost 6 years ago

10.1155/2019/7859121

Gene Expression Pattern and Regulatory Network of α-Toxin Treatment in Bombyx mori
Cited by: 0
Author(s): Tieshan Feng, Ping Lin, Jiao Gong, Chen Dong, Xi Yang, Quan Zhang, Tingcai Cheng
Software Mentions: 2
Published: over 7 years ago

10.3390/molecules24142564

Integration of Metabolite Profiling and Transcriptome Analysis Reveals Genes Related to Volatile Terpenoid Metabolism in Finger Citron (C. medica var. sarcodactylis)
Cited by: 37
Author(s): Yaying Xu, Changqing Zhu, Changjie Xu, Jun Sun, Donald Grierson, Bo Zhang, Kunsong Chen
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2020.00641

Neutrophils, Crucial, or Harmful Immune Cells Involved in Coronavirus Infection: A Bioinformatics Study
Cited by: 68
Author(s): Nima Hemmat, Afshin Derakhshani, Hossein Bannazadeh Baghi, Nicola Silvestris, Behzad Baradaran, Simona De Summa
Software Mentions: 2
Published: over 6 years ago

10.3390/molecules24061064

Metabolome and Transcriptome Sequencing Analysis Reveals Anthocyanin Metabolism in Pink Flowers of Anthocyanin-Rich Tea (Camellia sinensis)
Cited by: 49
Author(s): Dylan O’Neill Rothenberg, Haijun Yang, Meiban Chen, Wenting Zhang, Lingyun Zhang
Software Mentions: 2
Published: over 7 years ago

10.1155/2020/8657468

Integrated Bioinformatics Analysis of the Clinical Value and Biological Function of ATAD2 in Hepatocellular Carcinoma
Cited by: 7
Author(s): Xiangyu Meng, Lu Wang, Bo Zhu, Jun Zhang, Shuai Guo, Qiang Li, Tao Zhang, Zhichao Zheng, Gang Wu, Yan Zhao
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2021.709164

Defining a Methylation Signature Associated With Operational Tolerance in Kidney Transplant Recipients
Cited by: 5
Author(s): Ramón María Alvargonzález Rodríguez, María P. Hernández-Fuentes, Viviana Corte-Iglesias, María Laura Sáiz, Juan José Lozano, Ana R. Cortázar, Isabel Mendizabal, María Luisa Suárez-Fernández, Eliécer Coto, Antonio López-Vázquez, Carmen Díaz‐Corte, Ana M. Aransay, Carlos López‐Larrea, Beatriz Suárez-Álvarez
Software Mentions: 2
Published: about 5 years ago

10.3389/fgene.2021.666561

Integrative Analysis of Gene Expression Through One-Class Logistic Regression Machine Learning Identifies Stemness Features in Multiple Myeloma
Cited by: 2
Author(s): Chunmei Ban, Feiyan Yang, Min Wei, Qin Liu, Jiankun Wang, Lei Chen, Liuting Lu, Dongmei Xie, Lie Liu, Jinxiong Huang
Software Mentions: 2
Published: about 5 years ago

10.1038/s41438-021-00537-8

Comparative transcriptomic analysis highlights contrasting levels of resistance of Vitis vinifera and Vitis amurensis to Botrytis cinerea
Cited by: 10
Author(s): Ran Wan, Chunfang Guo, Xiaoqing Hou, Yanxun Zhu, Min Gao, Xiaoyan Hu, Songlin Zhang, Chen Jiao, Rongrong Guo, Zhi Li, Xiping Wang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41438-021-00513-2

Leaf nutrient content and transcriptomic analyses of endive (Cichorium endivia) stressed by downpour-induced waterlog reveal a gene network regulating kestose and inulin contents
Cited by: 7
Author(s): Giulio Testone, Anatoly P. Sobolev, Giovanni Mele, Chiara Nicolodi, Maria Gonnella, Giuseppe Arnesi, Tiziano Biancari, Donato Giannino
Software Mentions: 2
Published: over 5 years ago

10.1155/2021/5520053

Genome-Wide MicroRNA Analysis of Peripheral Blood Mononuclear Cells Reveals Elevated miR-142-3p Expression as a Potential Biomarker for Secondary Syphilis
Cited by: 1
Author(s): Zhenghan Yang, Xiumin Yang, Zhaoyan Gan, Yuan Liang, Wei Liu, Chaozeng Si
Software Mentions: 2
Published: over 5 years ago

10.1007/s00401-018-1900-5

Divergent brain gene expression patterns associate with distinct cell-specific tau neuropathology traits in progressive supranuclear palsy
Cited by: 43
Author(s): Mariet Allen, Xue Wang, Daniel J. Serie, Samantha L. Strickland, Jeremy D. Burgess, Shunsuke Koga, Curtis S. Younkin, Thuy Nguyen, Kimberly G. Malphrus, Sarah Lincoln, Melissa Alamprese, Kuixi Zhu, Rui Chang, Minerva M. Carrasquillo, Naomi Kouri, Melissa E. Murray, Joseph S. Reddy, Cory C. Funk, Nathan D. Price, Todd E. Golde, Steven G. Younkin, Yan W. Asmann, Julia E. Crook, Dennis W. Dickson, Nilüfer Ertekin-Taner
Software Mentions: 2
Published: about 8 years ago

10.1002/iid3.373

Five immune‐gene‐signatures participate in the development and pathogenesis of Kawasaki disease
Cited by: 11
Author(s): Han Nie, Shizhi Wang, Qiong Wu, Danni Xue, Weimin Zhou
Software Mentions: 2
Published: almost 6 years ago

10.1155/2016/5469371

Analyzing the miRNA-Gene Networks to Mine the Important miRNAs under Skin of Human and Mouse
Cited by: 5
Author(s): Jianghong Wu, Husile Gong, Yongsheng Bai, Wenguang Zhang
Software Mentions: 2
Published: almost 11 years ago

10.1002/cam4.3965

Histopathological image and gene expression pattern analysis for predicting molecular features and prognosis of head and neck squamous cell carcinoma
Cited by: 8
Author(s): Linyan Chen, Hao Zeng, Mingxuan Zhang, Yuling Luo, Xuelei Ma
Software Mentions: 2
Published: over 5 years ago

10.1186/s13223-017-0192-y

Canadian Society of Allergy and Clinical Immunology annual scientific meeting 2016
Cited by: 5
Author(s): Mohammad A. Alsayegh, Hanan Alshamali, Mousa Khadada, A Ciccolini, Anne K. Ellis, Diana Quint, William Powley, Laurie Lee, Yahya Fiteih, Shairaz Baksh, Harissios Vliagoftis, Sebastien K. Gerega, Brad Millson, Katia Charland, Stéphane Barakat, Xichun Sun, Ricardo Jiménez, Susan Waserman, Mark FitzGerald, Jacques Hébert, Josiane Cognet-Sicé, Kevin E. Renahan, S. Huq, Rishma Chooniedass, Scott Sawyer, Hans Pasterkamp, Allan B. Becker, Steven G. Smith, Shiyuan Zhang, Kavisha Jayasundara, Claire E. Tacon, Alex Simidchiev, Gilbert Nadeau, Necdet Gunsoy, Hana Müllerová, Frank Albers, Young Woong Kim, Casey P. Shannon, Amrit Singh, Helen Neighbour, Mark Larché, Scott J. Tebbutt, Annika Klopp, Lorena Vehling, Allan B. Becker, Padmaja Subbarao, Piushkumar J. Mandhane, Stuart E. Turvey, Malcolm R. Sears, Meghan B. Azad, Keely Loewen, Barret A. Monchka, Salaheddin M. Mahmud, Geert ’t Jong, Cristina Longo, Gillian Bartlett, Francine M Ducharme, Tibor Schuster, Brenda MacGibbon, Tracie A. Barnett, Michelle L. North, Jeff Brook, Elizabeth Lee, Vanessa Omana, Jenny Thiele, Lisa M. Steacy, Greg J. Evans, Miriam L. Diamond, Gordon Sussman, Yann Amistani, Kathy Abiteboul, Mark W. Tenn, Chenxi Yang, Christopher Carlsten, Edward M. Conway, Douglas G. Mack, Rofina Yasmin Othman, Colin Barber, Chrystyna Kalicinsky, Andrea E. Burke, Mary Messieh, Parameswaran Nair, Thomas H. Chun, Lindsay Douglas, Joel Liem, Lucy Duan, Charlotte E. Miller, Pascale Dupuis, Lori Connors, Michael Fein, Joseph Shuster, Hani Hadi, Brooke I. Polk, Nikita Raje, Roxane Labrosse, Philippe Bégin, Louis Paradis, Anne Des Roches, Jonathan Lacombe-Barrios, Sanju Mishra, Gina Lacuesta, Meredith Chiasson, Babar Haroon, Kara Robertson, Thomas B. Issekutz, Desmond Leddin, Stephen Couban, Lori Connors, Adrienne M. Roos, Amin Kanani, Edmond S. Chan, R. Robert Schellenberg, Lana Rosenfield, Anna Cvetkovic, K. N. Woodward, Jaclyn Quirt, Wade Watson, Edson Castilho, Jennifer Sullivan, Beverley Temple, Donna Martin, Victoria E. Cook, Christopher Mills, Elodie Portales‐Casamar, Lisa Fu, Alexander Ho, Jeffrey S. Zaltzman, Lucy Chen, Peter Vadas, Sofianne Gabrielli, Ann E. Clarke, Harley Eisman, Judy Morris, Lawrence Joseph, Sebastien LaVieille, Moshe Ben‐Shoshan, François Graham, Charles S. Barnes, Jay M. Portnoy, Vincent Stagg, Elinor Simons, Diana L. Lefebvre, David Dai, Piushkumar J. Mandhane, Malcolm R. Sears, Herman Tam, F. Estelle R. Simons, Dhaifallah S Alotaibi, Bassel Dawod, Matthew Tunis, Jean S. Marshall, Marylin Desjardins, Marianne Béland, Duncan Lejtenyi, Jean-Phillipe Drolet, Martine Lemire, Christos Tsoukas, Francisco Noya, Reza Alizadehfar, Christine McCusker, Bruce Mazer, Danay Maestre‐Batlle, Evelyn Gunawan, Christopher F. Rider, Anette Kocbach Bølling, Olga M. Pena, Daniel Suez, Isaac Melamed, Iftikhar Hussaın, Mark R. Stein, Sudhir Gupta, Kenneth Paris, Sandor Fritsch, Christelle Bourgeois, Heinz Leibl, Barbara McCoy, Martin Noël, Leman Yel, Ori Scott, Brenda Reid, Adelle Atkinson, Vy Hong-Diep Kim, Chaim M. Roifman, Eyal Grunebaum, Eiman Al-Selahi, Fernando Alemán, Amber Oberle, Mike Trus, Gordon Sussman, Amin Kanani, Olivier Chambenoi, Sima Chiva-Razavi, Savannah Grodecki, Nikhil Joshi, Peter Menikefs, David W. Holt, Teresa Pun, Damian Tworek, Raphael Hanna, Delia Heroux, Elli Rosenberg, Leah T. Stiemsma, Stuart E. Turvey, Judah A. Denburg, Christopher Mill, Timothy Teoh, Preeti Zimmer, Vishal Avinashi, Mihaela Paina, Ahmed A. Darwish Hassan, John Paul Oliveria, Chris Olesovsky, Gail M. Gauvreau, Linda Pedder, Paul K. Keith, Greg Plunkett, Michelle L. Bolner, Persia Pourshahnazari, Donald Stark, Kateryna Vostretsova, Andrew Moses, A. Maurice Wakeman, Alexander Singer, Thomas Gerstner, Elissa M. Abrams, Sara F. Johnson, Roberta L. Woodgate
Software Mentions: 2
Published: over 9 years ago

10.1186/s12864-021-07763-3

Transcriptome analysis reveals Vernalization is independent of cold acclimation in Arabidopsis
Cited by: 12
Author(s): Fēi Li, Qian Hu, Fadi Chen, Jingle Jiang
Software Mentions: 2
Published: over 5 years ago

10.1155/2020/4078596

Construction and Analysis of Competing Endogenous RNA Networks for Breast Cancer Based on TCGA Dataset
Cited by: 5
Author(s): Xue Wang, Chundi Gao, Fubin Feng, Jing Zhuang, Lijuan Liu, Huayao Li, Cun Liu, Jibiao Wu, Zheng Xia, Xia Ding, Changgang Sun
Software Mentions: 2
Published: over 6 years ago

10.1186/s40249-020-00722-2

Massive migration promotes the early spread of COVID-19 in China: a study based on a scale-free network
Cited by: 12
Author(s): Wenyu Song, Pan Zang, Zhongxing Ding, Xinyu Fang, Liguo Zhu, Yun Zhu, Changjun Bao, Feng Chen, Ming Wu, Zhihang Peng
Software Mentions: 2
Published: about 6 years ago

10.1128/IAI.00686-19

Cutaneous Immunoprofiles of Three Spotted Fever Group Rickettsia Cases
Cited by: 5
Author(s): Na Jia, Hongbo Liu, Yuan-Chun Zheng, Wenqiang Shi, Ran Wei, Yan-Li Chu, Nianzhi Ning, Bao-Gui Jiang, Rui-Ruo Jiang, Tao Li, Qiu-Bo Huo, Cai Bian, Xiong Liu, Yi Sun, Lian-Feng Li, Qian Wang, Wei Wei, Yawei Wang, Frans Jongejan, Jia-Fu Jiang, Jie Song, Hui Wang, Wu‐Chun Cao
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.30649

FoxP2 isoforms delineate spatiotemporal transcriptional networks for vocal learning in the zebra finch
Cited by: 18
Author(s): Zachary Daniel Burkett, Nancy F. Day, Todd Kimball, Caitlin M. Aamodt, Jonathan B. Heston, Austin T. Hilliard, Xinshu Xiao, Stephanie A. White
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-021-07557-7

Post-diapause transcriptomic restarts: insight from a high-latitude copepod
Cited by: 5
Author(s): Vittoria Roncalli, Matthew Cieslak, Ann M. Castelfranco, Russell R. Hopcroft, Daniel K. Hartline, Petra H. Lenz
Software Mentions: 2
Published: over 5 years ago

10.3390/insects12080704

Transcriptional Profiles of Diploid Mutant Apis mellifera Embryos after Knockout of csd by CRISPR/Cas9
Cited by: 4
Author(s): Xiuxiu Wang, Yan Lin, Liqiang Liang, Haiyang Geng, Meng Zhang, Hongyi Nie, Songkun Su
Software Mentions: 2
Published: about 5 years ago

10.1002/cam4.3453

A four‐gene signature associated with clinical features can better predict prognosis in prostate cancer
Cited by: 7
Author(s): Peipei Yuan, Le Ling, Qing Fan, Xintao Gao, Taotao Sun, Jianping Miao, Xianglin Yuan, Jihong Liu, Bo Liu
Software Mentions: 2
Published: about 6 years ago

10.1186/s12864-017-4005-y

Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Cited by: 12
Author(s): Matthew A. Kost, Hugo Perales, Saranga Wijeratne, Asela J. Wijeratne, Eric J. Stockinger, Kristin L. Mercer
Software Mentions: 2
Published: about 9 years ago

10.3389/fnins.2019.01357

Temporal Changes of Spinal Transcriptomic Profiles in Mice With Spinal Nerve Ligation
Cited by: 7
Author(s): Hong Yu, Haining Zhang, Yeru Chen, Yongjie Wang, Xiao Lin, Xiang-Yao Li, Gang Chen
Software Mentions: 2
Published: almost 7 years ago

10.1155/2017/9084507

The Bioinformatic Analysis of the Dysregulated Genes and MicroRNAs in Entorhinal Cortex, Hippocampus, and Blood for Alzheimer’s Disease
Cited by: 20
Author(s): Xu Pang, Ying Zhao, Jinhua Wang, Qimeng Zhou, Lvjie Xu, Dennis E. Kyle, Ailin Liu, Guanhua Du
Software Mentions: 2
Published: almost 10 years ago

10.3389/fimmu.2021.699633

IRF7-Associated Immunophenotypes Have Dichotomous Responses to Virus/Allergen Coexposure and OM-85-Induced Reprogramming
Cited by: 3
Author(s): Emma de Jong, Jean-François Lauzon-Joset, Jonatan Leffler, Michael Serralha, Alexander N. Larcombe, Claus T. Christophersen, Patrick G. Holt, Deborah H. Strickland, Anthony Bosco
Software Mentions: 2
Published: over 5 years ago

10.1186/s40478-019-0705-7

Transcriptome analysis of normal-appearing white matter reveals cortisol- and disease-associated gene expression profiles in multiple sclerosis
Cited by: 14
Author(s): Jeroen Melief, Marie Orre, Koen Bossers, C.G. van Eden, Karianne Schuurman, Matthew R. J. Mason, Joost Verhaagen, Jörg Hamann, Inge Huitinga
Software Mentions: 2
Published: over 7 years ago

10.3389/fnins.2021.678548

Gene Expression Analysis in Three Posttraumatic Stress Disorder Cohorts Implicates Inflammation and Innate Immunity Pathways and Uncovers Shared Genetic Risk With Major Depressive Disorder
Cited by: 10
Author(s): Melanie E. Garrett, Xue Qin, Divya Mehta, Michelle F. Dennis, Christine E. Marx, Gerald A. Grant, VA Mid-Atlantic Mirecc Workgroup, Ptsd Initiative, Injury, Murray B. Stein, Nathan A. Kimbrel, Jean C. Beckham, Michael A. Hauser, Allison Ashley‐Koch
Software Mentions: 2
Published: over 5 years ago

10.3390/metabo10080316

Metabolite Profiles of the Relationship between Body Mass Index (BMI) Milestones and Metabolic Risk during Early Adolescence
Cited by: 3
Author(s): Wei Perng, Mohammad L. Rahman, Izzuddin M. Aris, Gregory A. Michelotti, Joanne E. Sordillo, Jorge E. Chavarro, Emily Oken, Marie‐France Hivert
Software Mentions: 2
Published: over 6 years ago

10.1172/jci.insight.143141

Cerebrovascular insufficiency and amyloidogenic signaling in Ossabaw swine with cardiometabolic heart failure
Cited by: 7
Author(s): Bradley J. Baranowski, Matti D. Allen, Jennifer N.K. Nyarko, R. Scott Rector, Jaume Padilla, Darrell D. Mousseau, Christoph Rau, Yibin Wang, M. H. Laughlin, Craig A. Emter, Rebecca E. K. MacPherson, T. Dylan Olver
Software Mentions: 2
Published: over 5 years ago

10.1186/s40478-018-0606-1

Modulation of astrocyte reactivity improves functional deficits in mouse models of Alzheimer’s disease
Cited by: 122
Author(s): Kelly Ceyzériat, Lucile Ben Haim, Audrey Denizot, Dylan Pommier, Marco Matos, Océane Guillemaud, Marie-Ange Palomares, Laurene Abjean, Fanny Petit, Pauline Gipchtein, Marie-Claude Gaillard, Martine Guillermier, Suéva Bernier, Mylène Gaudin, Gwenaëlle Aurégan, Charlène Joséphine, Nathalie Déchamps, Julien Veran, Valentin Langlais, Karine Cambon, Alexis Bémelmans, Jan Baijer, Gilles Bonvento, Marc Dhénain, Jean‐François Deleuze, Stéphane H. R. Oliet, Emmanuel Brouillet, Philippe Hantraye, María-Angeles Carrillo-de Sauvage, Robert Olaso, Aude Panatier, Carole Escartin
Software Mentions: 2
Published: about 8 years ago

10.1172/jci.insight.149137

Gene expression atlas of energy balance brain regions
Cited by: 5
Author(s): Maria Caterina De Rosa, Hannah J Glover, George Stratigopoulos, Charles A. LeDuc, Qi Su, Yufeng Shen, Mark W. Sleeman, Wendy K. Chung, Rudolph L. Leibel, Judith Y. Altarejos, Claudia A. Doege
Software Mentions: 2
Published: about 5 years ago

10.3390/metabo10030105

Intracellular Metabolites in Marine Microorganisms during an Experiment Evaluating Microbial Mortality
Cited by: 5
Author(s): Krista Longnecker, Elizabeth B. Kujawinski
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-018-5117-8

Genome-wide identification of oil biosynthesis-related long non-coding RNAs in allopolyploid Brassica napus
Cited by: 37
Author(s): Enhui Shen, Xintian Zhu, Shuijin Hua, Hongyu Chen, Chu-Yu Ye, Longhua Zhou, Qing Liu, Qian‐Hao Zhu, Longjiang Fan, Xi Chen
Software Mentions: 2
Published: about 8 years ago

10.1186/s12935-018-0703-z

Identification of biomarkers of chromophobe renal cell carcinoma by weighted gene co-expression network analysis
Cited by: 17
Author(s): Xiaomao Yin, Jianfeng Wang, Jin Zhang
Software Mentions: 2
Published: almost 8 years ago

10.1111/acel.12386

Integration of ‘omics’ data in aging research: from biomarkers to systems biology
Cited by: 94
Author(s): Jonas Zierer, Cristina Menni, Gabi Kastenmüller, Tim D. Spector
Software Mentions: 2
Published: about 11 years ago

10.1186/s40104-020-00436-3

High rumen degradable starch decreased goat milk fat via trans-10, cis-12 conjugated linoleic acid-mediated downregulation of lipogenesis genes, particularly, INSIG1
Cited by: 10
Author(s): Zheng Li, Shengru Wu, Jing Shen, Xiaoying Han, Chunjia Jin, Xiao Chen, Shengguo Zhao, Yangchun Cao, Junhu Yao
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2021.738435

Recognition of Tumor-Associated Antigens and Immune Subtypes in Glioma for mRNA Vaccine Development
Cited by: 10
Author(s): Shuai Ma, Yixu Ba, Hang Ji, Fang Wang, Jianyang Du, Shaoshan Hu
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.658341

Exploration of the Shared Gene Signatures and Molecular Mechanisms Between Systemic Lupus Erythematosus and Pulmonary Arterial Hypertension: Evidence From Transcriptome Data
Cited by: 31
Author(s): Meng Yao, Chunyi Zhang, Congcong Gao, Qianqian Wang, Mengmeng Dai, Runzhi Yue, Wenbo Sun, Wenfang Liang, Zhaohui Zheng
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-16-S3-S4

Mining the bladder cancer-associated genes by an integrated strategy for the construction and analysis of differential co-expression networks
Cited by: 99
Author(s): Su-Ping Deng, Lin Zhu, De-Shuang Huang
Software Mentions: 2
Published: almost 12 years ago

10.4172/1948-593X.1000120

Systemic Transcriptional Alterations of Innate and Adaptive Immune Signaling Pathways in Atherosclerosis, Ischemia Stroke, and Myocardial Infarction
Cited by: 11
Author(s): Taura L. Barr, Reynal L VanGilder, Ryan Seiberg, Ashely Petrone, Paul D. Chantler, Chiang-Ching Huang
Software Mentions: 2
Published: almost 12 years ago

10.1074/jbc.RA118.003280

A dynamic transcriptomic atlas of cytokine-induced killer cells
Cited by: 7
Author(s): Mingyao Meng, Lin Li, Ruhong Li, Wenju Wang, Yang Chen, Youhua Xie, Rui Han, Kai Zhu, Wenwen Huang, Lili Yang, Shuo Li, Jianlin Shi, Wenyong Tan, Hui Gao, Yiyi Zhao, Yang Li, Tan Jinquan, Zongliu Hou
Software Mentions: 2
Published: almost 8 years ago

10.1155/2017/3035481

Functional Virtual Flow Cytometry: A Visual Analytic Approach for Characterizing Single-Cell Gene Expression Patterns
Cited by: 6
Author(s): Zhi Han, Travis Johnson, Jie Zhang, Xuan Zhang, Kun Huang
Software Mentions: 2
Published: almost 10 years ago

10.1155/2020/1371632

Network-Based Coexpression Analysis Identifies Functional and Prognostic Long Noncoding RNAs in Hepatocellular Carcinoma
Cited by: 1
Author(s): Jianguo Li, Jin Zhang, Shuangshuang Kai, Can Wang, Daijun Wang, Jiying Jiang
Software Mentions: 2
Published: about 6 years ago

10.1155/2018/5862571

Neuronal Signal Transduction-Involved Genes in Pig Hypothalamus Affect Feed Efficiency as Revealed by Transcriptome Analysis
Cited by: 17
Author(s): Ye Hou, Mingyang Hu, Huanhuan Zhou, Changchun Li, Xinyun Li, Xiangdong Liu, Yi‐Fang Zhao, Zhao Song
Software Mentions: 2
Published: almost 8 years ago

10.1186/s13229-019-0278-0

CYFIP1 overexpression increases fear response in mice but does not affect social or repetitive behavioral phenotypes
Cited by: 16
Author(s): Catherine J. Fricano-Kugler, Aaron Gordon, Grace S. Shin, Kun Gao, Jade Nguyen, Jamee M Berg, Mary e. Starks, Daniel H. Geschwind
Software Mentions: 2
Published: over 7 years ago

10.1007/s00401-018-1830-2

Tumour compartment transcriptomics demonstrates the activation of inflammatory and odontogenic programmes in human adamantinomatous craniopharyngioma and identifies the MAPK/ERK pathway as a novel therapeutic target
Cited by: 96
Author(s): John Apps, Gabriela Carreno, José Mario González-Meljem, Scott Haston, Romain Guiho, Jayne Cooper, Saba Manshaei, Nital Jani, Annett Hölsken, Benedetta Pettorini, Robert J. Beynon, Deborah M. Simpson, Helen C. Fraser, Ying Hong, Shirleen Hallang, T. J. Stone, Alex Virasami, Andrew M. Donson, David R. Jones, Kristian Aquilina, Helen Spoudeas, Abhijit Joshi, Richard G. Grundy, Lisa Storer, Márta Korbonits, David A. Hilton, Kyoko Tossell, Selvam Thavaraj, Mark A. Ungless, Jesús Gil, Rolf Buslei, Todd C. Hankinson, Darren Hargrave, Colin R. Goding, Cynthia L. Andoniadou, Paul A. Brogan, Thomas S. Jacques, Williams Hj, Juan Pedro Martinez-Barbera
Software Mentions: 2
Published: over 8 years ago

10.7150/jca.35223

Three novel hub genes and their clinical significance in clear cell renal cell carcinoma
Cited by: 12
Author(s): He Xiao, Ping Chen, Guang Zeng, Dongmei Xu, Xinghuan Wang, Xinhua Zhang
Software Mentions: 2
Published: almost 8 years ago

10.7150/jca.38173

Weighted gene co-expression network analysis identifies CCNA2 as a treatment target of prostate cancer through inhibiting cell cycle
Cited by: 22
Author(s): Rui Yang, Yanwei Du, Lei Wang, Zhiyuan Chen, Xiuheng Liu
Software Mentions: 2
Published: almost 7 years ago

10.7150/jca.30699

Identification of key genes and pathways associated with esophageal squamous cell carcinoma development based on weighted gene correlation network analysis
Cited by: 10
Author(s): Mingrui Shao, Wenya Li, Shiyang Wang, Zhenghua Liu
Software Mentions: 2
Published: almost 7 years ago

10.1186/1471-2105-15-S10-I1

Proceedings of the Thirteenth Annual UT- KBRIN Bioinformatics Summit 2014
Cited by: 0
Author(s): Eric C. Rouchka, Julia H. Chariker
Software Mentions: 2
Published: about 12 years ago

10.1186/s12935-019-0928-5

A nomogram based on 9-lncRNAs signature for improving prognostic prediction of clear cell renal cell carcinoma
Cited by: 24
Author(s): Wen Jiang, Qing Guo, Chenghe Wang, Yu Zhu
Software Mentions: 2
Published: about 7 years ago

10.3389/fimmu.2021.738068

A Comprehensive Prognostic and Immunological Analysis of a Six-Gene Signature Associated With Glycolysis and Immune Response in Uveal Melanoma
Cited by: 8
Author(s): Jun Li, Jianjun Lu, Wenli Li
Software Mentions: 2
Published: about 5 years ago

10.18632/oncotarget.19504

Coexpression analysis identifies nuclear reprogramming barriers of somatic cell nuclear transfer embryos
Cited by: 21
Author(s): Yongchun Zuo, Guanghua Su, Cheng Liu, Kun Liu, Yang Feng, Zhuying Wei, Chunling Bai, Guifang Cao, Guangpeng Li
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2020.00113

FBXW4 Acts as a Protector of FOLFOX-Based Chemotherapy in Metastatic Colorectal Cancer Identified by Co-Expression Network Analysis
Cited by: 6
Author(s): Yiyi Zhang, Lijun Sun, Xiaojie Wang, Yanwu Sun, Ying Chen, Meifang Xu, Pan Chi, Xingrong Lu, Zongbin Xu
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2020.580838

IFIH1 Contributes to M1 Macrophage Polarization in ARDS
Cited by: 14
Author(s): Zhen Shi, Cuilin Chu, Zongsheng Wu, Feng Liu, Jianfeng Xie, Yi Yang, Haibo Qiu
Software Mentions: 2
Published: almost 6 years ago

10.7150/jca.47918

New novel non-MHC genes were identified for cervical cancer with an integrative analysis approach of transcriptome-wide association study
Cited by: 6
Author(s): Haimiao Chen, Ting Wang, Shuiping Huang, Ping Zeng
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms22105291

Genome-Wide Analysis of nsLTP Gene Family and Identification of SiLTPs Contributing to High Oil Accumulation in Sesame (Sesamum indicum L.)
Cited by: 17
Author(s): Shengnan Song, Jun You, Lisong Shi, Sheng Chen, Wangyi Zhou, Senouwa Segla Koffi Dossou, Komivi Dossa, Linhai Wang
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-019-6036-z

Comparative transcriptome and coexpression network analysis of carpel quantitative variation in Paeonia rockii
Cited by: 16
Author(s): Na Liu, Fangyun Cheng, Yuan Zhong, Xin Guo
Software Mentions: 2
Published: about 7 years ago

10.7150/jca.48045

Comprehensive investigation of the clinical significance of long non-coding RNA HOXA-AS2 in acute myeloid leukemia using genome-wide RNA sequencing dataset
Cited by: 3
Author(s): Rui Huang, Xiwen Liao, Xiangkun Wang, Qiaochuan Li
Software Mentions: 2
Published: almost 6 years ago

10.3389/fonc.2021.624145

Human Cerebrospinal Fluid Modulates Pathways Promoting Glioblastoma Malignancy
Cited by: 9
Author(s): Anna Carrano, Natanael Zarco, Jordan Phillipps, Montserrat Lara-Velazquez, Paola Suárez‐Meade, Emily S. Norton, Kaisorn L. Chaichana, Alfredo Quiñones‐Hinojosa, Yan W. Asmann, Hugo Guerrero-Cázares
Software Mentions: 2
Published: over 5 years ago

10.7150/jca.53697

Identification of tumor mutation burden-related hub genes and the underlying mechanism in melanoma
Cited by: 8
Author(s): Chuan Zhang, Dan Dang, Chenlu Liu, Yuqian Wang, Xianling Cong
Software Mentions: 2
Published: almost 6 years ago

10.1186/s13293-019-0259-1

The developmental origins of sex-biased expression in cardiac development
Cited by: 30
Author(s): Daniel F. Deegan, Reza Karbalaei, Jozef Madžo, Rob J. Kulathinal, Nora Engel
Software Mentions: 2
Published: about 7 years ago

10.18632/aging.103712

Chloride intracellular channel protein 2: prognostic marker and correlation with PD-1/PD-L1 in breast cancer
Cited by: 14
Author(s): Tao Xu, Zhi Wang, Menglu Dong, Di Wu, Shujie Liao, Xingrui Li
Software Mentions: 2
Published: about 6 years ago

10.7150/jca.55113

Identification and validation of the clinical roles of the VHL-related LncRNAs in clear cell renal cell carcinoma
Cited by: 19
Author(s): Wuping Yang, Jingcheng Zhou, Kenan Zhang, Lei Li, Yawei Xu, Kaifang Ma, Haibiao Xie, Lin Cai, Yanqing Gong, Kan Gong
Software Mentions: 2
Published: almost 6 years ago

10.18632/aging.203378

Identification of inflammation-related DNA methylation biomarkers in periodontitis patients based on weighted co-expression analysis
Cited by: 6
Author(s): Pengcheng Wang, Bingbing Wang, Zheng Zhang, Zuomin Wang
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.615859

Integrated Transcriptome Profiling Revealed That Elevated Long Non-Coding RNA-AC007278.2 Expression Repressed CCR7 Transcription in Systemic Lupus Erythematosus
Cited by: 14
Author(s): Yi You, Xingwang Zhao, WU Yu-hua, Jiangming Mao, Lan Ge, Junkai Guo, Chunrong Zhao, Dong Chen, Zhiqiang Song
Software Mentions: 2
Published: over 5 years ago

10.1186/s12575-019-0108-y

Comprehensive Transcriptomic Analysis of Mouse Gonadal Development Involving Sexual Differentiation, Meiosis and Gametogenesis
Cited by: 10
Author(s): Jian Wang, Geng Tian, Zhan‐Jiang Zheng, Bo Li, Qinghe Xing, Ji Wu
Software Mentions: 2
Published: about 7 years ago

10.1186/s12935-020-01361-1

Identification of four hub genes as promising biomarkers to evaluate the prognosis of ovarian cancer in silico
Cited by: 16
Author(s): Jingxuan Chen, Yun Cai, Rui Xu, Jiadong Pan, Jie Zhou, Jie Mei
Software Mentions: 2
Published: over 6 years ago

10.1186/s12935-020-01488-1

Analyzing the lncRNA, miRNA, and mRNA-associated ceRNA networks to reveal potential prognostic biomarkers for glioblastoma multiforme
Cited by: 18
Author(s): Xiaolong Zhu, Lan Jiang, Hui Yang, Tianbing Chen, Xiang Wu, Kun Lv
Software Mentions: 2
Published: about 6 years ago

10.3390/molecules25010190

Metabolome and Transcriptome Analysis Reveals Putative Genes Involved in Anthocyanin Accumulation and Coloration in White and Pink Tea (Camellia sinensis) Flower
Cited by: 51
Author(s): Caibi Zhou, Xin Mei, Dylan O’Neill Rothenberg, Zuoren Yang, Wenting Zhang, Shihua Wan, Haijun Yang, Lingyun Zhang
Software Mentions: 1
Published: almost 7 years ago

10.3389/fgene.2019.00964

Transcriptomic and Functional Analyses of Phenotypic Plasticity in a Higher Termite, Macrotermes barneyi Light
Cited by: 10
Author(s): Pengdong Sun, Ganghua Li, Jianbo Jian, Long Liu, Junhui Chen, Shuxin Yu, Huan Xu, Chaoliang Lei, Xuguo Zhou, Qiuying Huang
Software Mentions: 1
Published: about 7 years ago

10.1074/mcp.RA118.001021

Characterization of Proteome Variation During Modern Maize Breeding*
Cited by: 34
Author(s): Luguang Jiang, Bo Li, Shengxue Liu, Hongwei Wang, Cuiping Li, Shuhui Song, Mary Beatty, Gina Zastrow-Hayes, Xiaohong Yang, Feng Qin, Yan He
Software Mentions: 1
Published: over 7 years ago

10.18632/oncotarget.17023

Prognosis of stage III colorectal carcinomas with FOLFOX adjuvant chemotherapy can be predicted by molecular subtype
Cited by: 33
Author(s): Yu-Jin Kwon, Min Hee Park, Mi Jang, SeongJu Yun, Won Kyu Kim, Sora Kim, Soonmyung Paik, Hyun Jung Lee, Suck Joon Hong, Tae Il Kim, Byung-Soh Min, Hoguen Kim
Software Mentions: 1
Published: over 9 years ago

10.1186/s12943-021-01310-0

Identification of tumor antigens and immune subtypes of pancreatic adenocarcinoma for mRNA vaccine development
Cited by: 84
Author(s): Xing Huang, Gang Zhang, Tianyu Tang, Tingbo Liang
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2015.00301

Moving from capstones toward cornerstones: successes and challenges in applying systems biology to identify mechanisms of autism spectrum disorders
Cited by: 14
Author(s): Nathan Kopp, Sharlee Climer, Joseph D. Dougherty
Software Mentions: 1
Published: about 11 years ago

10.3389/fgene.2015.00255

Potential role of lncRNA cyp2c91–protein interactions on diseases of the immune system
Cited by: 17
Author(s): Prashanth Suravajhala, Lisette J. A. Kogelman, Gianluca Mazzoni, Haja N. Kadarmideen
Software Mentions: 1
Published: over 11 years ago

10.1186/s12943-021-01398-4

N6-methyladenosine-modified circIGF2BP3 inhibits CD8+ T-cell responses to facilitate tumor immune evasion by promoting the deubiquitination of PD-L1 in non-small cell lung cancer
Cited by: 121
Author(s): Zhenchuan Liu, Tingting Wang, Yunlang She, Kaiqing Wu, Shaorui Gu, Lei Li, Chunyan Dong, Chang Chen, Yilu Zhou
Software Mentions: 1
Published: about 5 years ago

10.1186/s12943-021-01341-7

The role of mRNA in the development, diagnosis, treatment and prognosis of neural tumors
Cited by: 16
Author(s): Yiyang Zheng, Yingwei Luo, Xixi Chen, Huiting Li, Baojun Huang, Baofeng Zhou, Lei Zhu, Xianhui Kang, Geng Wang
Software Mentions: 1
Published: over 5 years ago

10.18632/oncotarget.15031

Comprehensive analysis of PD-L1 expression in glioblastoma multiforme
Cited by: 73
Author(s): Dieter Henrik Heiland, Gerrit Haaker, Daniel Delev, Bianca Mercas, Waseem Masalha, Sabrina Heynckes, Annette Gäbelein, Dietmar Pfeifer, Maria Stella Carro, Astrid Weyerbrock, Marco Prinz, Oliver Schnell
Software Mentions: 1
Published: over 9 years ago

10.18632/oncotarget.17785

Gene co-expression network reveals shared modules predictive of stage and grade in serous ovarian cancers
Cited by: 43
Author(s): Qian Sun, Hongbo Zhao, Cong Zhang, Ting Hu, Jiankang Wu, Xingguang Lin, Danfeng Luo, Changyu Wang, Meng Li, Xi Liu, Kezhen Li, Junbo Hu, Ding Ma, Tao Zhu
Software Mentions: 1
Published: over 9 years ago

Projects: cran: WGCNA

Science Score: 85/100

Bonuses:

Penalties:

Papers Mentioning WGCNA 3,479