10.3389/fcell.2020.558961

Identification of Prognostic Model and Biomarkers for Cancer Stem Cell Characteristics in Glioblastoma by Network Analysis of Multi-Omics Data and Stemness Indices
Cited by: 27
Author(s): Jianyang Du, Xiuwei Yan, Shan Mi, Yuan Li, Hang Ji, Kezuo Hou, Shuai Ma, Yixu Ba, Peng Zhou, Lei Chen, Rui Xie, Shaoshan Hu
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmed.2018.00034

Beyond Enumeration: Functional and Computational Analysis of Circulating Tumor Cells to Investigate Cancer Metastasis
Cited by: 10
Author(s): Francesc Castro-Giner, Manuel C. Scheidmann, Nicola Aceto
Software Mentions: 4
Published: over 8 years ago

10.3389/fendo.2021.705154

Weighted Gene Co-Expression Network Analysis Identifies ANGPTL4 as a Key Regulator in Diabetic Cardiomyopathy via FAK/SIRT3/ROS Pathway in Cardiomyocyte
Cited by: 8
Author(s): Lei Dai, Yang Xie, Wenjun Zhang, Xiaodan Zhong, Mengwen Wang, Hongchen Jiang, Zhen He, Xiaolei Liu, Hesong Zeng, Hongjie Wang
Software Mentions: 4
Published: almost 5 years ago

10.3389/fgene.2021.661296

Combined Analysis of Volatile Terpenoid Metabolism and Transcriptome Reveals Transcription Factors Related to Terpene Synthase in Two Cultivars of Dendrobium officinale Flowers
Cited by: 20
Author(s): Ninghong Li, Yan Dong, Min Lv, Qian Li, Xinwei Sun, Liu Lin, Yongping Cai, Honghong Fan
Software Mentions: 4
Published: over 5 years ago

10.3389/fimmu.2021.636108

Impact of Tenascin-C on Radiotherapy in a Novel Syngeneic Oral Squamous Cell Carcinoma Model With Spontaneous Dissemination to the Lymph Nodes
Cited by: 5
Author(s): Caroline Spenlé, Thomas Loustau, Hélène Burckel, Gilles Riegel, Chérine Abou Faycal, Chengbei Li, Alev Yılmaz, Luciana Petti, Fanny Steinbach, Constance Ahowesso, Camille Jost, Nicodème Paul, Raphaël Carapito, Georges Noël, Fabienne Anjuère, Nathalie Salomé, Gertraud Orend
Software Mentions: 4
Published: about 5 years ago

10.3389/fcell.2021.710558

Construction and Validation of a Novel Immunosignature for Overall Survival in Uveal Melanoma
Cited by: 3
Author(s): Chufeng Gu, Xiaohong Gu, Yujie Wang, Zhixian Yao, Chuandi Zhou
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41398-019-0426-5

Alcohol-responsive genes identified in human iPSC-derived neural cultures
Cited by: 15
Author(s): Kevin P. Jensen, Richard Lieberman, Henry R. Kranzler, Joel Gelernter, Kaitlin Clinton, Jonathan Covault
Software Mentions: 4
Published: over 7 years ago

10.3389/fimmu.2021.716075

Transcriptome Analysis of Peripheral Blood Mononuclear Cells Reveals Distinct Immune Response in Asymptomatic and Re-Detectable Positive COVID-19 Patients
Cited by: 10
Author(s): Jiaqi Zhang, Dan Lin, Kui Li, Xiangming Ding, Lin Li, Yuntao Liu, Dongdong Liu, Jing Lin, Xiangyun Teng, Yizhe Li, Ming Liu, Jian Shen, Xiaodan Wang, He Dan, Yawei Shi, Dawei Wang, Jianhua Xu
Software Mentions: 4
Published: about 5 years ago

10.1128/mBio.02504-18

The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium
Cited by: 73
Author(s): Alexander J. Westermann, Elisa Venturini, Mikael E. Sellin, Konrad U. Förstner, Wolf‐Dietrich Hardt, Jörg Vogel
Software Mentions: 4
Published: over 7 years ago

10.3389/fgene.2020.00253

Integrated Analysis to Evaluate the Prognostic Value of Signature mRNAs in Glioblastoma Multiforme
Cited by: 11
Author(s): Jian Yang, Long Wang, Zhou Xu, Liquan Wu, Baohui Liu, Junmin Wang, Daofeng Tian, Xiaoxing Xiong, Qianxue Chen
Software Mentions: 4
Published: over 6 years ago

10.1038/s41398-020-01096-7

Gestational diabetes induces behavioral and brain gene transcription dysregulation in adult offspring
Cited by: 11
Author(s): Keren Aviel-Shekler, Yara Hamshawi, Worood Sirhan, Dmitriy Getselter, Kannan Srikanth, Assaf Malka, Ron Piran, Evan Elliott
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2019.00439

Whole-Exome Sequencing Identifies Somatic Mutations Associated With Mortality in Metastatic Clear Cell Kidney Carcinoma
Cited by: 17
Author(s): Alejandro Mendoza-Álvarez, Beatriz Guillén‐Guío, Adrian Baez‐Ortega, Carolina Hernandez-Perez, Sita Lakhwani-Lakhwani, María-del-Carmen Maeso, José M. Lorenzo-Salazar, Manuel Morales, Carlos Flores
Software Mentions: 4
Published: over 7 years ago

10.3390/toxins10080315

Variations of Bacterial Community Composition and Functions in an Estuary Reservoir during Spring and Summer Alternation
Cited by: 7
Author(s): Zheng Xu, Shu Harn Te, Cong Xu, Yiliang He, Karina Yew‐Hoong Gin
Software Mentions: 4
Published: about 8 years ago

10.3389/fimmu.2020.01228

Targeting Nuclear LSD1 to Reprogram Cancer Cells and Reinvigorate Exhausted T Cells via a Novel LSD1-EOMES Switch
Cited by: 30
Author(s): Wen Juan Tu, Robert McCuaig, Abel Tan, Kristine Hardy, Nabila Seddiki, Sayed Ali, Jane E. Dahlstrom, Elaine Bean, Jenny C. Dunn, Jade K. Forwood, S. Tsimbalyuk, Kate Smith, Desmond Yip, Laeeq Malik, Thiru Prasanna, Peter J. Milburn, Sudha Rao
Software Mentions: 4
Published: about 6 years ago

10.3389/fgene.2021.680413

Identification of a Prognostic Signature for Ovarian Cancer Based on the Microenvironment Genes
Cited by: 9
Author(s): Xiao Huo, Hengzi Sun, Shuangwu Liu, Bing Liang, Huimin Bai, Shuzhen Wang, Shuhong Li
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2021.695699

Integrated Analysis of mRNA- and miRNA-Seq in the Ovary of Rare Minnow Gobiocypris rarus in Response to 17α-Methyltestosterone
Cited by: 3
Author(s): Shaozhen Liu, Qiong Yang, Yue Chen, Qing Liu, Weiwei Wang, Jing Song, Yao Zheng, Wenzhong Liu
Software Mentions: 4
Published: about 5 years ago

10.1128/mBio.00588-21

An Infection-Tolerant Mammalian Reservoir for Several Zoonotic Agents Broadly Counters the Inflammatory Effects of Endotoxin
Cited by: 6
Author(s): Gabriela Balderrama-Gutierrez, Ana Milovic, Vanessa J. Cook, M. Nurul Islam, Youwen Zhang, Hippokratis Kiaris, John T. Belisle, A Mortazavi, Alan G. Barbour
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-74391-4

Analysis of gene expression from systemic lupus erythematosus synovium reveals myeloid cell-driven pathogenesis of lupus arthritis
Cited by: 9
Author(s): Erika L. Hubbard, Michelle D. Catalina, Sarah Heuer, Prathyusha Bachali, Robert Robl, Nicholas S. Geraci, Amrie C. Grammer, Peter E. Lipsky
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-021-86504-8

Identification and external validation of a prognostic signature associated with DNA repair genes in gastric cancer
Cited by: 5
Author(s): Shimin Chen, Wenbo Liu, Haojun Yu
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-37284-1

A gene expression signature in developing Purkinje cells predicts autism and intellectual disability co-morbidity status
Cited by: 12
Author(s): Harry Clifford, Anna Dulneva, Chris P. Ponting, Wilfried Haerty, Esther B. E. Becker
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-021-89364-4

Diversification of the Balloon bushcrickets (Orthoptera, Hexacentrinae, Aerotegmina) in the East African mountains
Cited by: 3
Author(s): Beata Grzywacz, Elżbieta Warchałowska‐Śliwa, Maciej Kociński, Klaus‐Gerhard Heller, Claudia Hemp
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2021.735103

Editorial: Computational Tools in Inferring Cancer Tissue-of-Origin and Molecular Classification Towards Personalized Cancer Therapy, Volume II
Cited by: 0
Author(s): Ling Kui, Wenzhe Mao, Aasim Majeed, Jian Chen
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-021-90250-2

Proteomic analysis-based discovery of a novel biomarker that differentiates intestinal Behçet’s disease from Crohn’s disease
Cited by: 4
Author(s): Jihye Park, Da-Eun Jeong, Youn Wook Chung, Seunghan Han, Da Hye Kim, Jongwook Yu, Jae Hee Cheon, Ji Hwan Ryu
Software Mentions: 4
Published: about 5 years ago

10.3389/fgene.2021.630215

Comparing Statistical Tests for Differential Network Analysis of Gene Modules
Cited by: 2
Author(s): Jaron Arbet, Yaxu Zhuang, Elizabeth Litkowski, Laura Saba, Katerina Kechris
Software Mentions: 4
Published: about 5 years ago

10.3389/fmicb.2018.01290

Synchrony of Eukaryotic and Prokaryotic Planktonic Communities in Three Seasonally Sampled Austrian Lakes
Cited by: 23
Author(s): Christina Böck, Michaela M. Salcher, Manfred Jensen, Ram Vinay Pandey, Jens Boenigk
Software Mentions: 4
Published: about 8 years ago

10.1038/s41598-020-64623-y

Comparative analysis of MACROD1, MACROD2 and TARG1 expression, localisation and interactome
Cited by: 20
Author(s): Roko Žaja, Gülcan Aydin, Barbara E. Lippok, Regina Feederle, Bernhard Lüscher, Karla L. H. Feijs
Software Mentions: 4
Published: about 6 years ago

10.3389/fgene.2019.01214

Weighted Gene Co-Expression Network Analysis Identifies Critical Genes in the Development of Heart Failure After Acute Myocardial Infarction
Cited by: 59
Author(s): Xiaowei Niu, Jingjing Zhang, Lanlan Zhang, Yufei Hou, Shuangshuang Pu, Ai-Ai Chu, Ming Bai, Zheng Zhang
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2020.01707

Synergic Effects of Temperature and Irradiance on the Physiology of the Marine Synechococcus Strain WH7803
Cited by: 16
Author(s): Ulysse Guyet, Ngoc-An Nguyen, Hugo Doré, Julie Haguait, Justine Pittera, Maël Conan, Morgane Ratin, Erwan Corre, Gildas Le Corguillé, Loraine Brillet-Guéguen, Mark Hoebeke, Christophe Six, Claudia Steglich, Anne Siegel, Damien Eveillard, Frédéric Partensky, Laurence Garczarek
Software Mentions: 4
Published: about 6 years ago

10.3389/fgene.2020.591079

Identifying M1 Macrophage-Related Genes Through a Co-expression Network to Construct a Four-Gene Risk-Scoring Model for Predicting Thyroid Cancer Prognosis
Cited by: 14
Author(s): Gaojian Zhuang, Yu Zeng, Qun Tang, Qian He, Guoqing Luo
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2019.00903

SCDevDB: A Database for Insights Into Single-Cell Gene Expression Profiles During Human Developmental Processes
Cited by: 12
Author(s): Zishuai Wang, Xikang Feng, Shuai Cheng Li
Software Mentions: 3
Published: almost 7 years ago

10.3389/fgene.2018.00453

Weighted Gene Co-expression Network Analysis of Endometriosis and Identification of Functional Modules Associated With Its Main Hallmarks
Cited by: 58
Author(s): Mohammad Reza Bakhtiarizadeh, Batool Hosseinpour, Maryam Shahhoseini, Arthur Korte, Peyman Gifani
Software Mentions: 3
Published: almost 8 years ago

10.1038/s41598-020-72477-7

Play fighting social networks do not predict injuries from later aggression
Cited by: 12
Author(s): Simon P. Turner, Jennifer E. Weller, Irene Camerlink, Gareth Arnott, Taegyu Choi, Andrea Doeschl‐Wilson, Marianne Farish, Simone Foister
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-73847-x

Differentiating Staphylococcus infection-associated glomerulonephritis and primary IgA nephropathy: a mass spectrometry-based exploratory study
Cited by: 9
Author(s): Anjali A. Satoskar, John P. Shapiro, Mikayla Jones, Cherri Bott, Samir Parikh, Sergey V. Brodsky, Lianbo Yu, Haikady N. Nagaraja, Daniel W. Wilkey, Michael L. Merchant, Jon B. Klein, Tibor Nádasdy, Brad H. Rovin
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-74877-1

Low E2F2 activity is associated with high genomic instability and PARPi resistance
Cited by: 4
Author(s): Jonathan Rennhack, Eran R. Andrechek
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-76474-8

Gut microbiota and metabolic health among overweight and obese individuals
Cited by: 60
Author(s): Mi‐Hyun Kim, Kyung Eun Yun, Jimin Kim, Eunkyo Park, Yoosoo Chang, Seungho Ryu, Hyung Lae Kim, Han Na Kim
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-76139-6

Multi-level analysis of reproduction in an Antarctic midge identifies female and male accessory gland products that are altered by larval stress and impact progeny viability
Cited by: 16
Author(s): Geoffrey Finch, Sonya Nandyal, Carlie Perretta, Benjamin Davies, Andrew J. Rosendale, Christopher J. Holmes, J. D. Gantz, Drew E. Spacht, Samuel T. Bailey, Marc E. Rothenberg, Kennan Oyen, Elise M. Didion, Souvik Chakraborty, Richard Lee, David L. Denlinger, Stephen F. Matter, Geoffrey M. Attardo, Matthew T. Weirauch, Joshua B. Benoit
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2021.696591

Identification of Atrial Fibrillation-Associated Genes ERBB2 and MYPN Using Genome-Wide Association and Transcriptome Expression Profile Data on Left–Right Atrial Appendages
Cited by: 3
Author(s): Xiangkun Meng, Yali Nie, Keke Wang, Chongxi Fan, Juntao Zhao, Yuan Yang
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2021.620740

Differentially Expressed Genes and Enriched Signaling Pathways in the Adipose Tissue of Obese People
Cited by: 5
Author(s): Zhenhua Lu, Ling‐Bing Meng, Zhen Sun, Xiaolei Shi, Weiwei Shao, Yangyang Zheng, Xinglei Yao, Jianguo Song
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-021-82169-5

Transcriptome-wide Mendelian randomization study prioritising novel tissue-dependent genes for glioma susceptibility
Cited by: 6
Author(s): Jamie Robinson, Richard M. Martin, Spiridon Tsavachidis, Amy Howell, Caroline L Relton, Georgina Armstrong, Melissa L. Bondy, Jie Zheng, Kathreena M. Kurian
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-84080-5

Persistent COUP-TFII expression underlies the myopathy and impaired muscle regeneration observed in resistance to thyroid hormone-alpha
Cited by: 1
Author(s): Paola Aguiari, Yanyun Liu, Astgik Petrosyan, Sheue-yann Cheng, Gregory A. Brent, Laura Perin, Anna Milanesi
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-84887-2

Slc1a3-2A-CreERT2 mice reveal unique features of Bergmann glia and augment a growing collection of Cre drivers and effectors in the 129S4 genetic background
Cited by: 9
Author(s): Lech Kaczmarczyk, Nicole Reichenbach, Nelli Blank, Maria Jonson, Lars Dittrich, Gabor C. Petzold, Walker S. Jackson
Software Mentions: 3
Published: over 5 years ago

10.3389/fcell.2020.620164

Analysis of Cyclin-Dependent Kinase 1 as an Independent Prognostic Factor for Gastric Cancer Based on Statistical Methods
Cited by: 7
Author(s): Xu Zhang, Hua Ma, Quan Zou, Jin Wu
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-96635-7

Multi-layered proteogenomic analysis unravels cancer metastasis directed by MMP-2 and focal adhesion kinase signaling
Cited by: 11
Author(s): Yumi Kwon, Seongjun Park, Binh Thanh Nguyen, Mi Jeong Kim, Sejin Oh, Hwanho Lee, Narae Park, Hyun‐Seok Kim, Min‐Jung Kang, Byung Soh Min, Jinwon Lee, Eun Gyeong Yang, Cheolju Lee
Software Mentions: 3
Published: almost 5 years ago

10.3389/fgene.2020.610350

Construction of an RNA-Binding Protein-Related Prognostic Model for Pancreatic Adenocarcinoma Based on TCGA and GTEx Databases
Cited by: 14
Author(s): Xin Wen, Zhaogang Shao, Shuyi Chen, Wei Wang, Yan Wang, Jeng Kai Jiang, Qinggong Ma, Longzhen Zhang
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.00970

Hub Genes Identification in a Murine Model of Allergic Rhinitis Based on Bioinformatics Analysis
Cited by: 5
Author(s): Chen Le, Le Shi, Yue Ma, Cheng Zheng
Software Mentions: 3
Published: almost 6 years ago

10.3389/fgene.2021.616388

Transcriptome Characterization of Short Distance Transport Stress in Beef Cattle Blood
Cited by: 14
Author(s): Hailin Zhao, Xiaoqin Tang, Mingli Wu, Qi Li, Xiaohua Yi, Shirong Liu, Junyi Jiang, Shuhui Wang, Xiuzhu Sun
Software Mentions: 3
Published: over 5 years ago

10.3389/fimmu.2020.01481

Pediatric Burn Survivors Have Long-Term Immune Dysfunction With Diminished Vaccine Response
Cited by: 8
Author(s): Blair Z. Johnson, Sonia McAlister, Helen M. McGuire, Vetrichevvel Thirthar Palanivelu, Andrew Stevenson, Peter Richmond, Debra J. Palmer, Jessica Metcalfe, Susan L. Prescott, Fiona Wood, Barbara Fazekas de St Groth, Matthew D. Linden, Mark W. Fear, Vanessa S. Fear
Software Mentions: 3
Published: about 6 years ago

10.3389/fimmu.2019.00869

Immunomodulatory Effects and Induction of Apoptosis by Different Molecular Weight Chitosan Oligosaccharides in Head Kidney Macrophages From Blunt Snout Bream (Megalobrama amblycephala)
Cited by: 17
Author(s): Changcai Wu, Yishan Dai, Gailing Yuan, Jian Su, Xiaoling Liu
Software Mentions: 3
Published: over 7 years ago

10.3389/fimmu.2020.604785

JNK1 Signaling Downstream of the EGFR Pathway Contributes to Aldara®-Induced Skin Inflammation
Cited by: 3
Author(s): Aurore Le, Abdulkader Azouz, Séverine Thomas, Nicolas Istaces, Muriel Nguyen, Stanislas Goriely
Software Mentions: 3
Published: over 5 years ago

10.3389/fendo.2020.571151

Microarray Data of Lacrimal Gland Implicates Dysregulated Protein Processing in Endoplasmic Reticulum in Graves’ Ophthalmopathy
Cited by: 1
Author(s): Wenling Tu, Jia Yao, Zhanjun Mei, Xue Jiang, Yu-Hong Shi
Software Mentions: 3
Published: over 5 years ago

10.3389/fimmu.2021.666370

lncRNA-HEIM Facilitated Liver Fibrosis by Up-Regulating TGF-β Expression in Long-Term Outcome of Chronic Hepatitis B
Cited by: 9
Author(s): Jian Yao, Changpo Lin, Jingjing Jiang, Xujun Zhang, Fengxia Li, Tianxing Liu, Hongyan Diao
Software Mentions: 3
Published: about 5 years ago

10.1039/c7tx00047b

Systems toxicology meta-analysis of in vitro assessment studies: biological impact of a candidate modified-risk tobacco product aerosol compared with cigarette smoke on human organotypic cultures of the aerodigestive tract
Cited by: 22
Author(s): Anita Iskandar, Bjoern Titz, Alain Sewer, Patrice Leroy, Thomas Schneider, Filippo Zanetti, Carole Mathis, Ashraf Elamin, Stefan Frentzel, Walter K. Schlage, Florian Martin, Nikolai V. Ivanov, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 3
Published: over 9 years ago

10.3389/fendo.2020.00138

Developmentally Driven Changes in Adipogenesis in Different Fat Depots Are Related to Obesity
Cited by: 10
Author(s): Jana Breitfeld, Stephanie Kehr, Luise Müller, Peter F. Stadler, Yvonne Böttcher, Matthias Blüher, Michael Stümvoll, Peter Kovacs
Software Mentions: 3
Published: over 6 years ago

10.1038/s41398-017-0054-x

Cerebral organoids reveal early cortical maldevelopment in schizophrenia—computational anatomy and genomics, role of FGFR1
Cited by: 123
Author(s): Ewa K. Stachowiak, Courtney A. Benson, Sridhar T. Narla, Alexander Dimitri, L. E. Bayona Chuye, Siddhartha Dhiman, K. Harikrishnan, Seerat Elahi, David A. Freedman, Kristen J. Brennand, Pinaki Sarder, Michal K. Stachowiak
Software Mentions: 3
Published: almost 9 years ago

10.1038/s41398-020-0772-3

Gene expression changes associated with trajectories of psychopathology in a longitudinal cohort of children and adolescents
Cited by: 3
Author(s): Vanessa Kiyomi Ota, Marcos Santoro, Letícia Spíndola, Pedro Mário Pan, Andressa Simabucuro, Gabriela Xavier, Tamiris Vieira-Fonseca, Évelin Aline Zanardo, Felipe R. C. dos Santos, Julia Schäfer, Leslie Domenici Kulikowski, Pedro A. F. Galante, Paula Fontes Asprino, Elisa Brietzke, Rodrigo Grassi‐Oliveira, Luís Augusto Rohde, Eurı́pedes Constantino Miguel, Ary Gadelha, Jair J. Mari, Rodrigo Affonseca Bressan, Giovanni Abrahão Salum, Sintia Belangero
Software Mentions: 3
Published: over 6 years ago

10.1038/s41398-021-01421-8

Transcriptomics identifies STAT3 as a key regulator of hippocampal gene expression and anhedonia during withdrawal from chronic alcohol exposure
Cited by: 13
Author(s): Wei-Yang Chen, Changwei Hu, Kana Hamada, Eleonora Gatta, Ying Chen, Huaibo Zhang, Jenny Drnevich, Harish R. Krishnan, Mark Maienschein‐Cline, Dennis R. Grayson, Subhash C. Pandey, Amy W. Lasek
Software Mentions: 3
Published: about 5 years ago

10.1128/mBio.00454-19

Metabolic Model of the <i>Phytophthora infestans</i> -Tomato Interaction Reveals Metabolic Switches during Host Colonization
Cited by: 19
Author(s): Sander Y.A. Rodenburg, Michael Seidl, Howard S. Judelson, A. L. Vu, F. Govers, Dick de Ridder
Software Mentions: 3
Published: almost 7 years ago

10.3389/fgene.2019.00036

Integrative Analysis of Transcriptome and GWAS Data to Identify the Hub Genes Associated With Milk Yield Trait in Buffalo
Cited by: 45
Author(s): Tingxian Deng, Aixin Liang, Shasha Liang, Xiaoya Ma, Xingrong Lu, Anqin Duan, Chaoyou Pang, Guohua Hua, Shenhe Liu, Giuseppe Campanile, Angela Salzano, B. Gasparrini, Xianwei Liang, Liguo Yang
Software Mentions: 3
Published: over 7 years ago

10.3389/fimmu.2020.02039

Crosstalk Between the MSI Status and Tumor Microenvironment in Colorectal Cancer
Cited by: 160
Author(s): Anqi Lin, Jian Zhang, Peng Luo
Software Mentions: 3
Published: about 6 years ago

10.3389/fgene.2020.558725

Transcriptome Analysis of the Cerebellum of Mice Fed a Manganese-Deficient Diet
Cited by: 3
Author(s): Young Ah Seo, Eun‐Kyung Choi, Luisa Aring, Molly Paschall, Shigeki Iwase
Software Mentions: 3
Published: over 5 years ago

10.3389/fmed.2020.606461

Gene Co-expression Networks Identifies Common Hub Genes Between Cutaneous Sarcoidosis and Discoid Lupus Erythematosus
Cited by: 3
Author(s): Melissa A Nickles, Huang Kai, Yi-Shin Chang, Maria M. Tsoukas, Nadera J. Sweiss, David L. Perkins, Patricia W. Finn
Software Mentions: 3
Published: over 5 years ago

10.3389/fcell.2021.702112

Characterizing the Metabolic and Immune Landscape of Non-small Cell Lung Cancer Reveals Prognostic Biomarkers Through Omics Data Integration
Cited by: 5
Author(s): Fengjiao Wang, Yuanfu Zhang, Yangyang Hao, Xuexin Li, Yue Qi, Mengyu Xin, Qifan Xiao, Peng Wang
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2021.690264

Comparative Transcriptome and Weighted Gene Co-expression Network Analysis Identify Key Transcription Factors of Rosa chinensis ‘Old Blush’ After Exposure to a Gradual Drought Stress Followed by Recovery
Cited by: 7
Author(s): Xin Jia, Hui Feng, Yingjie Bu, Naizhe Ji, Yingmin Lyu, Shiwei Zhao
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-43587-8

Predicting the decision making chemicals used for bacterial growth
Cited by: 14
Author(s): Kazuha Ashino, Kenta Sugano, Toshiyuki Amagasa, Bei‐Wen Ying
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-019-50148-6

Gene co-expression network analysis reveals key potential gene modules in utero-vaginal junction associated with duration of fertility trait of breeder hens
Cited by: 1
Author(s): Lantao Gu, Ruoxi Jing, Yanzhang Gong, Mei Yu, Abdelmotaleb A. Elokil, Shijun Li
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-019-51627-6

Multi-tissue network analysis for drug prioritization in knee osteoarthritis
Cited by: 11
Author(s): Michael Neidlin, Smaragda Dimitrakopoulou, Leonidas G. Alexopoulos
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0177819

Network architecture associated with the highly specialized hindlimb of frogs
Cited by: 17
Author(s): Daniel Andrés Dos Santos, Jéssica Fratani, María Laura Ponssa, Virginia Abdala
Software Mentions: 3
Published: over 9 years ago

10.1098/rsos.190958

Low connectivity between shallow, mesophotic and rariphotic zone benthos
Cited by: 18
Author(s): Paris V. Stefanoudis, Molly Rivers, Struan R. Smith, Craig W. Schneider, Daniel Wagner, Helen Ford, Alex D. Rogers, Lucy C. Woodall
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.ppat.1004869

Host Transcriptional Response to Influenza and Other Acute Respiratory Viral Infections – A Prospective Cohort Study
Cited by: 108
Author(s): Yijie Zhai, Luis M. Franco, Robert L. Atmar, John Quarles, Nancy H. Arden, Kristine L. Bucasas, Janet Wells, Diane Niño, Xueqing Wang, Gladys Zapata, Chad A. Shaw, John W. Belmont, Robert B. Couch
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.ppat.1007950

Equine arteritis virus long-term persistence is orchestrated by CD8+ T lymphocyte transcription factors, inhibitory receptors, and the CXCL16/CXCR6 axis
Cited by: 19
Author(s): Mariano Carossino, Pouya Dini, Theodore S. Kalbfleisch, Alan T. Loynachan, Igor F. Canisso, R. Frank Cook, Peter J. Timoney, Udeni B. R. Balasuriya
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0224477

Are we ready for scaling up restoration actions? An insight from Mediterranean macroalgal canopies
Cited by: 21
Author(s): Laura Tamburello, Loredana Papa, Giuseppe Guarnieri, Laura Basconi, Serena Zampardi, Maria Beatrice Scipione, Antonio Terlizzi, Valerio Zupo, Simonetta Fraschetti
Software Mentions: 3
Published: almost 7 years ago

10.1016/j.molcel.2018.01.034

NADH Shuttling Couples Cytosolic Reductive Carboxylation of Glutamine with Glycolysis in Cells with Mitochondrial Dysfunction
Cited by: 157
Author(s): Edoardo Gaude, Christina Schmidt, Payam A. Gammage, Aurélien Dugourd, Thomas S. Blacker, Sew Peak Chew, Julio Sáez-Rodríguez, John S. O’Neill, György Szabadkai, Michal Minczuk, Christian Frezza
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0037108

Extensive Gene-Specific Translational Reprogramming in a Model of B Cell Differentiation and Abl-Dependent Transformation
Cited by: 10
Author(s): Jamie Bates, Julia Salzman, Damon May, Patty B. Garcia, Gregory J. Hogan, Martin W. McIntosh, Mark S. Schlissel, Pat Brown
Software Mentions: 3
Published: about 14 years ago

10.1371/journal.pone.0203275

Genetic diversity and biogeography of T. officinale inferred from multi locus sequence typing approach
Cited by: 3
Author(s): Mahdi Jafari, Waheed Akram, Yanju Pang, Aqeel Ahmad, Shakeel Ahmed, Nasim Ahmad Yasin, Tehmina Anjum, Basharat Ali, Xiangdong Hu, Xiaohua Li, Shuang-Lin Dong, Qian Cai, Matteo Ciprian, Monika Bielec, Sheng Hu, Fatemeh Sefidkon, Xuebo Hu
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0217105

Identification of key modules and hub genes for small-cell lung carcinoma and large-cell neuroendocrine lung carcinoma by weighted gene co-expression network analysis of clinical tissue-proteomes
Cited by: 21
Author(s): Hiroki Nakamura, Kiyonaga Fujii, Vipul Gupta, Hiroko Hata, Hirotaka Koizumu, Masahiro Hoshikawa, Saeko Naruki, Yuka Miyata, Ikuya Takahashi, Tomoki Miyazawa, Hiroki Sakai, Kouhei Tsumoto, Masayuki Takagi, Hisashi Saji, Toshihide Nishimura
Software Mentions: 3
Published: about 7 years ago

10.1186/1476-4598-9-74

Gene expression in nontumoral liver tissue and recurrence-free survival in hepatitis C virus-positive hepatocellular carcinoma
Cited by: 69
Author(s): Mai Tsuchiya, Joel S. Parker, Hiroshi Kono, Masanori Matsuda, Hideki Fujii, Ivan Rusyn
Software Mentions: 3
Published: over 16 years ago

10.1186/s12888-020-02499-y

Dysregulation of amino acids and lipids metabolism in schizophrenia with violence
Cited by: 19
Author(s): Xiacan Chen, Jiajun Xu, Jing Tang, Xinhua Dai, Haolan Huang, Ruochen Cao, Junmei Hu
Software Mentions: 3
Published: over 6 years ago

10.1186/1476-4598-13-27

RNAi-mediated silencing of MLL-AF9 reveals leukemia-associated downstream targets and processes
Cited by: 29
Author(s): Katrin K. Fleischmann, Philipp Pagel, Irene Schmid, Adelbert A. Roscher
Software Mentions: 3
Published: over 12 years ago

10.1186/1476-4598-11-41

Gene expression changes as markers of early lapatinib response in a panel of breast cancer cell lines
Cited by: 23
Author(s): Fiona O’Neill, Stephen F. Madden, Sinéad Aherne, Martin Clynes, John Crown, Padraig Doolan, Robert O’Connor
Software Mentions: 3
Published: about 14 years ago

10.1186/s12919-021-00223-6

Proceedings of ‘FETP-ICON 2020’ Conference
Cited by: 0
Author(s):
Software Mentions: 3
Published: about 5 years ago

10.1093/molbev/msaa002

Disrupted Gene Networks in Subfertile Hybrid House Mice
Cited by: 20
Author(s): Katy Morgan, Bettina Harr, Michael A. White, Bret A. Payseur, Leslie M. Turner
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0208400

Using a coupled dynamic factor – random forest analysis (DFRFA) to reveal drivers of spatiotemporal heterogeneity in the semi-arid regions of southern Africa
Cited by: 4
Author(s): Jane Southworth, Erin Bunting, Likai Zhu, Sadie J. Ryan, Hannah Victoria Herrero, Peter R. Waylen, Rafael Muñoz‐Carpena, Miguel Ángel Campo‐Bescós, D. A. Kaplan
Software Mentions: 3
Published: over 7 years ago

10.3390/microorganisms8101579

The Core and Distinction of the Gut Microbiota in Chinese Populations across Geography and Ethnicity
Cited by: 16
Author(s): Dong‐Tsamn Lin, Ran Wang, Junjie Luo, Fazheng Ren, Zhenglong Gu, Yiqiang Zhao, Liang Zhao
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12885-021-08687-7

A novel survival model based on a Ferroptosis-related gene signature for predicting overall survival in bladder cancer
Cited by: 22
Author(s): Yingchun Liang, Fangdie Ye, Chenyang Xu, Lina Zou, Yun Hu, Jimeng Hu, Haowen Jiang
Software Mentions: 3
Published: almost 5 years ago

10.1111/jcmm.13997

ce-Subpathway: Identification of ceRNA-mediated subpathways via joint power of ceRNAs and pathway topologies
Cited by: 9
Author(s): Chenchen Feng, Chao Song, Ziyu Ning, Bo Ai, Qiuyu Wang, Yong Xu, Meng Li, Xuefeng Bai, Jian Zhao, Yuejuan Liu, Xuecang Li, Jian Zhang, Chunquan Li
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0231771

Phytoplankton transcriptomic and physiological responses to fixed nitrogen in the California current system
Cited by: 3
Author(s): Irina N. Shilova, Jonathan D. Magasin, Matthew M. Mills, Julie Robidart, Kendra A. Turk‐Kubo, Jonathan P. Zehr
Software Mentions: 3
Published: over 6 years ago

10.1111/jcmm.15193

To construct a ceRNA regulatory network as prognostic biomarkers for bladder cancer
Cited by: 45
Author(s): Jiazhi Jiang, Yaqiong Bi, Xiaoping Li, Donghu Yu, Xin Yan, Jie Yao, Tongzu Liu, Li Sheng
Software Mentions: 3
Published: over 6 years ago

10.7150/jca.51591

Increased Expression of <i>KNSTRN</i> in Lung Adenocarcinoma Predicts Poor Prognosis: A Bioinformatics Analysis Based on TCGA Data
Cited by: 11
Author(s): Pengbo Deng, Rongrong Zhou, Jinghui Zhang, Liming Cao
Software Mentions: 3
Published: over 5 years ago

10.1099/mgen.0.000184

SuperDCA for genome-wide epistasis analysis
Cited by: 21
Author(s): Santeri Puranen, Maiju Pesonen, Johan Pensar, Ying Xu, John A. Lees, Stephen D. Bentley, Nicholas J. Croucher, Jukka Corander
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0249593

Identifying geographically differentiated features of Ethopian Nile tilapia (Oreochromis niloticus) morphology with machine learning
Cited by: 3
Author(s): Wilfried Wöber, Manuel Curto, Papius Dias Tibihika, Paul Meulenbroek, Esayas Alemayehu, Lars Mehnen, Harald Meimberg, Peter Sykacek
Software Mentions: 3
Published: over 5 years ago

10.7150/jca.52170

Five-gene signature associating with Gleason score serve as novel biomarkers for identifying early recurring events and contributing to early diagnosis for Prostate Adenocarcinoma
Cited by: 10
Author(s): Lingyu Zhang, Li Yu, Xuchu Wang, Ying Ping, Danhua Wang, Ying Cao, Yibei Dai, Weiwei Liu, Zhihua Tao
Software Mentions: 3
Published: over 5 years ago

10.1016/j.jbc.2021.100285

Decreases in different Dnmt3b activities drive distinct development of hematologic malignancies in mice
Cited by: 4
Author(s): Katarína Lopušná, Paweł Nowialis, Jana Opavska, Ajay Abraham, Alberto Riva, Staci L. Haney, René Opavský
Software Mentions: 3
Published: over 5 years ago

10.1186/s12934-021-01509-2

Engineering Escherichia coli for the utilization of ethylene glycol
Cited by: 11
Author(s): Aditya Vikram Pandit, Emma Harrison, Radhakrishnan Mahadevan
Software Mentions: 3
Published: over 5 years ago

10.1172/jci.insight.145928

Chronic HIV infection induces transcriptional and functional reprogramming of innate immune cells
Cited by: 29
Author(s): Wouter A van der Heijden, Lisa Van de Wijer, Farid Keramati, Wim Trypsteen, Sofie Rutsaert, Rob ter Horst, Martin Jaeger, Hans J. P. M. Koenen, Hendrik G. Stunnenberg, Irma Joosten, Paul E. Verweij, Jan van Lunzen, Charles A. Dinarello, Linos Vandekerckhove, Mihai G. Netea, A.J.A.M. van der Ven, Quirijn de Mast
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0257254

Knocking out TMEM38B in human foetal osteoblasts hFOB 1.19 by CRISPR/Cas9: A model for recessive OI type XIV
Cited by: 4
Author(s): Laura Leoni, Francesca Tonelli, Roberta Besio, Roberta Gioia, Francesco Moccia, Antonio Rossi, Antonella Forlino
Software Mentions: 3
Published: almost 5 years ago

10.1172/jci.insight.97011

Peripheral tissues reprogram CD8+ T cells for pathogenicity during graft-versus-host disease
Cited by: 19
Author(s): Pedro M. Sousa, Séverine Cire, Thomas Conlan, Laura Jardine, Claire Tkacz, Ivana R. Ferrer, C Lomas, Sophie Ward, Heather C. West, Simone Dertschnig, Sven Blobner, Terry K. Means, Stephen Henderson, Daniel H. Kaplan, Matthew Collin, Vincent Plagnol, Clare Bennett, Ronjon Chakraverty
Software Mentions: 3
Published: over 8 years ago

10.1186/s41065-019-0096-6

Identification of five hub genes as monitoring biomarkers for breast cancer metastasis in silico
Cited by: 45
Author(s): Yun Cai, Jie Mei, Zhuang Xiao, Bujie Xu, Xiaozheng Jiang, Yongjie Zhang, Yichao Zhu
Software Mentions: 3
Published: about 7 years ago

10.1186/s41065-021-00183-z

RTP4 is a novel prognosis-related hub gene in cutaneous melanoma
Cited by: 7
Author(s): Yiqi Li, Jue Qi, Jiankang Yang
Software Mentions: 3
Published: about 5 years ago

10.1038/s41438-020-0249-9

Application of an antibody chip for screening differentially expressed proteins during peach ripening and identification of a metabolon in the SAM cycle to generate a peach ethylene biosynthesis model
Cited by: 10
Author(s): Wenfang Zeng, Liang Niu, Zhaohui Wang, Xiaobei Wang, Yan Wang, Lei Pan, Zhenhua Lü, Guochao Cui, Weining Weng, Mingqiao Wang, Xianghong Meng, Zhiqiang Wang
Software Mentions: 3
Published: over 6 years ago

10.1136/gutjnl-2019-320430

Western-type diet influences mortality from necrotising pancreatitis and demonstrates a central role for butyrate
Cited by: 57
Author(s): Fons F van den Berg, Demi van Dalen, Sanjiv Hyoju, Hjalmar C. van Santvoort, Marc G. Besselink, W. Joost Wiersinga, Olga Zaborina, Marja A. Boermeester, John C. Alverdy
Software Mentions: 3
Published: almost 6 years ago