bioconductor: clusterProfiler | Projects

10.3389/fonc.2020.01300

A Prognostic Nomogram Combining Immune-Related Gene Signature and Clinical Factors Predicts Survival in Patients With Lung Adenocarcinoma
Cited by: 50
Author(s): Congkuan Song, Zixin Guo, Donghu Yu, Yujin Wang, Qingwen Wang, Zhe Dong, Weidong Hu
Software Mentions: 5
Published: over 4 years ago

10.3390/genes10030212

RNA Sequencing Reveals Specific Transcriptomic Signatures Distinguishing Effects of the [SWI+] Prion and SWI1 Deletion in Yeast Saccharomyces cerevisiae
Cited by: 11
Author(s): Yury V. Malovichko, Kirill S. Antonets, Anna R. Maslova, Е. А. Андреева, Sergey G. Inge-Vechtomov, Anton A. Nizhnikov
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2021.632571

Prediction of Biochemical Recurrence-Free Survival of Prostate Cancer Patients Leveraging Multiple Gene Expression Profiles in Tumor Microenvironment
Cited by: 10
Author(s): Rui Zhou, Yuanfa Feng, Jian‐Heng Ye, Zhengxue Han, Yu‐Xiang Liang, Qing-Biao Chen, Xiaoming Xu, Yuhan Huang, Zhenyu Jia, Weide Zhong
Software Mentions: 5
Published: about 3 years ago

10.1534/g3.119.400986

Adaptation to Industrial Stressors Through Genomic and Transcriptional Plasticity in a Bioethanol Producing Fission Yeast Isolate
Cited by: 1
Author(s): Dane Vassiliadis, Koon Ho Wong, Jo Anne Blinco, Geoff Dumsday, Alex Andrianopoulos, Brendon J. Monahan
Software Mentions: 5
Published: over 4 years ago

10.1186/s13148-019-0769-z

DNA methylation associated with postpartum depressive symptoms overlaps findings from a genome-wide association meta-analysis of depression
Cited by: 6
Author(s): Dana M. Lapato, Roxann Roberson‐Nay, Robert M. Kirkpatrick, Bradley T. Webb, Timothy P. York, Patricia A. Kinser
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2021.653209

Exploring the Imbalance of Periodontitis Immune System From the Cellular to Molecular Level
Cited by: 11
Author(s): Long-Fei He, Lijuan Liu, Ti Li, Deshu Zhuang, Jiayin Dai, Bo Wang, Liangjia Bi
Software Mentions: 5
Published: over 3 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 4 years ago

10.3390/ijms21051894

The Polymorphic PolyQ Tail Protein of the Mediator Complex, Med15, Regulates the Variable Response to Diverse Stresses
Cited by: 7
Author(s): Gallagher Jeg, Ser Sl, Michael C. Ayers, C Nassif, Amaury Pupo
Software Mentions: 5
Published: over 4 years ago

10.3389/fphys.2019.00278

Weighted Gene Co-expression Network Analysis for RNA-Sequencing Data of the Varicose Veins Transcriptome
Cited by: 14
Author(s): Jianbin Zhang, Qiangqiang Nie, Chaozeng Si, Wang Cheng, Yang Chen, Weiliang Sun, Pei Lin, Jing Guo, Jie Kong, Yiyao Cui, Feng Wang, Xueqiang Fan, Zhidong Ye, Jianyan Wen, Peng Liu
Software Mentions: 5
Published: over 5 years ago

10.1073/pnas.2100920118

Single-cell sequencing reveals suppressive transcriptional programs regulated by MIS/AMH in neonatal ovaries
Cited by: 23
Author(s): Marie-Charlotte Meinsohn, Hatice D. Saatcioglu, Lina Wei, Yang Li, Heiko Horn, Maëva Chauvin, Mariko Kano, Ngoc Minh Nguyen, Nicholas Nagykery, A Kashiwagi, Wesley Samore, Dan Wang, Esther Oliva, Guangping Gao, Mary E. Morris, Patricia K. Donahoe, David Pépin
Software Mentions: 5
Published: over 3 years ago

10.3389/fgene.2021.622683

Bioinformatics Analysis Identifies Molecular Markers Regulating Development and Progression of Endometriosis and Potential Therapeutic Drugs
Cited by: 7
Author(s): Ying Peng, Cheng Peng, Fang Zheng, Gang Chen
Software Mentions: 5
Published: over 3 years ago

10.3389/fgene.2020.522383

Survival-Associated Alternative Splicing Events and Prognostic Signatures in Pancreatic Cancer
Cited by: 5
Author(s): Lichao Xu, Jianji Pan, Yanni Ding, Hongda Pan
Software Mentions: 5
Published: about 4 years ago

10.3389/fgene.2021.722803

Identification of Potential Biomarkers for Psoriasis by DNA Methylation and Gene Expression Datasets
Cited by: 9
Author(s): Yong Liu, Shengnan Cui, Jiayi Sun, Xin Yan, Dongran Han
Software Mentions: 5
Published: about 3 years ago

10.3389/fphys.2019.01305

The Regulation of Ruminal Short-Chain Fatty Acids on the Functions of Rumen Barriers
Cited by: 28
Author(s): Hong Shen, Zhihui Xu, Zanming Shen, Zhongyan Lu
Software Mentions: 5
Published: about 5 years ago

10.15252/emmm.202012461

Combination therapies induce cancer cell death through the integrated stress response and disturbed pyrimidine metabolism
Cited by: 12
Author(s): Goetz Hartleben, Kenji Schorpp, Yongseok Kwon, Barbara Betz, Foivos-Filippos Tsokanos, Zahra Dantes, A Schäfer, Ina Rothenaigner, José Manuel Monroy Kuhn, Pauline Morigny, Lisa Mehr, Sean Lin, Susanne Seitz, Janina Tokarz, Anna Artati, Jerzy Adamsky, Oliver Plettenburg, Dominik Lutter, Martin Irmler, Johannes Beckers, Maximilian Reichert, Kamyar Hadian, Anja Zeigerer, Stephan Herzig, Mauricio Berriel Díaz
Software Mentions: 5
Published: over 3 years ago

10.3389/fgene.2020.00988

Identification of Candidate Biomarkers for Salt Sensitivity of Blood Pressure by Integrated Bioinformatics Analysis
Cited by: 3
Author(s): Chen Chen, Guanzhi Liu, Yue‐Yuan Liao, Chao Chu, Wenfang Zheng, Yang Wang, Jiawen Hu, Qiang Ma, Keke Wang, Yan Yu, Yue Yuan, Jianjun Mu
Software Mentions: 5
Published: about 4 years ago

10.1038/s41598-019-48435-3

Reconstruction of the lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveal functional lncRNAs in Cerebral Infarction
Cited by: 22
Author(s): Junbo Zou, Herzl Chai, Xiaofei Zhang, Deliang Guo, Jia Tai, Yu Wang, Yulin Liang, Fang Wang, Jiangxue Cheng, Jing Wang, Yajun Shi
Software Mentions: 5
Published: over 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 4 years ago

10.12688/f1000research.18705.2

Analysis of correlation-based biomolecular networks from different omics data by fitting stochastic block models
Cited by: 1
Author(s): Katharina Baum, Jagath C. Rajapakse, Francisco Azuaje
Software Mentions: 5
Published: about 5 years ago

10.3389/fphar.2021.616529

Systematic Investigation of DNA Methylation Associated With Platinum Chemotherapy Resistance Across 13 Cancer Types
Cited by: 4
Author(s): Ruizheng Sun, Chao Du, Jiaxin Li, Yanhong Zhou, Xiong Wang, Juanjuan Xiang, Jiheng Liu, Zhifeng Xiao, Fang Li, Li Zheng
Software Mentions: 5
Published: over 3 years ago

10.15252/embj.2020105479

Repression of Irs2 by let‐7 mi <scp>RNA</scp> s is essential for homeostasis of the telencephalic neuroepithelium
Cited by: 9
Author(s): Virgínia Fernández, Maria Ángeles Martínez-Martinez, Anna Prieto-Colomina, Adrián Cárdenas, Rafael Soler, Martina Dori, Ugo Tomasello, Yuki Nomura, José P. López‐Atalaya, Federico Calegari, Vı́ctor Borrell
Software Mentions: 5
Published: about 4 years ago

10.3390/ijms21020471

The Influence of Met Receptor Level on HGF-Induced Glycolytic Reprogramming in Head and Neck Squamous Cell Carcinoma
Cited by: 17
Author(s): Verena Boschert, Nicola Klenk, Alexander Abt, Sudha Janaki Raman, Markus Fischer, Roman C. Brands, Axel Seher, Christian Linz, Urs Müller‐Richter, Thorsten Bischler, Stefan Hartmann
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2020.00505

Analysis of Circular RNA-Related Competing Endogenous RNA Identifies the Immune-Related Risk Signature for Colorectal Cancer
Cited by: 16
Author(s): Wei Song, Jun Ren, Chuntao Wang, Yuhang Ge, Tao Fu
Software Mentions: 5
Published: over 4 years ago

10.1242/dmm.040147

Dynamic MAPK signaling activity underlies a transition from growth arrest to proliferation in <i>Drosophila scribble</i> mutant tumors
Cited by: 17
Author(s): Tiantian Ji, Lina Zhang, Mingxi Deng, Shan Huang, Jiguang Wang, Tri Pham, Andrew A. Smith, Varun Sridhar, Clemens Cabernard, Yan Yan
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-018-34160-w

Transcriptomic and functional network features of lung squamous cell carcinoma through integrative analysis of GEO and TCGA data
Cited by: 72
Author(s): Yin Li, Jie Gu, Fan Xu, Qinqing Zhu, Di Ge
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2020.00333

Transcription Factor Profiling to Predict Recurrence-Free Survival in Breast Cancer: Development and Validation of a Nomogram to Optimize Clinical Management
Cited by: 8
Author(s): Hengyu Chen, Xianxiong Ma, Ming Yang, Mengyi Wang, Lei Li, Tao Huang
Software Mentions: 5
Published: over 4 years ago

10.3390/ijms21239169

Development and Validation of a Novel 11-Gene Prognostic Model for Serous Ovarian Carcinomas Based on Lipid Metabolism Expression Profile
Cited by: 28
Author(s): Mingjun Zheng, Heather Mullikin, Anna Hester, Bastian Czogalla, H Heidegger, Theresa� Vilsmaier, Aurelia Vattai, Anca Chelariu-Raicu, Udo Jeschke, Fabian Trillsch, Sven Mahner, Till Kaltofen
Software Mentions: 5
Published: almost 4 years ago

10.3389/fgene.2021.697819

A Novel Inflammatory lncRNAs Prognostic Signature for Predicting the Prognosis of Low-Grade Glioma Patients
Cited by: 5
Author(s): Zijin Xiang, Xueru Chen, Qiao‐Li Lv, Xiangdong Peng
Software Mentions: 5
Published: over 3 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 3 years ago

10.18632/oncotarget.23563

Effect of the diet type and temperature on the<i>C. elegans</i>transcriptome
Cited by: 37
Author(s): Eva Gómez-Orte, Eric Cornes, Angelina Zheleva, Beatriz Sáenz-Narciso, María de Toro, María Íñiguez, Rosa López, Juan F. San-Juan, Begoña Ezcurra, Begoña Sacristán, Adolfo Sánchez-Blanco, Julián Cerón, Juan Cabello
Software Mentions: 5
Published: almost 7 years ago

10.1155/2020/3761535

Clinical and Survival Impact of Sex-Determining Region Y-Box 2 in Colorectal Cancer: An Integrated Analysis of the Immunohistochemical Study and Bioinformatics Analysis
Cited by: 4
Author(s): Kun Song, Jingduo Hao, Zuyin Ge, Pushi Chen
Software Mentions: 5
Published: almost 5 years ago

10.1155/2021/5574150

Identifying Prognostic Significance of RCL1 and Four-Gene Signature as Novel Potential Biomarkers in HCC Patients
Cited by: 5
Author(s): Jun Liu, Shan-Qiang Zhang, Jing Chen, Zhibin Li, Qingming Lu, Yu-Shuai Han, Wenjie Dai, Chengyu Xie, Jicheng Li
Software Mentions: 5
Published: over 3 years ago

10.1155/2021/8895723

Identification and Construction of a Long Noncoding RNA Prognostic Risk Model for Stomach Adenocarcinoma Patients
Cited by: 14
Author(s): Zhiqiang Zha, Peiling Zhang, Dailing Li, Guolong Liu, Lin Lü
Software Mentions: 5
Published: almost 4 years ago

10.3389/fgene.2019.00684

Increase in DNA Damage by MYCN Knockdown Through Regulating Nucleosome Organization and Chromatin State in Neuroblastoma
Cited by: 3
Author(s): Xinjie Hu, Weisheng Zheng, Qianshu Zhu, Liang Gu, Yanhua Du, Zhe Han, Xiaobai Zhang, Daniel Carter, Belamy B. Cheung, Andong Qiu, Cizhong Jiang
Software Mentions: 5
Published: over 5 years ago

10.3390/ijms20236098

RankerGUI: A Computational Framework to Compare Differential Gene Expression Profiles Using Rank Based Statistics
Cited by: 5
Author(s): Amarinder Singh Thind, Kumar Parijat Tripathi, Mario Rosario Guarracino
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2021.721873

Screening of DNA Damage Repair Genes Involved in the Prognosis of Triple-Negative Breast Cancer Patients Based on Bioinformatics
Cited by: 4
Author(s): Nan Wang, Yuanting Gu, Jiangrui Chi, Xinwei Li, Youyi Xiong, Chaochao Zhong, Fang Wang, Xinxing Wang, Lin Li
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-021-81472-5

Drosophila Hox genes induce melanized pseudo-tumors when misexpressed in hemocytes
Cited by: 6
Author(s): Titus Ponrathnam, Ravina Saini, Sofia Banu, Rakesh Mishra
Software Mentions: 5
Published: almost 4 years ago

10.3390/curroncol28040214

Targeted Next-Generation Sequencing of Circulating Tumor DNA Mutations among Metastatic Breast Cancer Patients
Cited by: 1
Author(s): Ming Sun, Fangqin Lin, Lu-Jia Chen, Hong Li, Wei‐De Lin, Hongwu Du, Xiaobo Yang, Ming Li
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-020-66556-y

WNT and inflammatory signaling distinguish human Fallopian tube epithelial cell populations
Cited by: 9
Author(s): Ian M. Rose, Mallikarjun Bidarimath, Alex Webster, Andrew K. Godwin, Andrea Flesken‐Nikitin, Alexander Yu. Nikitin
Software Mentions: 4
Published: over 4 years ago

10.3389/fgene.2021.617350

ceRNA Network Analysis Shows That lncRNA CRNDE Promotes Progression of Glioblastoma Through Sponge mir-9-5p
Cited by: 15
Author(s): Xiaobin Luo, Tianqi Tu, Yali Zhong, Shangyi Xu, Xiangzhou Chen, Ligang Chen, Fubing Yang
Software Mentions: 4
Published: over 3 years ago

10.3390/ijms22052276

Time-Resolved scRNA-Seq Tracks the Adaptation of a Sensitive MCL Cell Line to Ibrutinib Treatment
Cited by: 4
Author(s): Viktoria Fuhr, Ehsan Vafadarnejad, Oliver Dietrich, Panagiota Arampatzi, Angela Riedel, Antoine‐Emmanuel Saliba, Andreas Rosenwald, Hilka Rauert-Wunderlich
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.634162

Significance of RNA N6-Methyladenosine Regulators in the Diagnosis and Subtype Classification of Childhood Asthma Using the Gene Expression Omnibus Database
Cited by: 32
Author(s): Bing Dai, Feifei Sun, Xuxu Cai, Chunlu Li, Henan Liu, Yunxiao Shang
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.00427

Bioinformatics Analysis Reveals Biomarkers With Cancer Stem Cell Characteristics in Lung Squamous Cell Carcinoma
Cited by: 38
Author(s): Yi Liao, Hua Xiao, Mengqing Cheng, Xiaoxuan Fan
Software Mentions: 4
Published: over 4 years ago

10.1530/REP-20-0231

Single cell transcriptome research in human placenta
Cited by: 38
Author(s): Hui Li, Qizhao Huang, Yu Liu, Lana X. Garmire
Software Mentions: 4
Published: almost 4 years ago

10.1186/s13048-017-0323-6

Bioinformatics analysis to screen the key prognostic genes in ovarian cancer
Cited by: 26
Author(s): Li Li, Shengyun Cai, Shengnan Liu, Hao Feng, Junjie Zhang
Software Mentions: 4
Published: over 7 years ago

10.3390/ijms22010275

The Proteomic Landscape of Resting and Activated CD4+ T Cells Reveal Insights into Cell Differentiation and Function
Cited by: 8
Author(s): Yashwanth Subbannayya, Markus Haug, Sneha M. Pinto, Varshasnata Mohanty, Hany Zakaria Meås, Trude Helen Flo, T. S. Keshava Prasad, Richard K. Kandasamy
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2019.00697

Cross-Species Gene Expression Analysis Reveals Gene Modules Implicated in Human Osteosarcoma
Cited by: 12
Author(s): Zheng Jin, Shanshan Liu, Pei‐Wen Zhu, Mengyan Tang, Yuanxin Wang, Yuan Tian, Li Dong, X. D. Zhu, Dongmei Yan, Zhifeng Zhu
Software Mentions: 4
Published: over 5 years ago

10.3389/fgene.2020.00877

Muscle Transcriptome Analysis Reveals Potential Candidate Genes and Pathways Affecting Intramuscular Fat Content in Pigs
Cited by: 25
Author(s): Xueyan Zhao, Hongmei Hu, Haichao Lin, Wang Cheng, Yanping Wang, Jiying Wang
Software Mentions: 4
Published: over 4 years ago

10.1186/s13148-021-01115-4

Combined prenatal Lactobacillus reuteri and ω-3 supplementation synergistically modulates DNA methylation in neonatal T helper cells
Cited by: 7
Author(s): Johanna Huoman, David Martínez-Enguita, Elin Olsson, Jan Ernerudh, Lennart Nilsson, Karel Duchén, Mika Gustafsson, Maria C. Jenmalm
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.673192

Immune and Metabolic Dysregulated Coding and Non-coding RNAs Reveal Survival Association in Uterine Corpus Endometrial Carcinoma
Cited by: 1
Author(s): Da Liu, Min Qiu
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.563954

Identification of Critical Genes and Proteins for Stent Restenosis Induced by Esophageal Benign Hyperplasia in Esophageal Cancer
Cited by: 4
Author(s): Li Weng, Shanshan Shen, Shaoqiu Wu, Xiaoxing Yin, Bingyan Liu, Ming Shang, Xiaoping Zou, Aiwu Mao
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2021.666371

A Novel Signature for Predicting Prognosis of Smoking-Related Squamous Cell Carcinoma
Cited by: 4
Author(s): Chang Chen, Xiaoqing Cheng, Shuyan Li, Huanghui Chen, Mengjing Cui, Linlin Bian, Hui Jin
Software Mentions: 4
Published: over 3 years ago

10.3390/ijms21041518

The Molecular Mechanism of Perillaldehyde Inducing Cell Death in Aspergillus flavus by Inhibiting Energy Metabolism Revealed by Transcriptome Sequencing
Cited by: 18
Author(s): Chao Pan, Yongxin Li, Kunlong Yang, Famous Erhunmwunsee, Yan Ma, Xiaona He, Qingru Geng, Man Liu, Jun Tian
Software Mentions: 4
Published: almost 5 years ago

10.3389/fgene.2020.613744

Integrated Weighted Gene Co-expression Network Analysis Identified That TLR2 and CD40 Are Related to Coronary Artery Disease
Cited by: 6
Author(s): Bin Qi, Jianhong Chen, Tao Lin, Chuan-Meng Zhu, Yong Wang, Guo-Xiong Deng, Miao Liu
Software Mentions: 4
Published: almost 4 years ago

10.3389/fgene.2021.671179

Significance of N6-Methyladenosine RNA Methylation Regulators in Immune Infiltrates of Ovarian Cancer
Cited by: 9
Author(s): Jing Gu, Fangfang Bi
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.00243

New Insights From Imputed Whole-Genome Sequence-Based Genome-Wide Association Analysis and Transcriptome Analysis: The Genetic Mechanisms Underlying Residual Feed Intake in Chickens
Cited by: 10
Author(s): Shaopan Ye, Zitao Chen, Rongrong Zheng, Shuqi Diao, Jinyan Teng, Xiaolong Yuan, Hao Zhang, Zanmou Chen, Xiquan Zhang, Jiaqi Li, Zhe Zhang
Software Mentions: 4
Published: over 4 years ago

10.21203/rs.3.rs-539712/v1

Plasma Proteomics of COVID-19 Associated Cardiovascular Complications: Implications for Pathophysiology and Therapeutics
Cited by: 2
Author(s): Jason D. Roh, Robert Kitchen, James S. Guseh, Jenna McNeill, Malika Aïd, Amanda J. Martinot, Andy Yu, Colin Platt, James Rhee, Brittany Weber, Lena Trager, Margaret H. Hastings, Sarah Ducat, Peng Xia, Claire Castro, Bjarni Atlason, Timothy W. Churchill, Marcelo Di Carli, Patrick T. Ellinor, Dan H. Barouch, Jennifer E. Ho, Anthony Rosenzweig
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2021.741608

Identification of Key Regulators of Hepatitis C Virus-Induced Hepatocellular Carcinoma by Integrating Whole-Genome and Transcriptome Sequencing Data
Cited by: 7
Author(s): L. Chen, Wei Zhang, Yiran Ben
Software Mentions: 4
Published: about 3 years ago

10.3389/fgene.2018.00412

Network, Transcriptomic and Genomic Features Differentiate Genes Relevant for Drug Response
Cited by: 14
Author(s): Janet Piñero, Abel González-Pérez, Emre Güney, Joaquim Aguirre‐Plans, Ferrán Sanz, Baldo Oliva, Laura I. Furlong
Software Mentions: 4
Published: about 6 years ago

10.1186/s12931-020-01544-4

Exploration of the sputum methylome and omics deconvolution by quadratic programming in molecular profiling of asthma and COPD: the road to sputum omics 2.0
Cited by: 6
Author(s): Espen E. Groth, Melanie Weber, Thomas Bahmer, Frauke Pedersen, Anne Kirsten, Daniela Börnigen, Klaus F. Rabe, Henrik Watz, Ole Ammerpohl, Torsten Goldmann
Software Mentions: 4
Published: about 4 years ago

10.3389/fgene.2021.599261

Network Analysis and Transcriptome Profiling Identify Autophagic and Mitochondrial Dysfunctions in SARS-CoV-2 Infection
Cited by: 53
Author(s): Komudi Singh, Yunching Chen, Shakiba Hassanzadeh, Han Kim, Jennifer Judy, Fayaz Seifuddin, Ilker Tunc, Michael N. Sack, Mehdi Pirooznia
Software Mentions: 4
Published: over 3 years ago

10.1155/2019/1785042

Low GAS5 Levels as a Predictor of Poor Survival in Patients with Lower-Grade Gliomas
Cited by: 18
Author(s): Yanfang Wang, Xin Shan, Kai Zhang, Run Shi, Xuanwen Bao
Software Mentions: 4
Published: almost 6 years ago

10.3389/fgene.2021.680369

Identification of MX2 as a Novel Prognostic Biomarker for Sunitinib Resistance in Clear Cell Renal Cell Carcinoma
Cited by: 27
Author(s): Yuang Wei, Xinglin Chen, Xiaohan Ren, Bao Wang, Qian Zhang, Hengtao Bu, Ji Qian, Pengfei Shao
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.584624

Development and Validation of an RNA-Binding Protein-Based Prognostic Model for Ovarian Serous Cystadenocarcinoma
Cited by: 1
Author(s): Yunan He, Sen Zeng, Shunjie Hu, Fengqian Zhang, Nianchun Shan
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-020-61273-y

Comprehensive transcriptome profiling of Taiwanese colorectal cancer implicates an ethnic basis for pathogenesis
Cited by: 8
Author(s): Shao‐Min Wu, Wen‐Sy Tsai, Sum-Fu Chiang, Yi-Hsuan Lai, Chung‐Pei Ma, Jianhua Wang, Jeng-Feng Lin, Pei-Shan Lu, Chao-Ping Yang, Bertrand Chin‐Ming Tan, Hsuan Liu
Software Mentions: 4
Published: over 4 years ago

10.1155/2021/1814266

Gene Model Related to m6A Predicts the Prognostic Effect of Immune Infiltration on Head and Neck Squamous Cell Carcinoma
Cited by: 3
Author(s): Yaxiong Deng, Kehua Li, Fengwu Tan, Hanbo Liu
Software Mentions: 4
Published: over 3 years ago

10.1155/2021/5345181

Prognostic Implications of Immune-Related Gene Pairs Signatures in Bladder Cancer
Cited by: 3
Author(s): Hui Xiong, Hui Gao, Jinding Hu, Ying Dai, Hanbo Wang, Min Fu, Taiguo Qi, Lianjun Li, Qinghua Xia, Xunbo Jin, Zilian Cui, Weiting Kang
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.566918

Transcriptomic Analysis of Glycolysis-Related Genes Reveals an Independent Signature of Bladder Carcinoma
Cited by: 3
Author(s): Zezhong Mou, Chen Yang, Zheyu Zhang, Siqi Wu, Chenyang Xu, Cheng Zhang, Xiaoming Dai, Xinan Chen, Yuxi Ou, Haowen Jiang
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-021-94701-8

Integrative analysis reveals the prognostic value and functions of splicing factors implicated in hepatocellular carcinoma
Cited by: 7
Author(s): Yue Wang, Fan Yang, Jiaqi Shang, Hai‐Tao He, Qing Yang
Software Mentions: 4
Published: over 3 years ago

10.1186/s12967-020-02372-2

Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis
Cited by: 38
Author(s): Lixin Cheng, Chuanchuan Nan, Lin Kang, Ning Zhang, Sheng Liu, Huaisheng Chen, Chengying Hong, Youlian Chen, Zhen Liang, Xueyan Liu
Software Mentions: 4
Published: over 4 years ago

10.1155/2021/7331821

Identification of Neuropeptides as Potential Crosstalks Linking Down Syndrome and Periodontitis Revealed by Transcriptomic Analyses
Cited by: 6
Author(s): Yue Chen, Xiaofei Yu, Jia Kong
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-93616-8

MicroRNA-378a-3p is overexpressed in psoriasis and modulates cell cycle arrest in keratinocytes via targeting BMP2 gene
Cited by: 7
Author(s): Wipasiri Soonthornchai, Pattarin Tangtanatakul, Kornvalee Meesilpavikkai, Virgil A. S. H. Dalm, Patipark Kueanjinda, Jongkonnee Wongpiyabovorn
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-019-50271-4

Fractional Deletion of Compound Kushen Injection Indicates Cytokine Signaling Pathways are Critical for its Perturbation of the Cell Cycle
Cited by: 9
Author(s): Thazin Nwe Aung, Saeed Nourmohammadi, Zhibo Qu, Yuka Harata-Lee, Jingang Cui, Hao Shen, Andrea J. Yool, Tara L. Pukala, Hongling Du, R. Daniel Kortschak, Wenxin Wei, David L. Adelson
Software Mentions: 4
Published: about 5 years ago

10.3389/fonc.2020.590861

Clinical and Biological Significances of a Ferroptosis-Related Gene Signature in Glioma
Cited by: 89
Author(s): Shenghua Zhuo, Zhimin Chen, Yibei Yang, Jinben Zhang, Jianming Tang, Kun Yang
Software Mentions: 4
Published: about 4 years ago

10.1038/s41598-021-90653-1

Totipotency of mouse zygotes extends to single blastomeres of embryos at the four-cell stage
Cited by: 17
Author(s): Marino Maemura, Hiroaki Taketsuru, Yuki Nakajima, Ruiqi Shao, Ayaka Kakihara, Jumpei Nogami, Yasuyuki Ohkawa, Yu Ichi Tsukada
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2019.01269

An Integrated Three-Long Non-coding RNA Signature Predicts Prognosis in Colorectal Cancer Patients
Cited by: 27
Author(s): Yuhang Liu, Bingxin Liu, Guoying Jin, Jia Zhang, Xue Wang, Yuyang Feng, Zehua Bian, Bojian Fei, Yuan Yin, Zhaohui Huang
Software Mentions: 4
Published: about 5 years ago

10.1186/s13018-021-02578-0

Bioinformatics integrated analysis to investigate candidate biomarkers and associated metabolites in osteosarcoma
Cited by: 3
Author(s): Jun Wang, Mingzhi Gong, Zhenggang Xiong, Yangyang Zhao, Deguo Xing
Software Mentions: 4
Published: over 3 years ago

10.1038/s41597-020-00772-z

A gene expression atlas for different kinds of stress in the mouse brain
Cited by: 27
Author(s): Tiziano Flati, Silvia Gioiosa, Giovanni Chillemi, Andrea Mele, Alberto Oliverio, Cecilia Mannironi, Arianna Rinaldi, Tiziana Castrignanò
Software Mentions: 4
Published: almost 4 years ago

10.3390/ijms22052481

Differential Morpho-Physiological and Transcriptomic Responses to Heat Stress in Two Blueberry Species
Cited by: 5
Author(s): Jodi B Callwood, Kalpalatha Melmaiee, Krishnanand P. Kulkarni, Amaranatha R. Vennapusa, Diarra Aicha, Michael J. Moore, Nicholi Vorsa, Purushothaman Natarajan, Umesh K. Reddy, Sathya Elavarthi
Software Mentions: 4
Published: over 3 years ago

10.3389/fonc.2020.00681

Identification of Hub Genes Associated With Development of Head and Neck Squamous Cell Carcinoma by Integrated Bioinformatics Analysis
Cited by: 50
Author(s): Chia‐Ying Li, Jia-Hua Cai, Jeffrey J. P. Tsai, Charles C.N. Wang
Software Mentions: 4
Published: over 4 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 3 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 3 years ago

10.1155/2020/3656841

Genetic Profiles Playing Opposite Roles of Pathogenesis in Schizophrenia and Glioma
Cited by: 3
Author(s): Yujie Wen, Zhiwei Xia, Dongjie Li, Quan Cheng, Qing Zhao, Hui Cao
Software Mentions: 4
Published: over 4 years ago

10.3389/fonc.2020.597877

Identification of a Glycolysis-Related LncRNA Signature to Predict Survival in Diffuse Glioma Patients
Cited by: 11
Author(s): Yangyang Wang, Wenqiang Zhou, Shunchang Ma, Xiudong Guan, Dainan Zhang, Jiayi Peng, Xi Wang, Linhao Yuan, Peiliang Li, Beibei Mao, Kang Peng, Deling Li, Chuanbao Zhang, Wang Jia
Software Mentions: 4
Published: almost 4 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 3 years ago

10.1155/2021/5590743

Summarizing the Effective Herbs for the Treatment of Hypertensive Nephropathy by Complex Network and Machine Learning
Cited by: 6
Author(s): Jia-Ming Huan, Wen-Ge Su, Li Wei, Chao Gao, Pingzhu Zhou, FU Chun-sheng, Xiaofeng Wang, Yimin Wang
Software Mentions: 4
Published: over 3 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 3 years ago

10.1038/s41598-021-84564-4

Heterozygous APC germline mutations impart predisposition to colorectal cancer
Cited by: 7
Author(s): Livia Preisler, Aline Habib, Guy Shapira, Liron Kuznitsov-Yanovsky, Yoav Mayshar, Ilana Carmel-Gross, Mira Malcov, Foad Azem, Noam Shomron, Revital Kariv, Dov Hershkovitz, Dalit Ben‐Yosef
Software Mentions: 4
Published: over 3 years ago

10.1186/s13018-021-02552-w

Study on the potential active components and molecular mechanism of Xiao Huoluo Pills in the treatment of cartilage degeneration of knee osteoarthritis based on bioinformatics analysis and molecular docking technology
Cited by: 13
Author(s): Weijian Chen, Tianye Lin, Qi He, Peng Yang, Gangyu Zhang, Fayi Huang, Zihao Wang, Hao Peng, Baolin Li, Liqing Du, Haibin Wang
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-020-80682-7

TIM29 is required for enhanced stem cell activity during regeneration in the flatworm Macrostomum lignano
Cited by: 2
Author(s): Stijn Mouton, Kirill Ustyantsev, Frank W. Beltman, Lisa Glazenburg, Eugène Berezikov
Software Mentions: 4
Published: almost 4 years ago

10.1186/s13148-020-00989-0

Identification and validation of methylated differentially expressed miRNAs and immune infiltrate profile in EBV-associated gastric cancer
Cited by: 4
Author(s): Man-Sheng Zhu, Qi Liang, Tao Chen, Qian Kong, Gengtai Ye, Shitong Yu, Xunjun Li, Qinglie He, Hao Líu, Yanfeng Hu, Jiang Yu, Guoxin Li
Software Mentions: 4
Published: almost 4 years ago

10.3389/fphar.2021.625543

The Synergistic Effects of 5-Aminosalicylic Acid and Vorinostat in the Treatment of Ulcerative Colitis
Cited by: 10
Author(s): Lina He, Shuting Wen, Zhuotai Zhong, Senhui Weng, Qilong Jiang, Hong Mi, Fengbin Liu
Software Mentions: 4
Published: over 3 years ago

10.1155/2019/5058313

Transcriptome Analysis of Hypertrophic Heart Tissues from Murine Transverse Aortic Constriction and Human Aortic Stenosis Reveals Key Genes and Transcription Factors Involved in Cardiac Remodeling Induced by Mechanical Stress
Cited by: 7
Author(s): Peng Yu, Baoli Zhang, Ming Liu, Ying Yu, Jian Zhao, Chunyu Zhang, Yana Li, Lei Zhang, Xue Yang, Hong Jiang, Yunzeng Zou, Junbo Ge
Software Mentions: 4
Published: about 5 years ago

10.1155/2021/4338838

A Radioresponse-Related lncRNA Biomarker Signature for Risk Classification and Prognosis Prediction in Non-Small-Cell Lung Cancer
Cited by: 14
Author(s): Jiahang Song, Shuming Zhang, Yuanyuan Sun, Junjie Gu, Ziqi Ye, Xinchen Sun, Qiyun Tang
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-018-29506-3

Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations
Cited by: 18
Author(s): Erik Fasterius, Cristina Al‐Khalili Szigyarto
Software Mentions: 4
Published: over 6 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: almost 4 years ago

10.1038/s41598-020-79552-z

Host mitochondrial transcriptome response to SARS-CoV-2 in multiple cell models and clinical samples
Cited by: 45
Author(s): Brendan Miller, Ana R. Silverstein, Melanie Flores, Kevin Cao, Hiroshi Kumagai, Hemal H. Mehta, Kelvin Yen, Su Jeong Kim, Pinchas Cohen
Software Mentions: 4
Published: almost 4 years ago

10.1155/2020/3275315

Next-Generation Sequencing Characterizes the Landscape of Somatic Mutations and Pathways in Metastatic Bile Tract Carcinoma
Cited by: 1
Author(s): Qi Li, Qifan Zhang, Xiangdong Cheng, Xie Weng, Mian Chen, Xiaoyun Hu, Jing Huang, Jinzhang Chen
Software Mentions: 4
Published: about 4 years ago

10.1515/med-2020-0142

An immune-relevant signature of nine genes as a prognostic biomarker in patients with gastric carcinoma
Cited by: 1
Author(s): Bing Wang, Yang Zhang
Software Mentions: 4
Published: almost 5 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: about 4 years ago

Projects: bioconductor: clusterProfiler

Papers Mentioning clusterProfiler 2,223