cran: WGCNA | Projects | Ecosyste.ms: Papers

10.1186/s12967-021-02879-2

METTL13 inhibits progression of clear cell renal cell carcinoma with repression on PI3K/AKT/mTOR/HIF-1α pathway and c-Myc expression
Cited by: 13
Author(s): Zhuonan Liu, Tianshui Sun, Chiyuan Piao, Zhe Zhang, Chuize Kong
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-07193-7

Temporal transcriptomic differences between tolerant and susceptible genotypes contribute to rice drought tolerance
Cited by: 8
Author(s): Hui Xia, Xiaoyan Ma, Kai Xu, Lei Wang, Hongyan Liu, Liang Chen, Lijun Luo
Software Mentions: 1
Published: almost 6 years ago

10.1038/srep39614

Genetically regulated hepatic transcripts and pathways orchestrate haematological, biochemical and body composition traits
Cited by: 7
Author(s): Siriluck Ponsuksili, Nares Trakooljul, Frieder Hadlich, Fiete Haack, Eduard Muráni, Klaus Wimmers
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0100204

Whole Brain Expression of Bipolar Disorder Associated Genes: Structural and Genetic Analyses
Cited by: 23
Author(s): Michael J. McCarthy, Sheng-Fu Liang, Andrea D. Spadoni, John R. Kelsoe, Alan N. Simmons
Software Mentions: 1
Published: over 12 years ago

10.1155/2018/8726456

“Omics” Signatures in Peripheral Monocytes from Women with Low BMD Condition
Cited by: 2
Author(s): Bhavna Daswani, M. Ikram Khatkhatay
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0077629

Serum Metabolomics of Slow vs. Rapid Motor Progression Parkinson’s Disease: a Pilot Study
Cited by: 101
Author(s): James R. Roede, Karan Uppal, Youngja Park, Kichun Lee, ViLinh Tran, Douglas I. Walker, Frederick H. Strobel, Shannon Rhodes, Beate Ritz, Dean P. Jones
Software Mentions: 1
Published: about 13 years ago

10.1038/srep43523

Integrative Diffusion-Weighted Imaging and Radiogenomic Network Analysis of Glioblastoma multiforme
Cited by: 18
Author(s): Dieter Henrik Heiland, Carl Philipp Simon-Gabriel, Theo Demerath, Gerrit Haaker, Dietmar Pfeifer, Elias Kellner, Valerij G. Kiselev, Ori Staszewski, Horst Urbach, Astrid Weyerbrock, Irina Mader
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0134706

Interleukin 21 Controls mRNA and MicroRNA Expression in CD40-Activated Chronic Lymphocytic Leukemia Cells
Cited by: 15
Author(s): Loris De Cecco, Matteo Capaia, Simona Zupo, Giovanna Cutrona, Serena Matis, Antonella Brizzolara, Anna Maria Orengo, Michela Croce, Edoardo Marchesi, Manlio Ferrarini, Silvana Canevari, Silvano Ferrini
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0020716

Hippocampal Gene Expression Analysis Highlights Ly6a/Sca-1 as Candidate Gene for Previously Mapped Novelty Induced Behaviors in Mice
Cited by: 6
Author(s): Simone de Jong, Martien Kas, Jeffrey Kiernan, Annetrude J G de Mooij-van Malsen, Hugo Oppelaar, Esther Janson, Igor Vukobradovic, Charles R. Farber, William L. Stanford, Roel A. Ophoff
Software Mentions: 1
Published: over 15 years ago

10.7717/peerj.10385

The m6A reader protein YTHDC2 is a potential biomarker and associated with immune infiltration in head and neck squamous cell carcinoma
Cited by: 27
Author(s): Yang Li, Ji-Na Zheng, En-Hao Wang, Chan-Juan Gong, Keng-Fu Lan, Xiaobo Ding
Software Mentions: 1
Published: almost 6 years ago

10.1111/acel.13349

Epigenetic clock and methylation study of oocytes from a bovine model of reproductive aging
Cited by: 19
Author(s): Paweł Kordowitzki, Amin Haghani, Joseph A. Zoller, Caesar Z. Li, Ken Raj, Matthew L Spangler, Steve Horvath
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.8318

Gene co-expression network for analysis of plasma exosomal miRNAs in the elderly as markers of aging and cognitive decline.
Cited by: 7
Author(s): Ye Zheng, Bo Sun, Xue Mi, Xiao Zhang
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-00952-9

Global gene expression profiling of healthy human brain and its application in studying neurological disorders
Cited by: 49
Author(s): Simarjeet Negi, Chittibabu Guda
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-016-3176-2

Large-scale gene co-expression network as a source of functional annotation for cattle genes
Cited by: 16
Author(s): Hamid Beiki, A. Nejati‐Javaremi, A. Pakdel, Ali Masoudi‐Nejad, Zhi-Liang Hu, James M. Reecy
Software Mentions: 1
Published: almost 10 years ago

10.7717/peerj.8504

A transcriptional co-expression network-based approach to identify prognostic biomarkers in gastric carcinoma
Cited by: 5
Author(s): Danqi Liu, Boting Zhou, Rangru Liu
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.7197

Screening of immunosuppressive factors for biomarkers of breast cancer malignancy phenotypes and subtype-specific targeted therapy
Cited by: 2
Author(s): Ping Wang, Jiaxuan Liu, Yunlei Song, Qiang Liu, Chao Wang, Caiyun Qian, Shuhua Zhang, Weixing Zhu, Xiaohong Yang, Fang Wan, Kebin Liu, Daya Luo
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-00808-2

Organ-specific transcriptome profiling of metabolic and pigment biosynthesis pathways in the floral ornamental progenitor species Anthurium amnicola Dressler
Cited by: 13
Author(s): Jon Y. Suzuki, T.D. Amore, Bernarda Calla, Nathan A. Palmer, Erin D. Scully, Scott E. Sattler, Gautam Sarath, J.S. Lichty, Roxana Y. Myers, Lisa M. Keith, Tracie K. Matsumoto, Scott M. Geib
Software Mentions: 1
Published: over 9 years ago

10.1186/s12967-015-0383-6

Berberine ameliorates nonalcoholic fatty liver disease by a global modulation of hepatic mRNA and lncRNA expression profiles
Cited by: 86
Author(s): Xinlu Yuan, Jie Wang, Xiaoyan Tang, Yixue Li, Pu Xia, Xin Gao
Software Mentions: 1
Published: almost 12 years ago

10.7717/peerj.8843

Identification of key gene modules and hub genes of human mantle cell lymphoma by coexpression network analysis
Cited by: 12
Author(s): Dongmei Guo, Hongchun Wang, Li Sun, Shuang Liu, Shisuo Du, Wenming Qiao, Weiyan Wang, Gang Hou, Kaigang Zhang, Chunpu Li, Qingliang Teng
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.10198

Construction and analysis of macrophage infiltration related circRNA-miRNA-mRNA regulatory networks in hepatocellular carcinoma
Cited by: 10
Author(s): Yuhan Chen, Yalin Li, Guanglei Zheng, Pengyu Zhou
Software Mentions: 1
Published: about 6 years ago

10.1016/j.isci.2021.102265

Temporal metabolic and transcriptomic characteristics crossing islets and liver reveal dynamic pathophysiology in diet-induced diabetes
Cited by: 8
Author(s): Rui Gao, Qi Fu, Hemin Jiang, Min Shen, Ruipeng Zhao, Yu Q, Yunqiang He, Kuanfeng Xu, Xinyu Xu, Heng Chen, Quan Zhang, Tao Yang
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.7722

CD36 identified by weighted gene co-expression network analysis as a hub candidate gene in lupus nephritis
Cited by: 14
Author(s): Huiying Yang, Hua Li
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-017-05280-6

The integrated pathway of TGFβ/Snail with TNFα/NFκB may facilitate the tumor-stroma interaction in the EMT process and colorectal cancer prognosis
Cited by: 44
Author(s): Hui Li, Anjing Zhong, Si Li, Xianwen Meng, Xue Wang, Fangying Xu, Maode Lai
Software Mentions: 1
Published: over 9 years ago

10.1186/s12989-019-0321-5

An in-depth multi-omics analysis in RLE-6TN rat alveolar epithelial cells allows for nanomaterial categorization
Cited by: 24
Author(s): Isabel Karkossa, Anne Bannuscher, Bryan Hellack, Aileen Bahl, Sophia Buhs, Peter Nollau, Andreas Luch, Kristin Schubert, Martin von Bergen, Andrea Haase
Software Mentions: 1
Published: about 7 years ago

10.3390/v11080683

Hepatitis C Virus as a Unique Human Model Disease to Define Differences in the Transcriptional Landscape of T Cells in Acute versus Chronic Infection
Cited by: 5
Author(s): David Wolski, Georg M. Lauer
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-06701-2

Characterization and expression analysis of the WRKY gene family in moso bamboo
Cited by: 34
Author(s): Long Li, Shaohua Mu, Zhanchao Cheng, Yuanwen Cheng, Ying Zhang, Ying Miao, Cheng‐Lin Hou, Xueping Li, Jian Gao
Software Mentions: 1
Published: over 9 years ago

10.1186/s12985-019-1231-8

Identifying novel biomarkers of the pediatric influenza infection by weighted co-expression network analysis
Cited by: 19
Author(s): Mohadeseh Zarei Ghobadi, Sayed‐Hamidreza Mozhgani, Mahdieh Farzanehpour, Farida Behzadian
Software Mentions: 1
Published: about 7 years ago

10.1111/acel.12788

Synergistic effects of TGFβ2, WNT9a, and FGFR4 signals attenuate satellite cell differentiation during skeletal muscle development
Cited by: 19
Author(s): Weiya Zhang, Yongming Xu, Lu Zhang, Sheng Wang, Binxu Yin, Zhao Song, Xinyun Li
Software Mentions: 1
Published: over 8 years ago

10.3390/nu11061265

Network Analysis of the Potential Role of DNA Methylation in the Relationship between Plasma Carotenoids and Lipid Profile
Cited by: 18
Author(s): Bénédicte L. Tremblay, Frédéric Guénard, Benoı̂t Lamarche, Louis Pérusse, Marie‐Claude Vohl
Software Mentions: 1
Published: over 7 years ago

10.15252/msb.20145399

Integrative network analysis reveals molecular mechanisms of blood pressure regulation
Cited by: 92
Author(s): Tianxiao Huan, Qingying Meng, Mohamed A. Saleh, Allison E. Norlander, Roby Joehanes, Jun Zhu, Brian H. Chen, Bin Zhang, Andrew D. Johnson, Saixia Ying, Paul Courchesne, Nalini Raghavachari, Thomas J. Wang, Poching Liu, Christopher J. O’Donnell, Ramachandran S. Vasan, Peter J. Munson, Meena S Madhur, David G. Harrison, Xia Yang, Daniel Levy
Software Mentions: 1
Published: over 11 years ago

10.1186/s13048-020-00710-y

Identification of WTAP-related genes by weighted gene co-expression network analysis in ovarian cancer
Cited by: 11
Author(s): Jing Wang, Jing Xu, Ke Li, Yunke Huang, Yilin Dai, Congjian Xu, Yu Kang
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-017-10127-1

Analysis of temporal expression profiles after sciatic nerve injury by bioinformatic method
Cited by: 4
Author(s): Yichong Zhang, Yuanbo Zhan, Ning Han, Yuhui Kou, Xiaofeng Yin, Peixun Zhang
Software Mentions: 1
Published: about 9 years ago

10.1038/s41380-018-0243-x

Adolescent exposure to Δ9-tetrahydrocannabinol alters the transcriptional trajectory and dendritic architecture of prefrontal pyramidal neurons
Cited by: 74
Author(s): Michael L. Miller, Benjamin Chadwick, Dara L. Dickstein, Immanuel Purushothaman, Gábor Egervári, Tanni Rahman, Chloé Tessereau, Patrick R. Hof, Panos Roussos, Li Shen, Mark G. Baxter, Yasmin L. Hurd
Software Mentions: 1
Published: about 8 years ago

10.18632/aging.102816

Cancer stem cell-specific expression profiles reveal emerging bladder cancer biomarkers and identify circRNA_103809 as an important regulator in bladder cancer
Cited by: 19
Author(s): Tao Tao, Simin Yuan, Jinjian Liu, Da Shi, Mian Peng, Chong Li, Song Wu
Software Mentions: 1
Published: over 6 years ago

10.1186/s13024-018-0268-2

TMEM106B haplotypes have distinct gene expression patterns in aged brain
Cited by: 29
Author(s): Yingxue Ren, Marka van Blitterswijk, Mariet Allen, Minerva M. Carrasquillo, Joseph S. Reddy, Xue Wang, Thomas G. Beach, Dennis W. Dickson, Nilüfer Ertekin-Taner, Yan W. Asmann, Rosa Rademakers
Software Mentions: 1
Published: over 8 years ago

10.1186/s13024-016-0085-4

Frontotemporal dementia: insights into the biological underpinnings of disease through gene co-expression network analysis
Cited by: 39
Author(s): Raffaele Ferrari, Paola Forabosco, Jana Vandrovcová, Juan A. Botía, Sebastian Guelfi, Jason D. Warren, Parastoo Momeni, Michael E. Weale, Mina Ryten, John Hardy
Software Mentions: 1
Published: over 10 years ago

10.3390/nu13072185

Association of Plasma Phospholipids with Age-Related Cognitive Impairment: Results from a Cross-Sectional Study
Cited by: 2
Author(s): Tingting Liu, Shaojie Pang, Shanshan Jia, Qingqing Man, Yuqian Li, Shuang Song, Jian Zhang
Software Mentions: 1
Published: over 5 years ago

10.1007/s12035-021-02388-9

Sorting Out Sorting Nexins Functions in the Nervous System in Health and Disease
Cited by: 13
Author(s): Neide Vieira, Teresa Rito, Margarida Correia-Neves, Nuno Sousa
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-14120-6

Early-onset and classical forms of type 2 diabetes show impaired expression of genes involved in muscle branched-chain amino acids metabolism
Cited by: 45
Author(s): María Isabel Hernández‐Álvarez, Ángels Díaz-Ramos, María Berdasco, Jeff E. Cobb, Evarist Planet, Diane Cooper, Agnieszka Pazderska, Krzystof Wanic, Declan O’Hanlon, Antonio Gómez, Laura Rodríguez de la Ballina, Manel Esteller, Manuel Palacı́n, Donal J. O'Gorman, John J. Nolan, António Zorzano
Software Mentions: 1
Published: about 9 years ago

10.1186/s10020-019-0135-9

Identification of biomarkers in common chronic lung diseases by co-expression networks and drug-target interactions analysis
Cited by: 29
Author(s): Mazaher Maghsoudloo, Sadegh Azimzadeh Jamalkandi, Ali Najafi, Ali Masoudi‐Nejad
Software Mentions: 1
Published: almost 7 years ago

10.1002/mgg3.427

Identification and functional annotation of metabolism-associated lncRNAs and their related protein-coding genes in gastric cancer
Cited by: 14
Author(s): Xiaoyan Mo, Tianwen Li, Youhua Xie, Linwen Zhu, Bingxiu Xiao, Qi Liao, Junming Guo
Software Mentions: 1
Published: over 8 years ago

10.1002/mgg3.1478

Identification of a missense ARSA mutation in metachromatic leukodystrophy and its potential pathogenic mechanism
Cited by: 2
Author(s): Liyuan Guo, Bo Jin, Yidan Zhang, Jing Wang
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.8496

Development of a prediction model for radiosensitivity using the expression values of genes and long non-coding RNAs
Cited by: 8
Author(s): Weian Wang, Liang‐Chuan Lai, Mong-Hsun Tsai, Tzu-Pin Lu, Eric Y. Chuang
Software Mentions: 1
Published: over 10 years ago

10.3390/molecules22060889

Comprehensive Characterization for Ginsenosides Biosynthesis in Ginseng Root by Integration Analysis of Chemical and Transcriptome
Cited by: 21
Author(s): Jingjing Zhang, He Su, Lei Zhang, Baosheng Liao, Shaobo Xiao, Lixin Dong, Zhigang Hu, Ping Wang, Xiwen Li, Zhixing Huang, Zhiming Gao, Lianjuan Zhang, Liang Shen, Ruiyang Cheng, Jiang Xu, Shilin Chen
Software Mentions: 1
Published: over 9 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

10.18632/aging.103054

A novel immune-related genes prognosis biomarker for melanoma: associated with tumor microenvironment
Cited by: 73
Author(s): Rongzhi Huang, Min Mao, Yong Lu, Qingliang Yu, Liang Liao
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-017-18287-w

Integrated transcriptional analysis unveils the dynamics of cellular differentiation in the developing mouse hippocampus
Cited by: 6
Author(s): Giovanni Iacono, Marco Benevento, Aline Dubos, Yann Hérault, Hans van Bokhoven, Nael Nadif Kasri, Hendrik G. Stunnenberg
Software Mentions: 1
Published: almost 9 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

10.1186/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

10.1038/s41598-017-18084-5

A Global View of Transcriptome Dynamics During Male Floral Bud Development in Populus tomentosa
Cited by: 25
Author(s): Zhong Chen, Pian Rao, Xiaoyu Yang, Xiaoxing Su, Tianyun Zhao, Kai Gao, Xiong Yang, Xinmin An
Software Mentions: 1
Published: almost 9 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

10.18632/aging.202285

Identification of key modules and genes associated with breast cancer prognosis using WGCNA and ceRNA network analysis
Cited by: 44
Author(s): Xin Yin, Pei Wang, Tianshu Yang, Gen Li, Xu Teng, Wei Huang, Hefen Yu
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-12-S3-S3

Liverome: a curated database of liver cancer-related gene signatures with self-contained context information
Cited by: 40
Author(s): Langho Lee, Kai Wang, Gang Li, Zhi Xie, Yuli Wang, Jiangchun Xu, Shaoxian Sun, David Pocalyko, Jong Bhak, Chulhong Kim, Kee-Ho Lee, Ye Jin Jang, Young Il Yeom, Hyang Sook Yoo, Seungwoo Hwang
Software Mentions: 1
Published: almost 15 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

10.1186/s12943-015-0350-0

Correlations between immune response and vascularization qRT-PCR gene expression clusters in squamous cervical cancer
Cited by: 36
Author(s): Simone Punt, Jeanine J. Houwing-Duistermaat, Iris A. Schulkens, Victor L. Thijssen, Elisabeth M. Osse, Cornelis D. de Kroon, Arjan W. Griffioen, Gert Jan Fleuren, Arko Gorter, Ekaterina S. Jordanova
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-018-21524-5

Consequences of VHL Loss on Global DNA Methylome
Cited by: 14
Author(s): Claire M. Robinson, François Lefebvre, Betty Poon, Aurélie Bousard, Xiaojun Fan, Mark Lathrop, Jörg Tost, William Y. Kim, Yasser Riazalhosseini, Michael Ohh
Software Mentions: 1
Published: over 8 years ago

10.1186/s13041-019-0521-9

Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice
Cited by: 14
Author(s): Ji-Won Kwon, Yeong Jae Kim, Kyoung Soon Choi, Sihwan Seol, Hyo Jung Kang
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-018-21779-y

An Epidemiological Human Disease Network Derived from Disease Co-occurrence in Taiwan
Cited by: 19
Author(s): Yefei Jiang, Shuangge Ma, Ben‐Chang Shia, Tian Shyug Lee
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-018-5104-0

Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)
Cited by: 13
Author(s): Guangyan Feng, Lei Xu, Jianping Wang, Gang Nie, B. Shaun Bushman, Wengang Xie, Haidong Yan, Zhongfu Yang, Hao Guan, Linkai Huang, Xinquan Zhang
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-018-23647-1

Identification of The Aberrantly Expressed LncRNAs in Hepatocellular Carcinoma: A Bioinformatics Analysis Based on RNA-sequencing
Cited by: 25
Author(s): Haotian Liao, Jiwei Huang, Tian Lan, Jinju Wang, Bo Zhu, Kefei Yuan, Yong Zeng
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-020-07250-1

Deficiencies in the formation and regulation of anther cuticle and tryphine contribute to male sterility in cotton PGMS line
Cited by: 5
Author(s): Meng Zhang, Ji Liu, Qiang Ma, Yuan Qin, Hantao Wang, Pengyun Chen, Liang Ma, Xiaokang Fu, Longfu Zhu, Hengling Wei, Shuang Yu
Software Mentions: 1
Published: almost 6 years ago

10.18632/oncotarget.10680

Aberrant transcriptional networks in step-wise neurogenesis of paroxysmal kinesigenic dyskinesia-induced pluripotent stem cells
Cited by: 4
Author(s): Chun Li, Yu Ma, Kunshan Zhang, Junjie Gu, Fan Tang, Shengdi Chen, Li Cao, Siguang Li, Ying Jin
Software Mentions: 1
Published: over 10 years ago

10.1093/molbev/msab004

Functional Diversification, Redundancy, and Epistasis among Paralogs of the Drosophila melanogaster Obp50a–d Gene Cluster
Cited by: 10
Author(s): Joel A. Johnstun, Vijay Shankar, Sneha S Mokashi, Lakshmi T. Sunkara, Ugonna E Ihearahu, Roberta Lyman, Trudy F. C. Mackay, Robert R. H. Anholt
Software Mentions: 1
Published: over 5 years ago

10.1186/2040-2392-5-22

DAWN: a framework to identify autism genes and subnetworks using gene expression and genetics
Cited by: 111
Author(s): Li Liu, Jing Lei, Stephan Sanders, A. Jeremy Willsey, Yan Kou, A. Ercüment Çiçek, Lambertus Klei, Cong Lu, Xin He, Mingfeng Li, Rebecca Muhle, Avi Ma’ayan, James P. Noonan, Nenad Šestan, Kathryn McFadden, Matthew W. State, Joseph D. Buxbaum, Bernie Devlin, Kathryn Roeder
Software Mentions: 1
Published: over 12 years ago

10.1186/s13229-015-0029-9

Atypical miRNA expression in temporal cortex associated with dysregulation of immune, cell cycle, and other pathways in autism spectrum disorders
Cited by: 59
Author(s): Bradley P. Ander, Nicole Barger, Boryana Stamova, Frank R. Sharp, Cynthia M. Schumann
Software Mentions: 1
Published: over 11 years ago

10.18632/oncotarget.11304

Identification and functional analysis of long non-coding RNAs in human and mouse early embryos based on single-cell transcriptome data
Cited by: 27
Author(s): Jiajun Qiu, Zhaorui Ren, Jingbin Yan
Software Mentions: 1
Published: about 10 years ago

10.1038/s41598-018-26310-x

Sorting Five Human Tumor Types Reveals Specific Biomarkers and Background Classification Genes
Cited by: 9
Author(s): Kimberly Roche, Marvin Weinstein, Leland J. Dunwoodie, William L. Poehlman, F. Alex Feltus
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-26495-1

Convergent Pathways in Idiopathic Autism Revealed by Time Course Transcriptomic Analysis of Patient-Derived Neurons
Cited by: 63
Author(s): Brooke A. DeRosa, Jimmy El Hokayem, Elena Artimovich, Catherine Garcia‐Serje, Andrè W. Phillips, Derek Van Booven, Jonathan E. Nestor, Lily Wang, Michael L. Cuccaro, Jeffery M. Vance, Margaret A. Pericak‐Vance, Holly N. Cukier, Michael W. Nestor, Derek M. Dykxhoorn
Software Mentions: 1
Published: over 8 years ago

10.1186/s13229-020-00382-x

Functional relationships between recessive inherited genes and genes with de novo variants in autism spectrum disorder
Cited by: 4
Author(s): Lin Wang, Yi Zhang, Kuokuo Li, Zheng Wang, Xiaomeng Wang, Bin Li, Guizhe Zhao, Zhenghuan Fang, Zhengbao Ling, Tengfei Luo, Xia Lu, Yanping Li, Hui Guo, Zhengmao Hu, Jinchen Li, Zhen Sun, Kun Xia
Software Mentions: 1
Published: about 6 years ago

10.3390/microorganisms8040518

iTRAQ-based Quantitative Proteomics Analysis Identifies Host Pathways Modulated during Toxoplasma gondii Infection in Swine
Cited by: 7
Author(s): Jun-Jun He, Jun Ma, Jin‐Lei Wang, Fu-Kai Zhang, Jiexi Li, Bintao Zhai, Hany M. Elsheikha, Xing‐Quan Zhu
Software Mentions: 1
Published: over 6 years ago

10.3390/microorganisms8060951

Functional Associations and Resilience in Microbial Communities
Cited by: 11
Author(s): María Luisa Ávila-Jiménez, Gavin Burns, Zhili He, Jizhong Zhou, Andy Hodson, Jose-Luis Avila-Jimenez, David A. Pearce
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-019-5424-8

Transcriptional regulatory networks controlling taste and aroma quality of apricot (Prunus armeniaca L.) fruit during ripening
Cited by: 36
Author(s): Qiuyun Zhang, Chao Feng, Wenhui Li, Zehui Qu, Ming Zeng, Wanpeng Xi
Software Mentions: 1
Published: almost 8 years ago

10.1186/2049-2618-1-17

Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships
Cited by: 230
Author(s): Ian Howard Mchardy, Maryam Goudarzi, Man‐Li Tong, Paul Ruegger, Emma Schwager, John R. Weger, Thomas G. Graeber, Justin L. Sonnenburg, Steve Horvath, Curtis Huttenhower, Dermot P. McGovern, Albert J. Fornace, James Borneman, Jonathan Braun
Software Mentions: 1
Published: over 13 years ago

10.1186/s12864-019-5773-3

A deficiency in SUMOylation activity disrupts multiple pathways leading to neural tube and heart defects in Xenopus embryos
Cited by: 11
Author(s): Michelle M. Bertke, Kyle M. Dubiak, Laura Cronin, Erliang Zeng, Paul W. Huber
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-30302-2

The age-regulated zinc finger factor ZNF367 is a new modulator of neuroblast proliferation during embryonic neurogenesis
Cited by: 12
Author(s): Valentina Naef, Sara Monticelli, Debora Corsinovi, Maria Teresa Mazzetto, Alessandro Cellerino, Michela Ori
Software Mentions: 1
Published: about 8 years ago

10.18632/aging.102309

Hypermethylated long noncoding RNA MEG3 promotes the progression of gastric cancer
Cited by: 15
Author(s): Lei Ding, Yuan Tian, Ling Wang, Miaomiao Bi, Dengke Teng, Sen Hong
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-018-30779-x

Transcriptional network analysis of human astrocytic endfoot genes reveals region-specific associations with dementia status and tau pathology
Cited by: 41
Author(s): Matthew Simon, Marie X. Wang, Charles Murchison, Natalie Roese, Erin L. Boespflug, Randall L. Woltjer, Jeffrey J. Iliff
Software Mentions: 1
Published: about 8 years ago

10.1186/s12934-020-01349-6

Repeated fed-batch strategy and metabolomic analysis to achieve high docosahexaenoic acid productivity in Crypthecodinium cohnii
Cited by: 9
Author(s): Liangsen Liu, Fangzhong Wang, Guangsheng Pei, Jinyu Cui, Jinjin Diao, Mingming Lv, Lei Chen, Weiwen Zhang
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-016-3201-5

Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass
Cited by: 14
Author(s): Taylor P. Frazier, Nathan A. Palmer, Fuliang Xie, Christian M. Tobias, Teresa Donze-Reiner, Aureliano Bombarely, Kevin L. Childs, Shengqiang Shu, Jerry Jenkins, Jeremy Schmutz, Baohong Zhang, Gautam Sarath, Bingyu Zhao
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-11-589

Is human blood a good surrogate for brain tissue in transcriptional studies?
Cited by: 101
Author(s): Chaochao Cai, Peter Langfelder, Tova Fuller, Michael C. Oldham, Rui Luo, Leonard H van den Berg, Roel A. Ophoff, Steve Horvath
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-2164-10-327

Signed weighted gene co-expression network analysis of transcriptional regulation in murine embryonic stem cells
Cited by: 189
Author(s): Mike J. Mason, Guoping Fan, Kathrin Plath, Qing Zhou, Steve Horvath
Software Mentions: 1
Published: over 17 years ago

10.1007/s11306-017-1263-2

Estimation of metabolite networks with regard to a specific covariable: applications to plant and human data
Cited by: 9
Author(s): Georgios Bartzis, Joris Deelen, Júlio Maia, Wilco Ligterink, Henk W. M. Hilhorst, Jeanine J. Houwing-Duistermaat, Fred van Eeuwijk, Hae‐Won Uh
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-018-34149-5

Transcriptome Dynamics During Turbot Spermatogenesis Predicting the Potential Key Genes Regulating Male Germ Cell Proliferation and Maturation
Cited by: 15
Author(s): Xueying Wang, Qinghua Liu, Shihong Xu, Yongshuang Xiao, Yanfeng Wang, Chengcheng Feng, Rui Xue, Huihui Zhao, Zongcheng Song, Jun Li
Software Mentions: 1
Published: about 8 years ago

10.1007/s11306-019-1511-8

Metabolite and transcript profiling of Guinea grass (Panicum maximum Jacq) response to elevated [CO2] and temperature
Cited by: 21
Author(s): Jessica M. Wedow, Craig R. Yendrek, Tathyana Rachel Palo Mello, Silvana Creste, Carlos A. Martínez, Elizabeth A. Ainsworth
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-34839-0

Lung fibroblasts express a miR-19a-19b-20a sub-cluster to suppress TGF-β-associated fibroblast activation in murine pulmonary fibrosis
Cited by: 18
Author(s): Kunihiko Souma, Shigeyuki Shichino, Shinichi Hashimoto, Satoshi Ueha, Tohru Tsukui, T. Nakajima, Hiroshi Suzuki, Francis H.W. Shand, Yutaka Inagaki, Takahide Nagase, Kouji Matsushima
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-35315-5

An integrative transcriptome analysis indicates regulatory mRNA-miRNA networks for residual feed intake in Nelore cattle
Cited by: 30
Author(s): P. S. N. Oliveira, Luiz Lehmann Coutinho, P. C. Tizioto, Guilherme Bueno de Oliveira, Wellison J. S. Diniz, A. O. de Lima, James M. Reecy, Gérson Barreto Mourão, Adhemar Zerlotini, Luciana Correia de Almeida Regitano
Software Mentions: 1
Published: almost 8 years ago

10.1007/s11306-020-01733-8

Evaluation of the use of untargeted metabolomics in the safety assessment of genetically modified crops
Cited by: 17
Author(s): Mohamed Bedair, Kevin C. Glenn
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-018-35968-2

Extracellular vesicles produced in B cells deliver tumor suppressor miR-335 to breast cancer cells disrupting oncogenic programming in vitro and in vivo
Cited by: 14
Author(s): Gonzalo Almanza, Jeffrey J. Rodvold, Brian Tsui, Kristen Jepsen, Hannah Carter, Maurizio Zanetti
Software Mentions: 1
Published: almost 8 years ago

10.18632/aging.202713

LncRNA-mRNA co-expression analysis discovered the diagnostic and prognostic biomarkers and potential therapeutic agents for myocardial infarction
Cited by: 6
Author(s): Xiaocong Zhang, Ziqi Chen, Jiabin Zang, Chun Yao, Jian Shi, Ruqiong Nie, Guifu Wu
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-36703-7

Induction of Human T-cell and Cytokine Responses Following Vaccination with a Novel Influenza Vaccine
Cited by: 32
Author(s): David Skibinski, Leigh Ann Jones, Yuan Zhu, Lin Wu Xue, Bijin Au, Bernett Lee, Ahmad Nazri Mohamed Naim, Audrey Lee, Nivashini Kaliaperumal, Jenny G. Low, Lawrence S. Lee, Michael Poidinger, Philippe Saudan, Martin F. Bachmann, Eng Eong Ooi, Brendon J. Hanson, Veronica Novotny‐Diermayr, Alex Matter, Anna‐Marie Fairhurst, Martin L. Hibberd, John E. Connolly
Software Mentions: 1
Published: almost 8 years ago

10.18632/oncotarget.14739

A methodological study of genome-wide DNA methylation analyses using matched archival formalin-fixed paraffin embedded and fresh frozen breast tumors
Cited by: 8
Author(s): Allyson C. Espinal, Dan Wang, Li Yan, Song Liu, Li Tang, Qiang Hu, Carl Morrison, Christine B. Ambrosone, Michael J. Higgins, Lara E. Sucheston‐Campbell
Software Mentions: 1
Published: almost 10 years ago

10.1186/s12863-015-0311-z

Gene expression in large pedigrees: analytic approaches
Cited by: 5
Author(s): Rita M. Cantor, Heather J. Cordell
Software Mentions: 1
Published: over 10 years ago

10.3390/metabo10120511

The Metabolomics of Childhood Atopic Diseases: A Comprehensive Pathway-Specific Review
Cited by: 17
Author(s): M.S. Schjødt, Gözde Gürdeniz, Bo Chawes
Software Mentions: 1
Published: almost 6 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

10.3390/metabo9070145

Metabolomics Analytics Workflow for Epidemiological Research: Perspectives from the Consortium of Metabolomics Studies (COMETS)
Cited by: 27
Author(s): Mary C. Playdon, Amit D. Joshi, Fred K. Tabung, Susan Cheng, Mir Henglin, Andy Kim, Tengda Lin, Eline H. van Roekel, Jiaqi Huang, Jan Krumsiek, Ying Wang, Ewy A. Mathé, Marinella Temprosa, Steven C. Moore, Bo Chawes, A. Heather Eliassen, Andrea Gsur, Marc J. Gunter, Sei Harada, Claudia Langenberg, Matej Orešič, Wei Perng, Wei Jie Seow, Oana A. Zeleznik
Software Mentions: 1
Published: over 7 years ago

10.3390/metabo9080157

Bronchoalveolar Lavage Fluid from COPD Patients Reveals More Compounds Associated with Disease than Matched Plasma
Cited by: 27
Author(s): Eitan Halper-Stromberg, Lucas A. Gillenwater, Charmion Cruickshank‐Quinn, Wanda K. O’Neal, Nichole Reisdorph, Irina Petrache, Yonghua Zhuang, Wassim W. Labaki, Jeffrey L. Curtis, James M. Wells, Stephen I. Rennard, Katherine Pratte, Prescott G. Woodruff, Kathleen A. Stringer, Katerina Kechris, Russell P. Bowler
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-39236-9

WRINKLED1 transcription factor orchestrates the regulation of carbon partitioning for C18:1 (oleic acid) accumulation in Siberian apricot kernel
Cited by: 18
Author(s): Shuya Deng, Yiting Mai, Lanya Shui, Jun Niu
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-39463-0

Transcriptome analysis reveals the impact of arbuscular mycorrhizal symbiosis on Sesbania cannabina expose to high salinity
Cited by: 17
Author(s): Changliang Ren, Kong Chen, Yan Ke, Zhihong Xie
Software Mentions: 1
Published: over 7 years ago

10.3390/metabo11030161

Metabolomic Profiling Reveals Sex Specific Associations with Chronic Obstructive Pulmonary Disease and Emphysema
Cited by: 14
Author(s): Lucas A. Gillenwater, Katerina Kechris, Katherine Pratte, Nichole Reisdorph, Irina Petrache, Wassim W. Labaki, Wanda K. O’Neal, Jerry A. Krishnan, Victor E. Ortega, Dawn L. DeMeo, Russell P. Bowler
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

Projects: cran: WGCNA

Science Score: 85/100

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Papers Mentioning WGCNA 3,479