bioconductor: limma | Projects | Ecosyste.ms: Papers

10.1186/s12864-020-06789-3

Distinctions between sex and time in patterns of DNA methylation across puberty
Cited by: 11
Author(s): Sarah R. Moore, Kathryn L. Humphreys, Natalie L. Colich, Elena Goetz Davis, David Lin, Julia L. MacIsaac, Michæl S. Kobor, Ian H. Gotlib
Software Mentions: 4
Published: over 6 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: over 5 years ago

10.1038/s41598-021-89741-z

Differential features of chronic cough according to etiology and the simple decision tree for predicting causes
Cited by: 2
Author(s): Hyeon Kyoung Koo, Woo Kyung Bae, Joon-Shik Moon, Hyun Lee, Jin Woo Kim, Seung Hun Jang, Hyoung Kyu Yoon, Deog Kyeom Kim
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-016-2952-3

Global transcriptional analysis suggests Lasiodiplodia theobromae pathogenicity factors involved in modulation of grapevine defensive response
Cited by: 46
Author(s): Marcos Paolinelli, José Manuel Villalobos-Escobedo, Philippe E. Rolshausen, Alfredo Herrera-Estrella, Clara E. Galindo-Sánchez, José Fabricio López-Hernández, Rufina Hernández-Martínez
Software Mentions: 4
Published: about 10 years ago

10.1186/1471-2164-13-296

ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data
Cited by: 167
Author(s): James R. Perkins, J. D. K. Dawes, Stephen B. McMahon, David L.H. Bennett, Christine A. Orengo, Matthias Kohl
Software Mentions: 4
Published: over 14 years ago

10.1186/s12864-017-4086-7

The transcription factor Maf-S regulates metabolic resistance to insecticides in the malaria vector Anopheles gambiae
Cited by: 59
Author(s): Victoria A. Ingham, Patricia Pignatelli, Jonathan D. Moore, Simon C. Wagstaff, Hilary Ranson
Software Mentions: 4
Published: about 9 years ago

10.1186/s12864-016-2403-1

RNA sequencing-based analysis of the spleen transcriptome following infectious bronchitis virus infection of chickens selected for different mannose-binding lectin serum concentrations
Cited by: 20
Author(s): Edin Hamzić, Rikke Brødsgaard Kjærup, Núria Mach, Guilietta Minozzi, Francesco Strozzi, V. Gualdi, J. L. Williams, Jun Chen, Eva Wattrang, Bart Buitenhuis, Helle R. Juul‐Madsen, Tina Sørensen Dalgaard
Software Mentions: 4
Published: over 10 years ago

10.1038/s41598-021-87720-y

Macrophages with reduced expressions of classical M1 and M2 surface markers in human bronchoalveolar lavage fluid exhibit pro-inflammatory gene signatures
Cited by: 19
Author(s): Hiroto Takiguchi, Chen Yang, Yang Cheng, Başak Şahin, Beth A. Whalen, Stephen Milne, Kentaro Akata, Kei Yamasaki, Julia Yang, Chung Yan Cheung, Ryan Vander Werff, Kelly M. McNagny, Fernando Sergio Leitão Filho, Tawimas Shaipanich, Stephan F. van Eeden, Ma’en Obeidat, Janice M. Leung, Don D. Sin
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-021-87805-8

Integrin αvβ5 heterodimer is a specific marker of human pancreatic beta cells
Cited by: 4
Author(s): Jacqueline V. Schiesser, Thomas Loudovaris, Helen E. Thomas, Andrew G. Elefanty
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-021-87759-x

SIRT1 promotes lipid metabolism and mitochondrial biogenesis in adipocytes and coordinates adipogenesis by targeting key enzymatic pathways
Cited by: 58
Author(s): Yasser Majeed, Najeeb Halabi, Aisha Madani, Rudolf Engelke, Aditya Bhagwat, Houari Abdesselem, Maha Victor Agha, Muneera Vakayil, Raphael Jean Courjaret, Neha Goswami, Hisham Ben Hamidane, Mohamed A. Elrayess, Arash Rafii, Johannes Graumann, Frank Schmidt, Nayef Mazloum
Software Mentions: 4
Published: over 5 years ago

10.1186/1471-2164-10-373

Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers
Cited by: 170
Author(s): Xinxia Peng, Li Yu, Kathie–Anne Walters, Elizabeth Rosenzweig, Sharon Lederer, Lauri Aicher, Sean Proll, Michael G. Katze
Software Mentions: 4
Published: about 17 years ago

10.1038/s41598-021-87540-0

Identification of novel autophagy-related lncRNAs associated with a poor prognosis of colon adenocarcinoma through bioinformatics analysis
Cited by: 43
Author(s): Danni Wu, Zhenhua Yin, Yisheng Ji, Lin Li, Yunxin Li, F. Meng, Xiaohan Ren, Ming Xu
Software Mentions: 4
Published: over 5 years ago

10.1002/advs.202003504

Cytosolic Delivery of Thiolated Neoantigen Nano‐Vaccine Combined with Immune Checkpoint Blockade to Boost Anti‐Cancer T Cell Immunity
Cited by: 28
Author(s): Da Zhang, Zongming Lin, Ming Wu, Zhixiong Cai, Youshi Zheng, Lei He, Zhenli Li, Jie Zhou, Liqin Sun, Geng Chen, Yongyi Zeng, Juan Li, Jingfeng Liu, Huanghao Yang, Xiaolong Liu
Software Mentions: 4
Published: over 5 years ago

10.18632/aging.102459

Multi-omics analysis reveals epithelial-mesenchymal transition-related gene FOXM1 as a novel prognostic biomarker in clear cell renal carcinoma
Cited by: 13
Author(s): Song Jing, Fangzhou Song, Kun Liu, Wanfeng Zhang, Ruihan Luo, Yongyao Tang
Software Mentions: 4
Published: almost 7 years ago

10.18632/aging.203178

Identification of differentially expressed genes-related prognostic risk model for survival prediction in breast carcinoma patients
Cited by: 1
Author(s): Jinyu Li, Gena Huang, Caixia Ren, Ning Wang, Silei Sui, Zuowei Zhao, Man Li
Software Mentions: 4
Published: about 5 years ago

10.1186/1471-2164-15-133

Virus-independent and common transcriptome responses of leafhopper vectors feeding on maize infected with semi-persistently and persistent propagatively transmitted viruses
Cited by: 33
Author(s): Bryan J. Cassone, Saranga Wijeratne, Andrew P. Michel, Lucy R. Stewart, Yuting Chen, Pearlly S. Yan, Margaret G. Redinbaugh
Software Mentions: 4
Published: over 12 years ago

10.1186/1471-2164-11-50

Integrating multiple genome annotation databases improves the interpretation of microarray gene expression data
Cited by: 17
Author(s): Jun Yin, Sarah McLoughlin, Ian B. Jeffery, Antonino Glaviano, Breandán N. Kennedy, Desmond G. Higgins
Software Mentions: 4
Published: over 16 years ago

10.1186/1471-2164-12-64

Pre-processing and differential expression analysis of Agilent microRNA arrays using the AgiMicroRna Bioconductor library
Cited by: 118
Author(s): Pedro López-Romero
Software Mentions: 4
Published: over 15 years ago

10.1038/s41598-021-86536-0

Modular genome-wide gene expression architecture shared by early traits of osteoporosis and atherosclerosis in the Young Finns Study
Cited by: 6
Author(s): Binisha H. Mishra, Pashupati P. Mishra, Emma Raitoharju, Saara Marttila, Nina Mononen, Harri Sievänen, Jorma Viikari, Markus Juonala, Marika Laaksonen, Nina Hutri‐Kähönen, Mika Kähönen, Olli T. Raitakari, Terho Lehtimäki
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-019-5767-1

Transcriptomic responses to diet quality and viral infection in Apis mellifera
Cited by: 23
Author(s): Lindsay Rutter, Jimena Carrillo-Tripp, Bryony C. Bonning, Dianne Cook, Amy L. Toth, Adam Doležal
Software Mentions: 4
Published: over 7 years ago

10.1186/s12986-019-0366-3

A novel lncRNA-miRNA-mRNA triple network identifies lncRNA TWF1 as an important regulator of miRNA and gene expression in coronary artery disease
Cited by: 15
Author(s): Miao Liu, Rui-Xing Yin, Qinghui Zhang, Xi‐Jiang Hu, Feng Huang, Wu-Xian Chen, Xiaoli Cao, Jin‐Zhen Wu
Software Mentions: 4
Published: over 7 years ago

10.18632/aging.102579

Discovering master regulators in hepatocellular carcinoma: one novel MR, SEC14L2 inhibits cancer cells
Cited by: 14
Author(s): Zhihui Li, Yi Liu, Guoyan Tian, Jianyue Wu, Anqian Lu, Jin Chen, Beibei Xu, Junping Shi, Jin Yang
Software Mentions: 4
Published: almost 7 years ago

10.18632/aging.103127

Identification of HMG-box family establishes the significance of SOX6 in the malignant progression of glioblastoma
Cited by: 7
Author(s): Lan Jiang, Hui Yang, Tianbing Chen, Xiaolong Zhu, Jingjing Ye, Kun Lv
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-021-84647-2

Integrative network analysis reveals USP7 haploinsufficiency inhibits E-protein activity in pediatric T-lineage acute lymphoblastic leukemia (T-ALL)
Cited by: 8
Author(s): Timothy I. Shaw, Li Dong, Liqing Tian, Chenxi Qian, Yu Liu, Bensheng Ju, Anthony A. High, Kanisha Kavdia, Vishwajeeth Pagala, Bridget Shaner, Deqing Pei, John Easton, Laura J. Janke, Shaina N. Porter, Xiaotu Ma, Cheng Cheng, Shondra M. Pruett-Miller, John K. Choi, Jiyang Yu, Junmin Peng, Wei Gu, A. Thomas Look, James R. Downing, Jinghui Zhang
Software Mentions: 4
Published: over 5 years ago

10.1186/1471-2164-14-583

Genome-wide gene expression profiling of stress response in a spinal cord clip compression injury model
Cited by: 50
Author(s): Mahmood Chamankhah, Eftekhar Eftekharpour, Soheila Karimi-Abdolrezaee, Paul C. Boutros, Serban San‐Marina, Michael G. Fehlings
Software Mentions: 4
Published: about 13 years ago

10.1038/s41598-021-82976-w

Integrated analysis identifies oxidative stress genes associated with progression and prognosis in gastric cancer
Cited by: 29
Author(s): Zhengyuan Wu, Lin Wang, Zhenpei Wen, Jun Yao
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-021-82853-6

Transcriptome comparisons of in vitro intestinal epithelia grown under static and microfluidic gut-on-chip conditions with in vivo human epithelia
Cited by: 19
Author(s): Kornphimol Kulthong, Guido Hooiveld, Loes P. M. Duivenvoorde, Ignacio Miro Estruch, Victor Augustus Marin, Meike van der Zande, Hans Bouwmeester
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-016-3065-8

Removal of unwanted variation reveals novel patterns of gene expression linked to sleep homeostasis in murine cortex
Cited by: 35
Author(s): Jason R. Gerstner, John N. Koberstein, Adam Watson, Nikolai Zapero, Davide Risso, Terence P. Speed, Marcos G. Frank, Lucı́a Peixoto
Software Mentions: 4
Published: almost 10 years ago

10.1186/1471-2164-11-674

Apoplast proteome reveals that extracellular matrix contributes to multistress response in poplar
Cited by: 69
Author(s): Oľga Pecháňová, Chuan-Yu Hsu, J. F. Adams, Tibor Pechan, Lindsay Vandervelde, Jenny Drnevich, Sara Jawdy, Ardeshir Adeli, Jeffrey C. Suttle, Andrew D. Lawrence, Timothy J. Tschaplinski, Armand Séguin, Çetin Yüceer
Software Mentions: 4
Published: almost 16 years ago

10.1186/s12864-016-3291-0

Liver transcriptome response to hyperthermic stress in three distinct chicken lines
Cited by: 40
Author(s): Xi Lan, John Hsieh, Carl J. Schmidt, Qing Zhu, Susan J. Lamont
Software Mentions: 4
Published: almost 10 years ago

10.1007/s00592-018-1223-y

Negative pressure wound therapy in the treatment of diabetic foot ulcers may be mediated through differential gene expression
Cited by: 12
Author(s): Sebastian Borys, Agnieszka H. Ludwig-Słomczyńska, Michał Seweryn, Jerzy Hohendorff, Teresa Koblik, Julita Machlowska, Beata Kieć‐Wilk, Paweł Wołkow, Maciej Małecki
Software Mentions: 4
Published: about 8 years ago

10.1186/1471-2164-12-589

Relative impact of key sources of systematic noise in Affymetrix and Illumina gene-expression microarray experiments
Cited by: 30
Author(s): Robert Kitchen, Victoria Sabine, Arthur A. Simen, JM Dixon, John M.S. Bartlett, Andrew H. Sims
Software Mentions: 4
Published: almost 15 years ago

10.1186/1471-2164-13-380

The carbon starvation response of Aspergillus niger during submerged cultivation: Insights from the transcriptome and secretome
Cited by: 107
Author(s): Benjamin Nitsche, Tina Jørgensen, Michiel Akeroyd, Vera Meyer, Arthur F. J. Ram
Software Mentions: 4
Published: over 14 years ago

10.1038/s41598-020-80158-8

Gene expression in blood reflects smoking exposure among cancer-free women in the Norwegian Women and Cancer (NOWAC) postgenome cohort
Cited by: 6
Author(s): Nikita Baiju, Torkjel M. Sandanger, Pål Sætrom, Therese Haugdahl Nøst
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-015-1522-4

Transcriptomic profiles of aging in purified human immune cells
Cited by: 57
Author(s): Lindsay M. Reynolds, Jingzhong Ding, Jeanette Taylor, Kurt Lohman, Nicola Soranzo, Alberto de la Fuente, Tie Fu Liu, Craig W. Johnson, R. Graham Barr, Thomas C. Register, Kathleen Donohue, Monica V. Talor, Daniela Čiháková, C. Charles Gu, Jasmin Divers, David S. Siscovick, Gregory L. Burke, Wendy S. Post, Steven Shea, David R. Jacobs, Ina Hoeschele, Charles E. McCall, Stephen B. Kritchevsky, David M. Herrington, Russell P. Tracy, Yongmei Liu
Software Mentions: 4
Published: over 11 years ago

10.1186/s12864-017-4186-4

The gene SMART study: method, study design, and preliminary findings
Cited by: 45
Author(s): Xu Yan, Nir Eynon, Ioannis Papadimitriou, Jujiao Kuang, Fiona Munson, Oren Tirosh, Lannie O’Keefe, Lyn R. Griffiths, Kevin J. Ashton, Nuala M. Byrne, Yannis Pitsiladis, David Bishop
Software Mentions: 4
Published: almost 9 years ago

10.18632/aging.202228

Identification of SCARA3 with potential roles in metabolic disorders
Cited by: 7
Author(s): Hui Peng, Qi Guo, Tian Su, Ye Xiao, Changjun Li, Yan Huang, Xiang‐Hang Luo
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12967-019-1851-1

Reduced protocadherin17 expression in leukemia stem cells: the clinical and biological effect in acute myeloid leukemia
Cited by: 17
Author(s): Zi‐jun Xu, Ji‐chun Ma, Jing‐Dong Zhou, Xiang‐mei Wen, Dong‐ming Yao, Wei Zhang, Runbi Ji, Dehong Wu, Li‐Juan Tang, Zhaoqun Deng, Jun Qian, Lin Jiang
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-020-79704-1

Data-driven detection of subtype-specific differentially expressed genes
Cited by: 9
Author(s): Lulu Chen, Yingzhou Lu, Chiung Ting Wu, Robert Clarke, Guoqiang Yu, Jennifer E. Van Eyk, David M. Herrington, Yue Wang
Software Mentions: 4
Published: over 5 years ago

10.1186/1471-2164-14-475

Variable promoter methylation contributes to differential expression of key genes in human placenta-derived venous and arterial endothelial cells
Cited by: 30
Author(s): Jihoon E. Joo, Ursula Hiden, Luciana Lassance, Lavinia Gordon, David Martino, Gernot Desoyé, Richard Saffery
Software Mentions: 4
Published: about 13 years ago

10.1186/s12864-021-07646-7

Transcriptomic analysis reveals pronounced changes in gene expression due to sub-lethal pyrethroid exposure and ageing in insecticide resistance Anopheles coluzzii
Cited by: 18
Author(s): Victoria A. Ingham, Faye Brown, Hilary Ranson
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-79781-2

Novel circRNA discovery in sheep shows evidence of high backsplice junction conservation
Cited by: 7
Author(s): Endika Varela-Martínez, Giulia I. Corsi, Christian Anthon, Jan Gorodkin, Begoña M. Jugo
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-016-3390-y

LPS-induced modules of co-expressed genes in equine peripheral blood mononuclear cells
Cited by: 11
Author(s): Alicja Pacholewska, Eliane Marti, Tosso Leeb, Vidhya Jagannathan, Vinzenz Gerber
Software Mentions: 4
Published: over 9 years ago

10.1186/s12967-020-02454-1

Comprehensive analysis and establishment of a prediction model of alternative splicing events reveal the prognostic predictor and immune microenvironment signatures in triple negative breast cancer
Cited by: 11
Author(s): Shanshan Yu, Chuan Hu, Lixiao Liu, Luya Cai, Xuedan Du, Qiongjie Yu, Fan Lin, Jinduo Zhao, Ye Zhao, Cheng Zhang, Xuan Li, Wenfeng Li
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-020-76657-3

Distinct regional ontogeny and activation of tumor associated macrophages in human glioblastoma
Cited by: 64
Author(s): Alexander Landry, Michael Balas, Saira Alli, Julian Spears, Zsolt Zádor
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-020-76048-8

Characterization of somatic mutation-associated microenvironment signatures in acute myeloid leukemia patients based on TCGA analysis
Cited by: 4
Author(s): Jun Wang, Feng‐Ting Dao, Lu Yang, Ya‐Zhen Qin
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12864-016-3230-0

Insights into the human mesenchymal stromal/stem cell identity through integrative transcriptomic profiling
Cited by: 47
Author(s): Beatriz Rosón-Burgo, Fermín Sánchez‐Guijo, Consuelo del Cañizo, Javier De Las Rivas
Software Mentions: 4
Published: almost 10 years ago

10.1038/s41598-020-75326-9

Mitochondrial gene signature in the prefrontal cortex for differential susceptibility to chronic stress
Cited by: 33
Author(s): Meltem Weger, Daniel Alpern, Antoine Cherix, Sriparna Ghosal, Jocelyn Grosse, Julie Russeil, Rolf Gruetter, E. R. de Kloet, Bart Deplancke, Carmen Sandi
Software Mentions: 4
Published: almost 6 years ago

10.1186/1471-2164-15-763

Transcriptome of Saccharomyces cerevisiae during production of D-xylonate
Cited by: 5
Author(s): Dominik Mojžita, Merja Oja, Eija Rintala, Marilyn G. Wiebe, Merja Penttilä, Laura Ruohonen
Software Mentions: 4
Published: over 12 years ago

10.1038/s41598-020-75060-2

Differential immune gene expression associated with contemporary range expansion in two invasive rodents in Senegal
Cited by: 1
Author(s): Nathalie Charbonnel, Maxime Galan, Caroline Tatard, Anne Loiseau, Christophe Diagne, Ambroise Dalecky, Hugues Parrinello, Stéphanie Rialle, Dany Séverac, Carine Brouat
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-020-74798-z

Epigenetic alterations in skin homing CD4+CLA+ T cells of atopic dermatitis patients
Cited by: 19
Author(s): Nathalie Acevedo, Rui Benfeitas, Shintaro Katayama, Sören Bruhn, Ann‐Catrin Andersson, Gustav Wikberg, Lena Lundeberg, Jessica M. Lindvall, Dario Greco, Juha Kere, Cilla Söderhäll, Annika Scheynius
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12864-017-3661-2

Detect tissue heterogeneity in gene expression data with BioQC
Cited by: 42
Author(s): Jitao David Zhang, Klas Hatje, Gregor Sturm, Clemens Broger, Martin Ebeling, Martine Burtin, Fabiola Terzi, Silvia Pomposiello, Laura Badi
Software Mentions: 4
Published: over 9 years ago

10.1186/s12967-021-02804-7

Cerebrospinal fluid cells immune landscape in multiple sclerosis
Cited by: 11
Author(s): Zijian Li, Yongchao Liu, Aili Jia, Yueran Cui, Juan Feng
Software Mentions: 4
Published: over 5 years ago

10.1186/1756-0381-6-17

Using random walks to identify cancer-associated modules in expression data
Cited by: 32
Author(s): Deanna Petrochilos, Ali Shojaie, John H. Gennari, Neil F. Abernethy
Software Mentions: 4
Published: almost 13 years ago

10.1186/s12967-021-03031-w

Integrative analysis and experiments to explore angiogenesis regulators correlated with poor prognosis, immune infiltration and cancer progression in lung adenocarcinoma
Cited by: 6
Author(s): Songhua Cai, Xiaotong Guo, Chujian Huang, Youjun Deng, Ling Du, Wenyi Liu, Chenglin Yang, Hang Zhao, Kai Ma, Lixu Wang, Jié He, Zhentao Yu
Software Mentions: 4
Published: about 5 years ago

10.1093/bioinformatics/bty476

Meffil: efficient normalization and analysis of very large DNA methylation datasets
Cited by: 173
Author(s): Josine L. Min, Gibran Hemani, George Davey Smith, Caroline L Relton, Matthew Suderman
Software Mentions: 4
Published: about 8 years ago

10.18632/aging.102820

Development and validation of a prognostic classifier based on HIF-1 signaling for hepatocellular carcinoma
Cited by: 22
Author(s): Feiwen Deng, Chen Dong, Xiaoli Wei, Shilin Lu, Xuan Luo, Jincan He, Junting Liu, Tiebao Meng, Anli Yang, Huanwei Chen
Software Mentions: 4
Published: over 6 years ago

10.1093/bioinformatics/btx094

Glimma: interactive graphics for gene expression analysis
Cited by: 120
Author(s): Shian Su, Charity W. Law, Casey Ah-Cann, Marie Liesse Asselin-Labat, Marnie E. Blewitt, Matthew E. Ritchie
Software Mentions: 4
Published: over 9 years ago

10.18632/aging.202917

Development of a prognostic index and screening of prognosis related genes based on an immunogenomic landscape analysis of bladder cancer
Cited by: 14
Author(s): Genyi Qu, Zhengsheng Liu, Guang Yang, Yong Xu, Maolin Xiang, Chaowei Tang
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-70540-x

Identification of C3 as a therapeutic target for diabetic nephropathy by bioinformatics analysis
Cited by: 16
Author(s): Shumei Tang, Xiufen Wang, Tianci Deng, Huipeng Ge, Xiangcheng Xiao
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-020-70368-5

Transcriptomic analysis delineates potential signature genes and miRNAs associated with the pathogenesis of asthma
Cited by: 16
Author(s): Prithvi Singh, Archana Sharma, Jha R, Shweta Arora, Rafiq Ahmad, Arshad Husain Rahmani, Saleh A. Almatroodi, Ravins Dohare, Mansoor Ali Syed
Software Mentions: 4
Published: about 6 years ago

10.1186/s40659-018-0188-1

Identification of key genes and miRNAs markers of papillary thyroid cancer
Cited by: 31
Author(s): Jie Qiu, Wenwei Zhang, Chuanshan Zang, Xiaomin Liu, Fuxue Liu, Ruifeng Ge, Yan Sun, Qingsheng Xia
Software Mentions: 4
Published: almost 8 years ago

10.1038/s41598-019-43881-5

Comprehensive and Systematic Analysis of Gene Expression Patterns Associated with Body Mass Index
Cited by: 13
Author(s): Paule V. Joseph, Rosario B. Jaime-Lara, Yupeng Wang, Lichen Xiang, Wendy A. Henderson
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-019-42485-3

Comparison of multi-tissue aging between human and mouse
Cited by: 13
Author(s): Jujuan Zhuang, Lijun Zhang, Shuang Dai, Lingyu Cui, Cheng Guo, Laura Sloofman, Jialiang Yang
Software Mentions: 4
Published: over 7 years ago

10.1186/s40364-021-00302-y

Lower BCL11B expression is associated with adverse clinical outcome for patients with myelodysplastic syndrome
Cited by: 7
Author(s): Xin Huang, Cunte Chen, Mengjun Zhong, Suxia Geng, Yujie Zhao, Minming Li, Chenxin Deng, Lizhi Zeng, Ping Wu, Zhihui Lu, Jianyu Weng, Xin Du, Yangqiu Li
Software Mentions: 4
Published: over 5 years ago

10.1155/2020/3641231

Immune-Related Four-lncRNA Signature for Patients with Cervical Cancer
Cited by: 19
Author(s): Jianfeng Zheng, Benben Cao, Xia Zhang, Zhenbin Niu, Jinyi Tong
Software Mentions: 4
Published: almost 6 years ago

10.1155/2019/2725192

In Silico Integration Approach Reveals Key MicroRNAs and Their Target Genes in Follicular Thyroid Carcinoma
Cited by: 10
Author(s): Shengqing Hu, Yunfei Liao, Juan Zheng, Luoning Gou, Anita Regmi, Mohammad Ishraq Zafar, Lulu Chen
Software Mentions: 4
Published: over 7 years ago

10.1155/2019/5437531

Long Noncoding RNA ASB16-AS1 Promotes Proliferation, Migration, and Invasion in Glioma Cells
Cited by: 26
Author(s): Delong Zhang, Huanggui Zhou, Jun Liu, Jie Mao
Software Mentions: 4
Published: over 7 years ago

10.18632/aging.202365

Transcriptomic characterization reveals prognostic molecular signatures of sorafenib resistance in hepatocellular carcinoma
Cited by: 7
Author(s): Wei Yuan, Ran Tao, Da Huang, Weiming Yan, Shen Gao, Qin Ning
Software Mentions: 4
Published: over 5 years ago

10.18632/aging.203352

Development and validation of prognostic model based on the analysis of autophagy-related genes in colon cancer
Cited by: 8
Author(s): Yongfeng Wang, Kaili Lin, Tianchun Xu, Liuli Wang, Liangyin Fu, Guangming Zhang, Jing Ai, Yajun Jiao, Rongrong Zhu, Xiaoyong Han, Hui Cai
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-019-40992-x

A comparison between the abdominal and femoral adipose tissue proteome of overweight and obese women
Cited by: 18
Author(s): Max Vogel, Ping Wang, Freek G. Bouwman, Nicole Hoebers, Ellen E. Blaak, Johan Renes, E.C.M. Mariman, Gijs H. Goossens
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-019-39733-x

HER2 and p95HER2 differentially regulate miRNA expression in MCF-7 breast cancer cells and downregulate MYB proteins through miR-221/222 and miR-503
Cited by: 15
Author(s): Andrej Gorbatenko, Rolf Søkilde, Ester E. Sørensen, Inga Newie, Helena Persson, Beatriz Morancho, Joaquı́n Arribas, Thomas Litman, Carlos Rovira, Stine Falsig Pedersen
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-019-38965-1

Initial findings of striatum tripartite model in OCD brain samples based on transcriptome analysis
Cited by: 14
Author(s): Bianca Cristina Garcia Lisbôa, Kátia C. Oliveira, Ana Carolina Tahira, André Rocha Barbosa, Arthur Sant’Anna Feltrin, Gisele Rodrigues Gouveia, Luzia Carreira Lima, Ana Cecília Feio dos Santos, David Martins, Renato Puga, Ariane Cristine Moretto, Carlos Alberto de Bragança Pereira, Beny Lafer, Renata Elaine Paraízo Leite, Renata Eloah de Lucena Ferretti‐Rebustini, José Marcelo Farfel, Lea T. Grinberg, Wilson Jacob‐Filho, Eurípedes Constantino Miguel, Marcelo Q. Hoexter, Helena Brentani
Software Mentions: 4
Published: over 7 years ago

10.3390/nu11112804

DNA Methylation Signatures of Breastfeeding in Buccal Cells Collected in Mid-Childhood
Cited by: 16
Author(s): Veronika V. Odintsova, Fiona A. Hagenbeek, Matthew Suderman, Doretta Caramaschi, Catharina E. M. van Beijsterveldt, Noah A. Kallsen, Erik A. Ehli, Gareth E. Davies, Г. Т. Сухих, Vassilios Fanos, Caroline L Relton, Meike Bartels, Dorret I. Boomsma, Jenny van Dongen
Software Mentions: 4
Published: almost 7 years ago

10.1111/acel.13195

Growth differentiation factor 15 protects against the aging‐mediated systemic inflammatory response in humans and mice
Cited by: 59
Author(s): Ji Sun Moon, Ludger Goeminne, Jung Tae Kim, Jing Tian, Seok Hwan Kim, Ha Thi Nga, Sun Hyung Kang, Baeki E. Kang, Jin Seok Byun, Young‐Sun Lee, Jae‐Han Jeon, Minho Shong, Johan Auwerx, Dongryeol Ryu, Hyon‐Seung Yi
Software Mentions: 4
Published: about 6 years ago

10.1155/2020/4980609

The Important Role of Perituberal Tissue in Epileptic Patients with Tuberous Sclerosis Complex by the Transcriptome Analysis
Cited by: 3
Author(s): Shuqiang Li, Huijie Shao, Liansheng Chang
Software Mentions: 4
Published: almost 6 years ago

10.1155/2021/6672899

Comparative Transcriptome Analysis Reveals Relationship among mRNAs, lncRNAs, and circRNAs of Slow Transit Constipation
Cited by: 2
Author(s): Shuai Yan, Yinzi Yue, Mingming Sun, Yinghui Chen, Xiaopeng Wang, Haihua Qian
Software Mentions: 4
Published: about 5 years ago

10.1155/2021/6697810

Shared Genetic and Epigenetic Mechanisms between the Osteogenic Differentiation of Dental Pulp Stem Cells and Bone Marrow Stem Cells
Cited by: 14
Author(s): Sebastian Gaus, Hanluo Li, Simin Li, Qian Wang, Tina Kottek, Sebastian Hahnel, Xiangqiong Liu, Yupei Deng, Dirk Ziebolz, Rainer Haak, Gerhard Schmalz, Lei Liu, Vuk Savković, Bernd Lethaus
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-38310-y

Msx1 loss suppresses formation of the ectopic crypts developed in the Apc-deficient small intestinal epithelium
Cited by: 5
Author(s): Monika Horázná, Lucie Janečková, Jiří Švec, Oľga Babošová, Dušan Hrčkulák, Martina Vojtěchová, Kateřina Galušková, Eva Šloncová, Michal Kolář, Hynek Strnad, Vladimír Kořínek
Software Mentions: 4
Published: over 7 years ago

10.1155/2014/145243

Integration of High-Volume Molecular and Imaging Data for Composite Biomarker Discovery in the Study of Melanoma
Cited by: 7
Author(s): Κωνσταντίνος Μούτσελος, Ilias Maglogiannis, Aristotelis Chatziioannou
Software Mentions: 4
Published: over 12 years ago

10.1155/2020/8047146

A Novel Schizophrenia Diagnostic Model Based on Statistically Significant Changes in Gene Methylation in Specific Brain Regions
Cited by: 3
Author(s): Donghua Zou, Yufen Qiu, Rongjie Li, Youshi Meng, Yuan Wu
Software Mentions: 4
Published: over 6 years ago

10.1155/2019/1742341

Based on Integrated Bioinformatics Analysis Identification of Biomarkers in Hepatocellular Carcinoma Patients from Different Regions
Cited by: 9
Author(s): Linxin Teng, Kaiyuan Wang, Yu Liu, Yanxia Ma, Weiping Chen, Lei Bi
Software Mentions: 4
Published: almost 7 years ago

10.1155/2021/4582082

Identification of a Two-m6A RNA Methylation Regulator Risk Signature as an Independent Prognostic Biomarker in Papillary Renal Cell Carcinoma by Bioinformatic Analysis
Cited by: 5
Author(s): Fusheng Yang, Guojiang Zhao, Liyuan Ge, Yimeng Song, Kai Hong, Hongxian Zhang, Cheng Liu, Hong Peng, Lulin Ma
Software Mentions: 4
Published: over 5 years ago

10.1155/2021/6616434

Weighted Gene Coexpression Network Analysis Uncovers Critical Genes and Pathways for Multiple Brain Regions in Parkinson’s Disease
Cited by: 4
Author(s): Jianjun Huang, Li Liu, Lingling Qin, Hehua Huang, Li Xue
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-36319-x

Low mutation and neoantigen burden and fewer effector tumor infiltrating lymphocytes correlate with breast cancer metastasization to lymph nodes
Cited by: 17
Author(s): Zhigang Wang, Wei Liu, Chong Chen, Xiaolin Yang, Yunping Luo, Bailin Zhang
Software Mentions: 4
Published: over 7 years ago

10.1155/2020/8886914

An Integrative Analysis Reveals the Potential Mechanism between Herbal Medicine Yinchen and Immunoregulation in Hepatocellular Carcinoma
Cited by: 3
Author(s): Zhuomao Mo, Zhirui Cao, Ling Yu, Yongdan Wang, Pan Li, You-Wu Lin, Shijun Zhang
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-018-35974-4

Circulating small non-coding RNAs associated with age, sex, smoking, body mass and physical activity
Cited by: 29
Author(s): Trine B. Rounge, Sinan Uğur Umu, Andreas Keller, Eckart Meese, Giske Ursin, Steinar Tretli, Robert Lyle, Hilde Langseth
Software Mentions: 4
Published: almost 8 years ago

10.1111/acel.13366

Clonal hematopoiesis associated with epigenetic aging and clinical outcomes
Cited by: 57
Author(s): Daniel Nachun, Ake T. Lu, Alexander Bick, Pradeep Natarajan, Joshua Weinstock, Mindy D Szeto, Sekar Kathiresan, Gonçalo Abecasis, Kent D. Taylor, Xiuqing Guo, Russ Tracy, Peter Durda, Yongmei Liu, Craig W. Johnson, Stephen S. Rich, David Van Den Berg, Cecilia A. Laurie, Tom Blackwell, George Papanicolaou, Adolfo Correa, Laura M. Raffield, Andrew D. Johnson, Joanne M. Murabito, JoAnn E. Manson, Pinkal Desai, Charles Kooperberg, Themistocles L. Assimes, Daniel Levy, Jerome I. Rotter, Alex P. Reiner, Eric A. Whitsel, James G. Wilson, Steve Horvath, Siddhartha Jaiswal
Software Mentions: 4
Published: over 5 years ago

10.1155/2021/6680066

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

10.1038/s41598-018-34964-w

Inducing controlled cell cycle arrest and re-entry during asexual proliferation of Plasmodium falciparum malaria parasites
Cited by: 29
Author(s): Riëtte van Biljon, Jandeli Niemand, Roelof van Wyk, Katherine Clark, Bianca K. Verlinden, Clarissa Abrie, Hilde von Grüning, Werner Smidt, Annél Smit, Janette Reader, Heather J. Painter, Manuel Llinás, Christian Doerig, Lyn‐Marié Birkholtz
Software Mentions: 4
Published: almost 8 years ago

10.1155/2020/2137319

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

10.1155/2020/4251761

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

10.1155/2021/6644827

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

10.1155/2020/8604340

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

10.1155/2020/2123787

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

10.3390/ijms221910403

MMP14 Contributes to HDAC Inhibition-Induced Radiosensitization of Glioblastoma
Cited by: 1
Author(s): Yuchuan Zhou, Hongxia Liu, Zheng Wang, Qianping Chen, Songling Hu, Yan Pan, Yang Bai, Jianghong Zhang, Chunlin Shao
Software Mentions: 4
Published: almost 5 years ago

10.1155/2014/736798

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

10.1155/2020/4612158

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

10.1155/2021/8848227

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

10.1155/2020/3416807

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

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