cran: pheatmap | Projects | Ecosyste.ms: Papers

10.3389/fgene.2020.608668

Prognosis-Predictive Signature and Nomogram Based on Autophagy-Related Long Non-coding RNAs for Hepatocellular Carcinoma
Cited by: 37
Author(s): Jie-Ping Yu, Yan Chen, Jiansheng Liu
Software Mentions: 5
Published: almost 6 years ago

10.1080/19490976.2020.1785252

The gut microbiome stability is altered by probiotic ingestion and improved by the continuous supplementation of galactooligosaccharide
Cited by: 34
Author(s): Chenchen Ma, S. S. Wasti, Shi Huang, Zhen Zeng, Rajeev Mishra, Shuaiming Jiang, Zhengkai You, Yixuan Wu, Haibo Chang, Yuanyuan Wang, Dongxue Huo, Congfa Li, Zhihong Sun, Zheng Sun, Jiachao Zhang
Software Mentions: 5
Published: over 6 years ago

10.3389/fgene.2021.650416

Ferroptosis-Related Gene-Based Prognostic Model and Immune Infiltration in Clear Cell Renal Cell Carcinoma
Cited by: 13
Author(s): Guojiang Zhao, Zonglong Wu, Liyuan Ge, Fusheng Yang, Kai Hong, Shudong Zhang, Lulin Ma
Software Mentions: 5
Published: over 5 years ago

10.1186/s12935-021-02117-1

Plastin-3 is a diagnostic and prognostic marker for pancreatic adenocarcinoma and distinguishes from diffuse large B-cell lymphoma
Cited by: 6
Author(s): Fei Xiong, Guanhua Wu, Bing Wang, Yongjun Chen
Software Mentions: 5
Published: about 5 years ago

10.1186/s13073-020-00751-4

Multiple approaches for massively parallel sequencing of SARS-CoV-2 genomes directly from clinical samples
Cited by: 98
Author(s): Mao Xiao, Xiaoqing Liu, Jingkai Ji, Min Li, Jiandong Li, Lin Yang, Wanying Sun, Peng Ren, Guifang Yang, Jincun Zhao, Tianzhu Liang, Huahui Ren, Cheng Tian, Zhong Huang, Wenchen Song, Yanqun Wang, Ziqing Deng, Yongqiang Zhao, Zhihua Ou, Daxi Wang, Jielun Cai, Xinyi Cheng, Taiqing Feng, Honglong Wu, Yanping Gong, Huanming Yang, Jian Wang, Xun Xu, Shida Zhu, Fang Chen, Yanyan Zhang, Weijun Chen, Yimin Li, Junhua Li
Software Mentions: 5
Published: over 6 years ago

10.18632/aging.103977

Identification of immune landscape signatures associated with clinical and prognostic features of hepatocellular carcinoma
Cited by: 2
Author(s): Hongmei Yan, Yu-Chuan Chen, Kai Wang, Yu Lu, Xixin Huang, Qianyu Li, Yuwen Xie, Jiayu Lin, Yueyun He, Xinyu Yi, Yanzhi Wang, Longhua Chen, Yi Ding, Yiyi Li
Software Mentions: 5
Published: about 6 years ago

10.1186/s12935-020-01294-9

A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma
Cited by: 46
Author(s): Guoqing Ouyang, Bin Yi, Guangdong Pan, Xiang Chen
Software Mentions: 5
Published: over 6 years ago

10.1016/j.ccell.2020.03.001

Loss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation
Cited by: 84
Author(s): Zeda Zhang, Chuanli Zhou, Xiaoling Li, Spencer Barnes, Su Deng, Elizabeth Hoover, Chi Chao Chen, Young Sun Lee, Yanxiao Zhang, Choushi Wang, Lauren Metang, Chao Wu, Carla Rodriguez Tirado, Nickolas A. Johnson, John Wongvipat, Kristina Navrazhina, Zhen Cao, Danielle Choi, Chen‐Hung Huang, Eliot Linton, Xiaoping Chen, Yupu Liang, Christopher E. Mason, Elisa de Stanchina, Wassim Abida, Amaia Lujambio, Sheng Li, Scott W. Lowe, Joshua T. Mendell, Venkat S. Malladi, Charles L. Sawyers, Ping Mu
Software Mentions: 5
Published: over 6 years ago

10.1016/j.ccell.2019.02.009

Human Tumor-Associated Macrophage and Monocyte Transcriptional Landscapes Reveal Cancer-Specific Reprogramming, Biomarkers, and Therapeutic Targets
Cited by: 533
Author(s): Luca Cassetta, Stamatina Fragkogianni, Andrew H. Sims, Agnieszka Swierczak, Lesley M. Forrester, Hui Zhang, Daniel Soong, Tiziana Cotechini, Pavana Anur, Elaine Y. Lin, A Fidanza, Martha Lopez‐Yrigoyen, Michael Millar, Alexandra Urman, Zhichao Ai, Paul T. Spellman, E. Shelley Hwang, JM Dixon, Lisa Wiechmann, Lisa M. Coussens, Harriet O. Smith, Jeffrey W. Pollard
Software Mentions: 5
Published: over 7 years ago

10.3390/ani11092606

Jejunal Transcriptomic Profiling for Differences in Feed Conversion Ratio in Slow-Growing Chickens
Cited by: 2
Author(s): Panpradub Sinpru, Cindy Riou, Shin Kubota, Chotima Poompramun, Wittawat Molee, Amonrat Molee
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2020.00499

Construction of an Immunogenomic Risk Score for Prognostication in Colon Cancer
Cited by: 8
Author(s): Han Zhang, Chuan Qin, Hua Gan, Xiong Guo, Li Zhang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0151917

Classification of Promoters Based on the Combination of Core Promoter Elements Exhibits Different Histone Modification Patterns
Cited by: 9
Author(s): Yayoi Natsume-Kitatani, Hiroshi Mamitsuka
Software Mentions: 5
Published: over 10 years ago

10.1186/s40478-020-00988-5

Different effects of constitutive and induced microbiota modulation on microglia in a mouse model of Alzheimer’s disease
Cited by: 64
Author(s): Charlotte Mezö, Nikolaos Dokalis, Omar Mossad, Ori Staszewski, Jana Neuber, Bahtiyar Yılmaz, Daniel Schnepf, Mercedes Gomez de Agüero, Stephanie C. Ganal‐Vonarburg, Andrew J. Macpherson, Melanie Meyer‐Luehmann, Peter Staeheli, Thomas Blank, Marco Prinz, Daniel Erny
Software Mentions: 5
Published: about 6 years ago

10.1186/s12864-021-07787-9

The CCCH zinc finger family of soybean (Glycine max L.): genome-wide identification, expression, domestication, GWAS and haplotype analysis
Cited by: 9
Author(s): Xin Hu, Jian‐Fang Zuo
Software Mentions: 5
Published: over 5 years ago

10.3389/fgene.2021.613808

Characterization of SALL2 Gene Isoforms and Targets Across Cell Types Reveals Highly Conserved Networks
Cited by: 3
Author(s): Carlos Farkas, Aracelly Quiroz, Claudia Álvarez, Viviana E. Hermosilla, Carlos F. Aylwin, Alejandro Lomniczi, Ariel F. Castro, Matías I. Hepp, Roxana Pincheira
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.102399

DNA methylation profile is a quantitative measure of biological aging in children
Cited by: 23
Author(s): Xiaohui Wu, Weidan Chen, Fangqin Lin, Qingsheng Huang, Jiayong Zhong, Huan Gao, Yanyan Song, Huiying Liang
Software Mentions: 5
Published: almost 7 years ago

10.3389/fgene.2019.00931

Novel Model for Comprehensive Assessment of Robust Prognostic Gene Signature in Ovarian Cancer Across Different Independent Datasets
Cited by: 2
Author(s): Zhitong Bing, Yu Yao, Jie Xiong, Jinhui Tian, Xiangqian Guo, Xiuxia Li, Jingyun Zhang, Xiue Shi, Yanying Zhang, Kehu Yang
Software Mentions: 5
Published: about 7 years ago

10.1186/s13068-016-0652-5

Presence does not imply activity: DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion
Cited by: 56
Author(s): Jo De Vrieze, Leticia Regueiro, Ruben Props, Ramiro Vílchez-Vargas, Ruy Jáuregui, Dietmar H. Pieper, Juan M. Lema, Marta Carballa
Software Mentions: 5
Published: almost 10 years ago

10.3389/fgene.2020.595361

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

10.1186/s13059-017-1304-1

Abundant expression of somatic transposon-derived piRNAs throughout Tribolium castaneum embryogenesis
Cited by: 16
Author(s): Maria Ninova, Sam Griffiths-Jones, Matthew Ronshaugen
Software Mentions: 5
Published: about 9 years ago

10.3390/genes11080868

Identification of circRNA-lncRNA-miRNA-mRNA Competitive Endogenous RNA Network as Novel Prognostic Markers for Acute Myeloid Leukemia
Cited by: 52
Author(s): Yuanrong Cheng, Yangfeng Su, Shoubi Wang, Yurun Liu, Lin Jin, Qi Wan, Ying Liu, Chaoyang Li, Xuan Sang, Yang Liu, Chang Liu, Zhichong Wang
Software Mentions: 5
Published: about 6 years ago

10.3390/genes12060842

De Novo Transcriptome Meta-Assembly of the Mixotrophic Freshwater Microalga Euglena gracilis
Cited by: 5
Author(s): J.M. Córdoba, Emilie Perez, Mick Van Vlierberghe, Amandine Bertrand, Valérian Lupo, Pierre Cardol, Denis Baurain
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0252508

Network pharmacology and molecular docking study on the mechanism of colorectal cancer treatment using Xiao-Chai-Hu-Tang
Cited by: 23
Author(s): Jingyun Jin, Bin Chen, Xiangyang Zhan, Zhiyi Zhou, Hui Liu, Yun Dong
Software Mentions: 5
Published: over 5 years ago

10.1186/s42523-021-00080-w

The skin microbiome of Xenopus laevis and the effects of husbandry conditions
Cited by: 7
Author(s): Maya Z. Piccinni, Joy E. M. Watts, Marie Fourny, Matthew Guille, Samuel Robson
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pgen.1008770

Multiple mechanisms regulate H3 acetylation of enhancers in response to thyroid hormone
Cited by: 19
Author(s): Stine M. Præstholm, Majken Siersbæk, Ronni Nielsen, Xuguang Zhu, Anthony N. Hollenberg, Sheue-yann Cheng, Lars Grøntved
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pcbi.1005591

Solving the influence maximization problem reveals regulatory organization of the yeast cell cycle
Cited by: 10
Author(s): David L. Gibbs, Ilya Shmulevich
Software Mentions: 5
Published: over 9 years ago

10.3389/fonc.2019.01212

Stromal-Immune Score-Based Gene Signature: A Prognosis Stratification Tool in Gastric Cancer
Cited by: 114
Author(s): Hao Wang, Xiaosheng Wu, Yiming Chen
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pgen.1007981

Disruption of the Caenorhabditis elegans Integrator complex triggers a non-conventional transcriptional mechanism beyond snRNA genes
Cited by: 29
Author(s): Eva Gómez-Orte, Beatriz Sáenz-Narciso, Angelina Zheleva, Begoña Ezcurra, María de Toro, Rosa López, Irene Gastaca, Hilde Nilsen, María P. Sacristán, Ralf Schnabel, Juan Cabello
Software Mentions: 5
Published: over 7 years ago

10.3389/fonc.2020.00368

Expression Profile and Prognostic Values of HOXA Family Members in Laryngeal Squamous Cell Cancer
Cited by: 20
Author(s): Jinyun Li, Meng Ye, Chongchang Zhou
Software Mentions: 5
Published: over 6 years ago

10.1534/g3.120.401622

Alternative Splicing During the Chlamydomonas reinhardtii Cell Cycle
Cited by: 10
Author(s): Manishi Pandey, Gary D. Stormo, Susan K. Dutcher
Software Mentions: 5
Published: about 6 years ago

10.3389/fonc.2019.00912

Construction of a Competitive Endogenous RNA Network and Identification of Potential Regulatory Axis in Gastric Cancer
Cited by: 21
Author(s): Hongda Pan, Chen Guo, Jianji Pan, Dongwei Guo, Shibo Song, Ye Zhou, Dazhi Xu
Software Mentions: 5
Published: about 7 years ago

10.1155/2021/5553811

Identification of Potential Biomarkers Associated with Acute Myocardial Infarction by Weighted Gene Coexpression Network Analysis
Cited by: 12
Author(s): Yan Wang, Xiangyang Zhang, Min Duan, Chenguang Zhang, Ke Wang, Lili Feng, Linlin Song, Sheng Xi Wu, Xuyan Chen
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pbio.3000557

BMPR2 acts as a gatekeeper to protect endothelial cells from increased TGFβ responses and altered cell mechanics
Cited by: 65
Author(s): Christian Hiepen, Jerome Jatzlau, Susanne Hildebrandt, Branka Kampfrath, Melis Göktas, Arunima Murgai, José Luis Cuellar Camacho, Rainer Haag, Clemens Ruppert, Gerhard Sengle, Elisabetta Ada Cavalcanti‐Adam, Kerstin Blank, Petra Knaus
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12864-020-07180-y

Transcriptome analysis reveals mechanism of early ripening in Kyoho grape with hydrogen peroxide treatment
Cited by: 22
Author(s): Da‐Long Guo, Zhenguang Wang, Mao-Song Pei, Lili Guo, Yi‐He Yu
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12864-015-1540-2

Gene expression associated with white syndromes in a reef building coral, Acropora hyacinthus
Cited by: 185
Author(s): Rachel M. Wright, Galina V. Aglyamova, Eli Meyer, Mikhail V. Matz
Software Mentions: 5
Published: over 11 years ago

10.3389/fgene.2019.00772

Polycystic Ovary Syndrome: Novel and Hub lncRNAs in the Insulin Resistance-Associated lncRNA–mRNA Network
Cited by: 22
Author(s): Jun Zhao, Jiayu Huang, Xue Geng, Weiwei Chu, Shang Li, Zi‐Jiang Chen, Yanzhi Du
Software Mentions: 5
Published: about 7 years ago

10.1186/s12864-019-6127-x

Acute systemic inflammatory response to lipopolysaccharide stimulation in pigs divergently selected for residual feed intake
Cited by: 9
Author(s): Haibo Li, Kristina M. Feye, Yet Nguyen, Anoosh Rakhshandeh, Crystal L. Loving, Jack C. M. Dekkers, Nicholas K. Gabler, Christopher K. Tuggle
Software Mentions: 5
Published: about 7 years ago

10.1111/joa.13228

Morphological variability is greater at developing than mature mouse neuromuscular junctions
Cited by: 24
Author(s): Aleksandra M. Mech, Anna‐Leigh Brown, Giampietro Schiavo, James N. Sleigh
Software Mentions: 5
Published: over 6 years ago

10.1002/pld3.320

High resolution RNA‐seq profiling of genes encoding ribosomal proteins across different organs and developmental stages in Arabidopsis thaliana
Cited by: 5
Author(s): Wei Xiong, Jiancong Zhang, Ting Lan, Wenwen Kong, Xiaoyan Wang, Lin Liu, Xuemei Chen, Beixin Mo
Software Mentions: 5
Published: over 5 years ago

10.3390/biom11010040

From Prevention to Disease Perturbations: A Multi-Omic Assessment of Exercise and Myocardial Infarctions
Cited by: 6
Author(s): Melanie T. Odenkirk, Kelly G. Stratton, Lisa Bramer, Bobbie‐Jo Webb‐Robertson, Kent Bloodsworth, Matthew E. Monroe, Kristin Burnum-Johnson, Erin Baker
Software Mentions: 5
Published: almost 6 years ago

10.3389/fonc.2020.554214

Screening and Identification of Prognostic Tumor-Infiltrating Immune Cells and Genes of Endometrioid Endometrial Adenocarcinoma: Based on The Cancer Genome Atlas Database and Bioinformatics
Cited by: 9
Author(s): Bingnan Chen, Di Wang, Jiapo Li, Yue Hou, Chong Qiao
Software Mentions: 5
Published: almost 6 years ago

10.7554/eLife.47605

Toxoplasma gondii infection drives conversion of NK cells into ILC1-like cells
Cited by: 79
Author(s): Eugene Park, Sanket Patel, Qiuling Wang, Prabhakar S. Andhey, Konstantin Zaitsev, Sophia Porter, Maxwell Hershey, Michael D. Bern, Béatrice Plougastel-Douglas, Patrick L. Collins, Marco Colonna, Kenneth M. Murphy, Eugene M. Oltz, Maxim N. Artyomov, L. David Sibley, Wayne M. Yokoyama
Software Mentions: 5
Published: about 7 years ago

10.1186/s12967-020-02503-9

Genomic landscape of the immune microenvironments of brain metastases in breast cancer
Cited by: 11
Author(s): Wei-Cheng Lu, Hui Xie, Ce Yuan, Jinjiang Li, Zhaoyang Li, Andrew Wu
Software Mentions: 5
Published: about 6 years ago

10.3389/fonc.2021.639059

Characterization of Immune Infiltration and Construction of a Prediction Model for Overall Survival in Melanoma Patients
Cited by: 5
Author(s): Gang Li, Xuran Zhu, Chao Liu
Software Mentions: 5
Published: over 5 years ago

10.1186/s12864-016-3283-0

Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland
Cited by: 25
Author(s): Irina Matetovici, Guy Caljon, Jan Van Den Abbeele
Software Mentions: 5
Published: almost 10 years ago

10.1186/s12967-021-02716-6

The potential role of chemotaxis and the complement system in the formation and progression of thoracic aortic aneurysms inferred from the weighted gene coexpression network analysis
Cited by: 5
Author(s): Chuxiang Lei, Dan Yang, Wenlin Chen, Haoxuan Kan, Feifei Xu, Hui Zhang, Wei Wang, Lei Ji, Yuehong Zheng
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.11433

Analysis of multi-omics differences in left-side and right-side colon cancer
Cited by: 7
Author(s): Yanyi Huang, Jinzhong Duanmu, Yushu Liu, Mengyun Yan, Taiyuan Li, Qunguang Jiang
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2021.663556

Identification of a Three-RNA Binding Proteins (RBPs) Signature Predicting Prognosis for Breast Cancer
Cited by: 14
Author(s): Yang Liu, Hefen Sun, Xuan Li, Qiqi Liu, Yuanyuan Zhao, Liangdong Li, Baojin Xu, Yifeng Hou, Wei Jin
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2021.592107

Identification of Expression Patterns and Potential Prognostic Significance of m5C-Related Regulators in Head and Neck Squamous Cell Carcinoma
Cited by: 11
Author(s): Zhaolong Han, Biao Yang, Yu Wang, Xiuxia Zeng, Zhen Tian
Software Mentions: 5
Published: over 5 years ago

10.1155/2020/2514230

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

10.3389/fgene.2019.00689

Transcription Profiling of Monocyte-Derived Macrophages Infected In Vitro With Two Strains of Streptococcus agalactiae Reveals Candidate Pathways Affecting Subclinical Mastitis in Cattle
Cited by: 6
Author(s): Anna Lewandowska-Sabat, Е. В. Кирсанова, Christophe Klopp, T. R. Solberg, B. Heringstad, Olav Østerås, Preben Boysen, I. Olsaker
Software Mentions: 5
Published: about 7 years ago

10.1155/2020/1980921

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

10.1371/journal.pone.0174461

Abnormal expression of mRNA, microRNA alteration and aberrant DNA methylation patterns in rectal adenocarcinoma
Cited by: 21
Author(s): Hua Yang, Xiukun Ma, Xianglong Liu, Xia Yuan, Hai Qin, Xipeng Zhang
Software Mentions: 5
Published: over 9 years ago

10.7554/eLife.58533

A new role for histone demethylases in the maintenance of plant genome integrity
Cited by: 28
Author(s): Javier Antunez-Sanchez, Matthew Naish, Juan S. Ramirez-Prado, Sho Ohno, Ying Huang, Alexander Dawson, Korawit Opassathian, Deborah Manza‐Mianza, Federico Ariel, Cécile Raynaud, Anjar Tri Wibowo, Josquin Daron, Minako Ueda, David Latrasse, R. Keith Slotkin, Detlef Weigel, Moussa Benhamed, José Gutierrez-Marcos
Software Mentions: 5
Published: almost 6 years ago

10.3389/fgene.2021.670746

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

10.7717/peerj.12125

Identification of immune related cells and crucial genes in the peripheral blood of ankylosing spondylitis by integrated bioinformatics analysis
Cited by: 12
Author(s): Yang Zheng, Bingbing Cai, Conglin Ren, Haipeng Xu, Weibin Du, Yinglong Wu, Fei-Jan Lin, Helou Zhang, Renfu Quan
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.8390

Identification of key biomarkers and immune infiltration in the synovial tissue of osteoarthritis by bioinformatics analysis
Cited by: 46
Author(s): Weisong Cai, Haohuan Li, Yubiao Zhang, Guoge Han
Software Mentions: 5
Published: almost 7 years ago

10.7554/eLife.42819

Shank3 modulates sleep and expression of circadian transcription factors
Cited by: 56
Author(s): Ashley M Ingiosi, Hannah Schoch, Taylor Wintler, Kristan G. Singletary, Dario Righelli, Leandro Gabriel Roser, E Medina, Davide Risso, Marcos G. Frank, Lucı́a Peixoto
Software Mentions: 5
Published: over 7 years ago

10.1155/2020/6034670

Bioinformatics Analysis to Screen the Key Prognostic Genes in Tumor Microenvironment of Bladder Cancer
Cited by: 6
Author(s): Zhao Zhang, Dongshan Chen, Zeyan Li, Zhao Liu, Lei Yan, Zhonghua Xu
Software Mentions: 5
Published: over 6 years ago

10.3389/fendo.2021.632492

Decreased Treg Cell and TCR Expansion Are Involved in Long-Lasting Graves’ Disease
Cited by: 7
Author(s): Ziyi Chen, Yufeng Liu, Shiqian Hu, Meng Zhang, Bingyin Shi, Yue Wang
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.9174

Identification of potential biomarkers and their clinical significance in gastric cancer using bioinformatics analysis methods
Cited by: 4
Author(s): Jie Liu, Miao Zhou, Yangyang Ouyang, Laifeng Du, Lingbo Xu, Hongyun Liu
Software Mentions: 5
Published: over 6 years ago

10.3389/fgene.2019.00356

Simplicity DiffExpress: A Bespoke Cloud-Based Interface for RNA-seq Differential Expression Modeling and Analysis
Cited by: 1
Author(s): Cintia Palu, Marcelo Ribeiro-Alves, Yanxin Wu, Brendan Lawlor, Pavel V. Baranov, Brian Kelly, Paul Walsh
Software Mentions: 5
Published: over 7 years ago

10.3389/fonc.2021.745166

A Co-Expression Network Reveals the Potential Regulatory Mechanism of lncRNAs in Relapsed Hepatocellular Carcinoma
Cited by: 6
Author(s): Yuan Fang, Yang Yang, Xiaoli Zhang, Na Li, Bo Yuan, Li Jin, Sheng Bao, Mengge Li, Dan Zhao, Lingrui Li, Zhong Zeng, Hanfei Huang
Software Mentions: 5
Published: about 5 years ago

10.7554/eLife.37816

Antibiotic-induced acceleration of type 1 diabetes alters maturation of innate intestinal immunity
Cited by: 65
Author(s): Xue Song Zhang, Jackie Li, Kimberly A. Krautkramer, Michelle Badri, Thomas Battaglia, Timothy C. Borbet, Hyunwook Koh, Sandy Ng, Rachel A Sibley, Yuanyuan Li, Wimal Pathmasiri, Jindal Sk, Robin R. Shields-Cutler, Ben Hillmann, Gabriel A. Al‐Ghalith, Victoria Ruiz, Alexandra E. Livanos, Angélique B. van’t Wout, Nabeetha A. Nagalingam, Arlin B. Rogers, Susan Sumner, Dan Knights, John M. Denu, Huilin Li, Kelly V. Ruggles, Richard Bonneau, R. Anthony Williamson, Marcus Rauch, Martin J. Blaser
Software Mentions: 5
Published: about 8 years ago

10.1155/2021/5320941

COL1A1 Is a Potential Prognostic Biomarker and Correlated with Immune Infiltration in Mesothelioma
Cited by: 13
Author(s): Cangang Zhang, Shanshan Liu, Xin Wang, Haiyan Liu, Xiaobo Zhou, Haibo Li
Software Mentions: 5
Published: almost 6 years ago

10.7717/peerj.8172

Exploring profile and potential influencers of vaginal microbiome among asymptomatic pregnant Chinese women
Cited by: 10
Author(s): Yining He, Yun Huang, Zhengyin Zhang, Fei Yu, Yuejie Zheng
Software Mentions: 5
Published: almost 7 years ago

10.1038/s41389-020-0224-1

Desmoplastic small round cell tumor is dependent on the EWS-WT1 transcription factor
Cited by: 24
Author(s): Jenna M. Gedminas, Maggie H. Chassé, Mitchell McBrairty, Ian Beddows, Susan M. Kitchen-Goosen, Patrick J. Grohar
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.11494

The landscape of tumors-infiltrate immune cells in papillary thyroid carcinoma and its prognostic value
Cited by: 2
Author(s): Yanyi Huang, Tao Yi, Yushu Liu, Mengyun Yan, Xinli Peng, Yunxia Lv
Software Mentions: 5
Published: over 5 years ago

10.1155/2020/7082408

Identification and Validation of an Individualized EMT-Related Prognostic Risk Score Formula in Gastric Adenocarcinoma Patients
Cited by: 13
Author(s): Deyu Zhang, Siran Zhou, Bing-Rong Liu
Software Mentions: 5
Published: over 6 years ago

10.3389/fonc.2021.621430

Identification of Hub Genes Associated With Melanoma Development by Comprehensive Bioinformatics Analysis
Cited by: 8
Author(s): Jie Jiang, Chong Liu, Guoyong Xu, Tuo Liang, Chaojie Yu, Shijie Liao, Zide Zhang, Zhaojun Lu, Zequn Wang, Jiarui Chen, Tianyou Chen, Hao Li, Xinli Zhan
Software Mentions: 5
Published: over 5 years ago

10.3390/ijerph18062832

Impact of Covid-19 Lockdown on Availability of Drinking Water in the Arsenic-Affected Ganges River Basin
Cited by: 17
Author(s): Srimanti Duttagupta, Soumendra N. Bhanja, Avishek Dutta, S. Sarkar, M. Chakraborty, Ashok Ghosh, Debapriya Mondal, Abhijit Mukherjee
Software Mentions: 5
Published: over 5 years ago

10.1155/2020/3165958

Genome-Wide Analysis, Characterization, and Expression Profile of the Basic Leucine Zipper Transcription Factor Family in Pineapple
Cited by: 6
Author(s): Qing Liu, Mengnan Chai, Man Zhang, Qing-Yu He, Zhenxia Su, S. V. G. N. Priyadarshani, Liping Liu, Guanxi Dong, Yuan Qin
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.8317

Alteration of the gut microbiota associated with childhood obesity by 16S rRNA gene sequencing
Cited by: 65
Author(s): Xiaowei Chen, Haixiang Sun, Fei Jiang, Yan Shen, Xin Li, HU Xue-ju, Xiao-Min Shen, Pingmin Wei
Software Mentions: 5
Published: almost 7 years ago

10.7150/ijms.39056

Identification of gene expression profiles and immune cell infiltration signatures between low and high tumor mutation burden groups in bladder cancer
Cited by: 33
Author(s): Zonglong Wu, Mu-Ru Wang, Qinggang Liu, Yaxiao Liu, Ke-Cheng Zhu, Lipeng Chen, Hongda Guo, Yan Li, Benkang Shi
Software Mentions: 5
Published: almost 7 years ago

10.1155/2020/3598417

Effect of BRCA1 on the Concurrent Chemoradiotherapy Resistance of Cervical Squamous Cell Carcinoma Based on Transcriptome Sequencing Analysis
Cited by: 13
Author(s): Xin Wen, Lingling Shui, Manhua Cui
Software Mentions: 5
Published: over 6 years ago

10.1186/s12864-021-07924-4

Transcriptomic analysis to elucidate the effects of high stocking density on grass carp (Ctenopharyngodon idella)
Cited by: 10
Author(s): Yan He, Hongyan Yu, Hongling Zhao, Hua Zhu, Qingjing Zhang, Anqi Wang, Yubang Shen, Xiaoyan Xu, Jiale Li
Software Mentions: 5
Published: about 5 years ago

10.3389/fncir.2019.00032

A Novel Type of Neuron Within the Dorsal Striatum
Cited by: 16
Author(s): Miaomiao Mao, Aditya Nair, George J Augustine
Software Mentions: 5
Published: over 7 years ago

10.7150/ijbs.51207

Development of a novel immune-related lncRNA signature as a prognostic classifier for endometrial carcinoma
Cited by: 25
Author(s): Jinhui Liu, Jie Mei, Yichun Wang, Xucheng Chen, Jiadong Pan, Laigen Tong, Yan Zhang
Software Mentions: 5
Published: almost 6 years ago

10.3390/pathogens10010041

Extensive Phylogenetic Analysis of Piscine Orthoreovirus Genomic Sequences Shows the Robustness of Subgenotype Classification
Cited by: 5
Author(s): Marcos Godoy, Daniel A. Medina, Rudy Suárez, Sandro L. Valenzuela, Jaime Romero, Molly J. T. Kibenge, Yingwei Wang, Frederick S. B. Kibenge
Software Mentions: 5
Published: almost 6 years ago

10.18632/aging.202559

Infertility network and hub genes for nonobstructive azoospermia utilizing integrative analysis
Cited by: 6
Author(s): Baoquan Han, Zihui Yan, Shuai Yu, Wei Ge, Yaqi Li, Yan Wang, Bo Yang, Wei Shen, Hui Jiang, Zhongyi Sun
Software Mentions: 5
Published: over 5 years ago

10.1155/2020/9493256

Identification of CPT1A as a Prognostic Biomarker and Potential Therapeutic Target for Kidney Renal Clear Cell Carcinoma and Establishment of a Risk Signature of CPT1A-Related Genes
Cited by: 5
Author(s): Yingkun Xu, Guangzhen Wu, Xue Ma, Jianyi Li, Ningke Ruan, Zhe Zhang, Yalei Cao, Yougen Chen, Qi Zhang, Qinghua Xia
Software Mentions: 5
Published: almost 7 years ago

10.1186/s13071-020-04424-4

Molecular signatures of the rediae, cercariae and adult stages in the complex life cycles of parasitic flatworms (Digenea: Psilostomatidae)
Cited by: 3
Author(s): Maksim A. Nesterenko, Viktor V. Starunov, Sergei V. Shchenkov, Anna R. Maslova, Sofia Denisova, Andrey I. Granovich, Andrej A. Dobrovolskij, Konstantin Khalturin
Software Mentions: 5
Published: almost 6 years ago

10.3389/fmolb.2020.576298

Identification of Immune-Related Genes MSR1 and TLR7 in Relation to Macrophage and Type-2 T-Helper Cells in Osteosarcoma Tumor Micro-Environments as Anti-metastasis Signatures
Cited by: 10
Author(s): Zhiyu Chen, Huanhuan Huang, Yang Wang, Fangbiao Zhan, Zhengxue Quan
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12957-021-02367-3

Comprehensive analysis of angiogenesis subtype of squamous cell carcinoma
Cited by: 3
Author(s): Fanglu Qin, Sheng-hua Lin, Kun Deng, Junqi Qin, Zhanyu Xu, Liqiang Yuan, Jiangbo Wei, Yu Sun, Tiaozhan Zheng, Shikang Li
Software Mentions: 5
Published: about 5 years ago

10.18632/aging.103399

Changes of saliva microbiota in the onset and after the treatment of diabetes in patients with periodontitis
Cited by: 27
Author(s): Yang Ying, Shili Liu, Yihua Wang, Zhibin Wang, Wei Ding, Xiaoyuan Sun, Kunlun He, Qiang Feng, Xiandang Zhang
Software Mentions: 5
Published: over 6 years ago

10.1128/mSphere.00308-21

Covariation of the Fecal Microbiome with Diet in Nonpasserine Birds
Cited by: 17
Author(s): Kangpeng Xiao, Yutan Fan, Zhipeng Zhang, Xuejuan Shen, Xiaobing Li, Xianghui Liang, Ran Bi, Yuling Wu, Junqiong Zhai, Jun-Wei Dai, David M. Irwin, Chen Wu, Yongyi Shen
Software Mentions: 5
Published: over 5 years ago

10.12688/wellcomeopenres.11253.2

A genomic atlas of human adrenal and gonad development
Cited by: 46
Author(s): Ignacio del Valle, Federica Buonocore, Andrew Duncan, Lin Lin, Martino Barenco, Rahul Parnaik, Sonia Shah, Michael Hubank, Dianne Gerrelli, John C. Achermann
Software Mentions: 5
Published: almost 9 years ago

10.1128/mBio.03551-20

The Termite Fungal Cultivar Termitomyces Combines Diverse Enzymes and Oxidative Reactions for Plant Biomass Conversion
Cited by: 13
Author(s): Felix Schalk, Cene Gostinčar, Nina B. Kreuzenbeck, Benjamin H. Conlon, Elisabeth Sommerwerk, Patrick Rabe, Immo Burkhardt, Thomas Krüger, Olaf Kniemeyer, Axel A. Brakhage, Nina Gunde‐Cimerman, Z. Wilhelm de Beer, Jeroen S. Dickschat, Michael Poulsen, Christine Beemelmanns
Software Mentions: 5
Published: over 5 years ago

10.1101/2020.09.16.20196154

SARS-CoV-2 antibody signatures robustly predict diverse antiviral functions relevant for convalescent plasma therapy
Cited by: 20
Author(s): Harini Natarajan, Andrew R. Crowley, Savannah E. Butler, Shiwei Xu, Joshua A. Weiner, Evan M. Bloch, Kirsten Littlefield, Wendy Wieland-Alter, Ruth I. Connor, Peter F. Wright, Sarah E. Benner, Tania S. Bonny, Oliver Laeyendecker, David J. Sullivan, Shmuel Shoham, Thomas C. Quinn, H. Benjamin Larman, Arturo Casadevall, Andrew Pekosz, Andrew D. Redd, Aaron A.R. Tobian, Margaret E. Ackerman
Software Mentions: 5
Published: about 6 years ago

10.7150/ijbs.45693

Cancer stem cell property and gene signature in bone-metastatic Breast Cancer cells
Cited by: 7
Author(s): An Luo, Yue Xu, Shujun Li, Jinxia Bao, Jianrong Lu, Nan Ding, Qian Zhao, Yuting Fu, Fei Liu, William C. Cho, Xunbin Wei, Haiyun Wang, Zuoren Yu
Software Mentions: 5
Published: almost 7 years ago

10.3389/fmicb.2019.01116

Dynamic Alterations in Yak Rumen Bacteria Community and Metabolome Characteristics in Response to Feed Type
Cited by: 116
Author(s): Chang Liu, Hao Wu, Shujie Liu, Shatuo Chai, Qingxiang Meng, Zhenming Zhou
Software Mentions: 5
Published: over 7 years ago

10.1128/mBio.00765-21

Markers of Polyfunctional SARS-CoV-2 Antibodies in Convalescent Plasma
Cited by: 51
Author(s): Harini Natarajan, Andrew R. Crowley, Savannah E. Butler, Shiwei Xu, Joshua A. Weiner, Evan M. Bloch, Kirsten Littlefield, Wendy Wieland-Alter, Ruth I. Connor, Peter F. Wright, Sarah E. Benner, Tania S. Bonny, Oliver Laeyendecker, David J. Sullivan, Shmuel Shoham, Thomas C. Quinn, H. Benjamin Larman, Arturo Casadevall, Andrew Pekosz, Andrew D. Redd, Aaron A.R. Tobian, Margaret E. Ackerman
Software Mentions: 5
Published: over 5 years ago

10.1155/2021/9954370

Identification of the Ferroptosis-Associated Gene Signature to Predict the Prognostic Status of Endometrial Carcinoma Patients
Cited by: 5
Author(s): Jinlong Qin, Xiaowen Shao, Lei Wu, Hongling Du
Software Mentions: 5
Published: about 5 years ago

10.1155/2019/2506843

Deciphering Immune-Associated Genes to Predict Survival in Clear Cell Renal Cell Cancer
Cited by: 30
Author(s): Daixing Hu, Mi Zhou, Xin Zhu
Software Mentions: 5
Published: almost 7 years ago

10.1155/2021/7922594

Identification of the Molecular Subgroups in Idiopathic Pulmonary Fibrosis by Gene Expression Profiles
Cited by: 4
Author(s): Ning Zhang, Yubiao Guo, Cong Wu, Bohan Jiang, Yuguang Wang
Software Mentions: 5
Published: about 5 years ago

10.1155/2020/7575862

Coexpression Network Analysis of Genes Related to the Characteristics of Tumor Stemness in Triple-Negative Breast Cancer
Cited by: 11
Author(s): Huandan Suo, Tao Zuo, Lei Zhang, Zining Jin, Xiaoying Li, Wei Ma, Zhen Wang, Yue Qiu, Feng Jin, Bin Chen, Yu Cao
Software Mentions: 5
Published: over 6 years ago

10.1038/s42003-020-01620-x

RNA editing enzyme APOBEC3A promotes pro-inflammatory M1 macrophage polarization
Cited by: 20
Author(s): Emad Alqassim, Shraddha Sharma, Aalia Khan, Tiffany R. Emmons, Eduardo Cortes Gomez, Abdulrahman A. Alahmari, Kelly L. Singel, Jaron Mark, Bruce A. Davidson, AJ Robert McGray, Qian Liu, Brian D. Lichty, Kirsten B. Moysich, Jianmin Wang, Kunle Odunsi, Brahm H. Segal, Bora E. Baysal
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2018.02212

A Class 1 Histone Deacetylase as Major Regulator of Secondary Metabolite Production in Aspergillus nidulans
Cited by: 29
Author(s): Angelo Pidroni, Birgit Faber, Gerald Brosch, Ingo Bauer, Stefan Graessle
Software Mentions: 5
Published: about 8 years ago

10.3390/biology10010039

Role of Transportome in the Gills of Chinese Mitten Crabs in Response to Salinity Change: A Meta-Analysis of RNA-Seq Datasets
Cited by: 11
Author(s): Adeel Malik, Chang-Bae Kim
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0248650

Elucidating the immune infiltration in acne and its comparison with rosacea by integrated bioinformatics analysis
Cited by: 14
Author(s): Lu Yang, Yanhong Shou, Yue Yang, Jianhua Xu
Software Mentions: 5
Published: over 5 years ago

Projects: cran: pheatmap

Science Score: 75/100

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Papers Mentioning pheatmap 2,572