Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: GSVA

https://packages.ecosyste.ms/registries/bioconductor.org/packages/GSVA

Gene Set Variation Analysis for microarray and RNA-seq data
1 version
Latest release: about 1 year ago
15 dependent packages
318,257 downloads total

Papers Mentioning GSVA 893

10.3389/fonc.2020.550002
Using Machine Learning Modeling to Explore New Immune-Related Prognostic Markers in Non-Small Cell Lung Cancer
Cited by: 8
Author(s): Jiasheng Xu, Han Nie, Jiarui He, Xinlu Wang, Kaili Liao, Luxia Tu, Zhenfang Xiong
Software Mentions: 4
Published: about 4 years ago
10.3389/fgene.2020.00934
Integrated Analysis of a Risk Score System Predicting Prognosis and a ceRNA Network for Differentially Expressed lncRNAs in Multiple Myeloma
Cited by: 8
Author(s): Sijie Zhou, Jiuyuan Fang, Yan Sun, Huixiang Li
Software Mentions: 4
Published: about 4 years ago
10.1038/s41598-020-73700-1
Transcriptome-wide analysis and modelling of prognostic alternative splicing signatures in invasive breast cancer: a prospective clinical study
Cited by: 16
Author(s): Linbang Wang, Yuanyuan Wang, Bao Su, Ping Yü, Jiahui He, Lei Meng, Qin Xiao, Junling Sun, Kai Zhou, Yuzhou Xue, Jinxiang Tan
Software Mentions: 4
Published: about 4 years ago
10.1186/s40246-021-00344-1
High-throughput screening of circRNAs reveals novel mechanisms of tuberous sclerosis complex-related renal angiomyolipoma
Cited by: 2
Author(s): Yupei Zhao, Hao Guo, Wenda Wang, Guoyang Zheng, Zhan Wang, Xu Wang, Yushi Zhang
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2021.714267
M6A Classification Combined With Tumor Microenvironment Immune Characteristics Analysis of Bladder Cancer
Cited by: 12
Author(s): Huili Zhu, Xiaocan Jia, Yuping Wang, Zhijuan Song, Nana Wang, Yongli Yang, Xiaoguang Shi
Software Mentions: 4
Published: about 3 years ago
10.3389/fcell.2021.694633
Bioinformatic Analyses Identify a Prognostic Autophagy-Related Long Non-coding RNA Signature Associated With Immune Microenvironment in Diffuse Gliomas
Cited by: 10
Author(s): Shengchao Xu, Lu Tang, Zhixiong Liu, Kui Yang, Quan Cheng
Software Mentions: 4
Published: over 3 years ago
10.18632/aging.102835
The lncRNA ENSG00000254041.1 promotes cell invasiveness and associates with poor prognosis of pancreatic ductal adenocarcinoma
Cited by: 6
Author(s): Bin Chen, Qiqi Zhang, Xujing Wang, Yongkun Wang, Jiaqu Cui, Huiren Zhuang, Jianying Tang
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-019-56146-y
Long-term epilepsy-associated tumors: transcriptional signatures reflect clinical course
Cited by: 10
Author(s): Daniel Delev, Karam Daka, Sabrina Heynckes, Annette Gaebelein, Pamela Franco, Dietmar Pfeifer, Marco Prinz, Oliver Schnell, Horst Urbach, Irina Mader, Jürgen Beck, Alexander Grote, Albert Becker, Dieter Henrik Heiland
Software Mentions: 4
Published: almost 5 years ago
10.1038/s41598-019-54051-y
Widespread Sexual Dimorphism in the Transcriptome of Human Airway Epithelium in Response to Smoking
Cited by: 12
Author(s): Cheng Wei Tony Yang, Henry Shi, Irving Ding, Stephen Milne, Ana I Hernández Cordero, Edward Kyoo Hoon Kim, Tillie L. Hackett, Janice M. Leung, Don D. Sin, Ma’en Obeidat
Software Mentions: 4
Published: almost 5 years ago
10.18632/aging.203323
An immune-related lncRNA signature for the prognosis of pancreatic adenocarcinoma
Cited by: 10
Author(s): Bing Qi, Han Liu, Qi Zhou, Ji Li, Xueying Shi, Yu‐Shan Wei, Yinmin Gu, Akio Mizushima, Shilin Xia
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2021.620200
Methylation Regulation of TLR3 on Immune Parameters in Lung Adenocarcinoma
Cited by: 3
Author(s): Ang Li, Hongjiao Wu, Quan Tian, Yi Zhang, Zhi Zhang, Xuemei Zhang
Software Mentions: 4
Published: over 3 years ago
10.1111/pcmr.12802
MITF controls the TCA cycle to modulate the melanoma hypoxia response
Cited by: 35
Author(s): Pakavarin Louphrasitthiphol, Ioanna Ledaki, Jagat Chauhan, Paola Falletta, Robert Siddaway, Francesca M. Buffa, David R. Mole, Tomoyoshi Soga, Colin R. Goding
Software Mentions: 4
Published: over 5 years ago
10.1002/cam4.2192
Immune microenvironments differ in immune characteristics and outcome of glioblastoma multiforme
Cited by: 21
Author(s): Botao Zhang, Rongfang Shen, Shujun Cheng, Feng Li
Software Mentions: 4
Published: over 5 years ago
10.3389/fonc.2020.613333
Construction of Bone Metastasis-Specific Regulation Network Based on Prognostic Stemness-Related Signatures in Breast Invasive Carcinoma
Cited by: 2
Author(s): Runzhi Huang, Zhenyu Li, Jiayao Zhang, Zhiwei Zeng, Jiaqi Zhang, Mingxiao Li, Siqao Wang, Shuyuan Xian, Yuna Xue, Xi Chen, Jie Li, Wing Yan Elizabeth Cheng, Bin Wang, Penghui Yan, Daoke Yang, Zongqiang Huang
Software Mentions: 4
Published: almost 4 years ago
10.1186/s13293-020-00335-2
Investigating transcriptome-wide sex dimorphism by multi-level analysis of single-cell RNA sequencing data in ten mouse cell types
Cited by: 18
Author(s): Tianyuan Lu, Jessica C. Mar
Software Mentions: 4
Published: about 4 years ago
10.3389/fimmu.2021.731751
The CXCL Family Contributes to Immunosuppressive Microenvironment in Gliomas and Assists in Gliomas Chemotherapy
Cited by: 15
Author(s): Zeyu Wang, Yuze Liu, Yuyao Mo, Hao Zhang, Ziyu Dai, Xun Zhang, Weijie Ye, Hui Cao, Zhixiong Liu, Quan Cheng
Software Mentions: 4
Published: about 3 years ago
10.7717/peerj.8301
Bioinformatics profiling identifies seven immune-related risk signatures for hepatocellular carcinoma
Cited by: 9
Author(s): Feng Xue, Lixue Yang, Binghua Dai, Hui Xue, Lei Zhang, Ruowen Ge, Ying Sun
Software Mentions: 4
Published: over 4 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/s41598-019-47363-6
Whole transcriptome analysis reveals correlation of long noncoding RNA ZEB1-AS1 with invasive profile in melanoma
Cited by: 20
Author(s): Ádamo Davi Diógenes Siena, Jéssica Rodrigues Plaça, Luíza Ferreira de Araújo, Isabela Ichihara de Barros, Kamila Chagas Peronni, Greice Andreotti de Molfetta, Carlos Alberto Oliveira de Biagi, Enilza Maria Espreáfico, Josane F. Sousa, Wilson A. Silva
Software Mentions: 4
Published: over 5 years ago
10.3390/ijms21186762
Changes in Nuclear Shape and Gene Expression in Response to Simulated Microgravity Are LINC Complex-Dependent
Cited by: 13
Author(s): Srujana Neelam, Brian Richardson, Richard Barker, Ceasar Udave, Simon Gilroy, Mark J. Cameron, Howard G. Levine, Ye Zhang
Software Mentions: 4
Published: about 4 years ago
10.3389/fonc.2020.01374
Immunogenomic Profiling and Classification of Prostate Cancer Based on HIF-1 Signaling Pathway
Cited by: 8
Author(s): Jukun Song, Wei-Ming Chen, Guohua Zhu, Wei Wang, Fa Sun, Jianguo Zhu
Software Mentions: 4
Published: over 4 years ago
10.3389/fonc.2020.01778
Seven-Gene Signature Based on Glycolysis Is Closely Related to the Prognosis and Tumor Immune Infiltration of Patients With Gastric Cancer
Cited by: 36
Author(s): Shanshan Yu, Chuan Hu, Luya Cai, Xuedan Du, Fan Lin, Qiongjie Yu, Lixiao Liu, Cheng Zhang, Xuan Li, Wenfeng Li, Yu Zhan
Software Mentions: 4
Published: about 4 years ago
10.1002/cam4.3756
An immune‐related seven‐lncRNA signature for head and neck squamous cell carcinoma
Cited by: 11
Author(s): Yue Chen, Tianzhi Luo, Shihe Xu, Chunyan Chen, Ying Sun, Lin Li, Yan‐Ping Mao
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-018-31170-6
Mitochondrial transcription factor A (TFAM) shapes metabolic and invasion gene signatures in melanoma
Cited by: 36
Author(s): Luíza Ferreira de Araújo, Ádamo Davi Diógenes Siena, Jéssica Rodrigues Plaça, Danielle Barbosa Brotto, Isabela Ichihara de Barros, Bruna Rodrigues Muys, Carlos Alberto Oliveira de Biagi, Kamila Chagas Peronni, Josane F. Sousa, Greice Andreotti de Molfetta, Laura Ciaccia West, A. Phillip West, Andréia Machado Leopoldino, Enilza Maria Espreáfico, W. A. Silva
Software Mentions: 4
Published: about 6 years ago
10.1038/s41598-017-08796-z
Surface PD-L1, E-cadherin, CD24, and VEGFR2 as markers of epithelial cancer stem cells associated with rapid tumorigenesis
Cited by: 42
Author(s): Goodwin G. Jinesh, Ganiraju C. Manyam, Chinedu O. Mmeje, Keith A. Baggerly, Ashish M. Kamat
Software Mentions: 4
Published: about 7 years ago
10.1038/srep16238
IDH mutation status is associated with a distinct hypoxia/angiogenesis transcriptome signature which is non-invasively predictable with rCBV imaging in human glioma
Cited by: 243
Author(s): Philipp Kickingereder, Felix Sahm, Alexander Radbruch, Wolfgang Wick, Sabine Heiland, Andreas von Deimling, Martin Bendszus, Benedikt Wiestler
Software Mentions: 4
Published: about 9 years ago
10.3389/fcell.2021.691676
A Novel Risk Model Based on Lipid Metabolism-Associated Genes Predicts Prognosis and Indicates Immune Microenvironment in Breast Cancer
Cited by: 13
Author(s): Zhimin Ye, Shengmei Zou, Zhiyuan Niu, Zhijie Xu, Yongbin Hu
Software Mentions: 4
Published: over 3 years ago
10.1002/cam4.3388
A methylomics‐associated nomogram predicts recurrence‐free survival of thyroid papillary carcinoma
Cited by: 7
Author(s): Hengyu Chen, Xianxiong Ma, Ming Yang, Mengyi Wang, Lei Li, Tao Huang
Software Mentions: 4
Published: over 4 years ago
10.1038/srep06347
GSAASeqSP: A Toolset for Gene Set Association Analysis of RNA-Seq Data
Cited by: 52
Author(s): Qing Xiong, Sayan Mukherjee, Terrence S. Furey
Software Mentions: 4
Published: about 10 years ago
10.1371/journal.ppat.1009732
Germinal Center T follicular helper (GC-Tfh) cell impairment in chronic HIV infection involves c-Maf signaling
Cited by: 2
Author(s): Marita Chakhtoura, Mike Fang, Rafael Cubas, Margaret O'Connor, Carmen N. Nichols, Brian Richardson, Aarthi Talla, Susan Moir, Mark J. Cameron, Virginie Tardif, Elias K. Haddad
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-021-90105-w
Transcriptomic analysis of atopic dermatitis in African Americans is characterized by Th2/Th17-centered cutaneous immune activation
Cited by: 22
Author(s): Shannon Wongvibulsin, Nishadh Sutaria, Suraj Kannan, Martin P. Alphonse, Micah Belzberg, Kyle Williams, Isabelle Brown, Justin Choi, Youkyung S. Roh, Thomas Pritchard, Raveena Khanna, Amarachi Eseonu, Jaroslaw Jedrych, Carly Dillen, Madan M. Kwatra, Anna L. Chien, Nathan K. Archer, Luis A. Garza, Xinzhong Dong, Sewon Kang, Shawn G. Kwatra
Software Mentions: 4
Published: over 3 years ago
10.1186/s12916-021-01925-6
Glycolysis-associated lncRNAs identify a subgroup of cancer patients with poor prognoses and a high-infiltration immune microenvironment
Cited by: 17
Author(s): Kuo Hao Ho, Tzu Wen Huang, Chwen Ming Shih, Yi Ting Lee, Ann Jeng Liu, Peng Hsu Chen, Ku Chung Chen
Software Mentions: 4
Published: over 3 years ago
10.1186/s12865-019-0322-z
Subsets of mononuclear phagocytes are enriched in the inflamed colons of patients with IBD
Cited by: 45
Author(s): Hong Liu, Suryasarathi Dasgupta, Yu Fu, Brandi Bailey, Christian Roy, Eric S. Lightcap, Benjamin Faustin
Software Mentions: 4
Published: about 5 years ago
10.3389/fimmu.2021.729359
Construction of Interferon-Gamma-Related Gene Signature to Characterize the Immune-Inflamed Phenotype of Glioblastoma and Predict Prognosis, Efficacy of Immunotherapy and Radiotherapy
Cited by: 9
Author(s): Hang Ji, Yixu Ba, Shuai Ma, Kezuo Hou, Shan Mi, Xin Gào, Jiaqi Jin, Qingguo Gong, Ting Liu, Fang Wang, Zhihui Liu, Shupeng Li, Jianyang Du, Shaoshan Hu
Software Mentions: 4
Published: about 3 years ago
10.3389/fimmu.2021.705511
Screening and Validation of the Hypoxia-Related Signature of Evaluating Tumor Immune Microenvironment and Predicting Prognosis in Gastric Cancer
Cited by: 27
Author(s): Jun‐Peng Pei, Chundong Zhang, Maimaititusun Yusupu, Dong‐Qiu Dai
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2020.01549
Inference of Subpathway Activity Profiles Reveals Metabolism Abnormal Subpathway Regions in Glioblastoma Multiforme
Cited by: 0
Author(s): Xudong Han, Donghua Wang, Ping Zhao, Chonghui Liu, Yilong Hao, Lulu Chang, Jian Zhao, Wei Zhao, Lili Mu, Jinghua Wang, Hulun Li, Qingfei Kong, Junwei Han
Software Mentions: 4
Published: about 4 years ago
10.3390/biomedicines9020215
Reclassification of Kidney Clear Cell Carcinoma Based on Immune Cell Gene-Related DNA CpG Pairs
Cited by: 1
Author(s): Qizhan Luo, Thomas-Alexander Vögeli
Software Mentions: 4
Published: almost 4 years ago
10.1111/jcmm.16831
Bioinformatics analysis of the prognostic value of NEK8 and its effects on immune cell infiltration in glioma
Cited by: 7
Author(s): Meng Xiao, Chuang Du, Chuanbo Zhang, Xinzhong Zhang, Shaomin Li, Dainan Zhang, Wang Jia
Software Mentions: 4
Published: over 3 years ago
10.3390/cells10010045
Pan-Cancer Molecular Patterns and Biological Implications Associated with a Tumor-Specific Molecular Signature
Cited by: 5
Author(s): Darío Rocha, Iris Alejandra García, Aldana González Montoro, Andrea S. Llera, Laura Beatriz Prato, María Romina Girotti, Gastón Soria, Elmer Fernández
Software Mentions: 4
Published: almost 4 years ago
10.1111/jcmm.16800
Prognostic signature and immune efficacy of m<sup>1</sup>A‐, m<sup>5</sup>C‐ and m<sup>6</sup>A‐related regulators in cutaneous melanoma
Cited by: 20
Author(s): Xian rui Wu, Zheng Chen, Yang Liu, Zi zi Chen, Fengjie Tang, Zhi zhao Chen, Jing Jing Li, Jun Liu, Ke Cao, Xiang Chen, Jianda Zhou
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2020.01057
Prognostic and Predictive Value of a Long Non-coding RNA Signature in Glioma: A lncRNA Expression Analysis
Cited by: 12
Author(s): Yutong Pan, Yiping Zhu, Qingwei Zhang, Chihao Zhang, Anwen Shao, Jianmin Zhang
Software Mentions: 4
Published: over 4 years ago
10.1080/07853890.2021.1918346
Effect of unfolded protein response on the immune infiltration and prognosis of transitional cell bladder cancer
Cited by: 3
Author(s): Xueting Yan, Min Chen, Chiying Xiao, Jia-Yin Fu, Xia Sun, Zuohuai Hu, Huaqiang Zhou
Software Mentions: 4
Published: almost 4 years ago
10.1136/annrheumdis-2020-217646
Unique expansion of IL-21+ Tfh and Tph cells under control of ICOS identifies Sjögren’s syndrome with ectopic germinal centres and MALT lymphoma
Cited by: 75
Author(s): Elena Pontarini, William Murray-Brown, Cristina Croia, Davide Lucchesi, James Conway, Felice Rivellese, Liliane Fossati-Jimack, Elisa Astorri, Edoardo Prediletto, Elisa Corsiero, Francesca Romana Delvecchio, Rachel Coleby, Eva Gelbhardt, Aurora Bono, Chiara Baldini, Ilaria Puxeddu, Piero Ruscitti, Roberto Giacomelli, Francesca Barone, Benjamin A Fisher, Simon Bowman, Serena Colafrancesco, Roberta Priori, Nurhan Sutcliffe, S. J. Challacombe, Gianluca Carlesso, Anwar R. Tappuni, Costantino Pitzalis, Michèle Bombardieri
Software Mentions: 4
Published: about 4 years ago
10.1186/s13287-020-01973-4
Development and validation of a novel stem cell subtype for bladder cancer based on stem genomic profiling
Cited by: 11
Author(s): Chaozhi Tang, Jiakang Ma, Xiuli Liu, Zhengchun Liu
Software Mentions: 4
Published: about 4 years ago
10.3390/ijms22052669
Additive Role of Immune System Infiltration and Angiogenesis in Uveal Melanoma Progression
Cited by: 18
Author(s): Sandra García-Mulero, M. Henar Alonso, L.P. del Carpio, Rebeca Sanz‐Pamplona, Josep María Piulats
Software Mentions: 4
Published: over 3 years ago
10.1111/jcmm.16573
Development and validation of glycolysis‐related prognostic score for prediction of prognosis and chemosensitivity of pancreatic ductal adenocarcinoma
Cited by: 7
Author(s): Xiuping Zhang, Qinjunjie Chen, Qu Liu, Yang Wang, Fei Wang, Zhiming Zhao, Guodong Zhao, Wan Yee Lau, Yinghong Gao, Rong Liu
Software Mentions: 4
Published: over 3 years ago
10.1111/jcmm.16444
Risk stratification by long non‐coding RNAs profiling in COVID‐19 patients
Cited by: 27
Author(s): Jie Cheng, Xiang Zhou, Weijun Feng, Min Jia, Xinlu Zhang, Tongqing An, Minyuan Luan, Yi Pan, Shu Zhang, Zhaoming Zhou, Lu Wen, Yun Sun, Cheng Zhou
Software Mentions: 4
Published: over 3 years ago
10.1111/jcmm.16479
Single‐cell analysis reveals metastatic cell heterogeneity in clear cell renal cell carcinoma
Cited by: 11
Author(s): Kun Liu, Rui Gao, Hao Wu, Zhe Wang, Guang Han
Software Mentions: 4
Published: over 3 years ago
10.1186/s12885-021-08114-x
PTEN loss correlates with T cell exclusion across human cancers
Cited by: 31
Author(s): Ziying Lin, Lixia Huang, Shao Li Li, Jincui Gu, Xiaoxian Cui, Yunyun Zhou
Software Mentions: 4
Published: over 3 years ago
10.1111/jcmm.16249
A novel hypoxia gene signature indicates prognosis and immune microenvironments characters in patients with hepatocellular carcinoma
Cited by: 13
Author(s): Qiangnu Zhang, Liang Qiao, Juan Liao, Quan Liu, Pengyu Liu, Liping Liu
Software Mentions: 4
Published: almost 4 years ago
10.3389/fimmu.2021.724541
Scoring System Based on RNA Modification Writer-Related Genes to Predict Overall Survival and Therapeutic Response in Bladder Cancer
Cited by: 3
Author(s): Pu Zhang, Zijian Liu, Decai Wang, Yunxue Li, Yifei Xing, Yajun Xiao
Software Mentions: 4
Published: about 3 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: almost 4 years ago
10.1186/s12935-021-01939-3
Identification of an immune-related signature indicating the dedifferentiation of thyroid cells
Cited by: 10
Author(s): Xuemin Wang, Wen Peng, Chunyan Li, Rujia Qin, Zhaoming Zhong, Chuanzheng Sun
Software Mentions: 4
Published: over 3 years ago
10.3389/fmed.2021.654635
Multi-Omics Integrative Analysis Uncovers Molecular Subtypes and mRNAs as Therapeutic Targets for Liver Cancer
Cited by: 4
Author(s): Yi Shen, Wei Xiong, Qi Gu, Qin Zhang, Yue Jia, Changsong Liu, Duan Wang
Software Mentions: 4
Published: over 3 years ago
10.1186/s12885-021-08796-3
Pan-cancer evaluation of gene expression and somatic alteration data for cancer prognosis prediction
Cited by: 3
Author(s): Xingyu Zheng, Christopher I. Amos, H. Robert Frost
Software Mentions: 4
Published: about 3 years ago
10.3389/fmicb.2020.01628
Networking and Specificity-Changing DNA Methyltransferases in Helicobacter pylori
Cited by: 9
Author(s): Hirokazu Yano, Zobaidul Alam, Emiko Rimbara, Tomoko Shibata, Masaki Fukuyo, Yoshikazu Furuta, Tomoaki Nishiyama, Shuji Shigenobu, Mitsuyasu Hasebe, Atsushi Toyoda, Yutaka Suzuki, Sumio Sugano, Keigo Shibayama, Ichizo Kobayashi
Software Mentions: 4
Published: over 4 years ago
10.1371/journal.pone.0084955
Clustering Gene Expression Regulators: New Approach to Disease Subtyping
Cited by: 30
Author(s): Mikhail A. Pyatnitskiy, Ilya Mazo, Maria Shkrob, Elena Schwartz, Ekaterina Kotelnikova
Software Mentions: 4
Published: almost 11 years ago
10.3390/genes10080611
Multi-Objective Optimized Fuzzy Clustering for Detecting Cell Clusters from Single-Cell Expression Profiles
Cited by: 14
Author(s): Saurav Mallik, Zhongming Zhao
Software Mentions: 4
Published: over 5 years ago
10.3389/fgene.2020.599834
An Integrated Transcriptome Analysis Reveals IGFBP7 Upregulation in Vasculature in Traumatic Brain Injury
Cited by: 3
Author(s): Jianhao Wang, Xiangyi Deng, Yuan Xie, Jiefu Tang, Ziwei Zhou, Fan Yang, Qiyuan He, Qingze Cao, Lei Zhang, Liqun He
Software Mentions: 4
Published: almost 4 years ago
10.3389/fgene.2020.600248
Caspase 4 Overexpression as a Prognostic Marker in Clear Cell Renal Cell Carcinoma: A Study Based on the Cancer Genome Atlas Data Mining
Cited by: 12
Author(s): Lingfeng Meng, Zijian Tian, Xingbo Long, Tongxiang Diao, Mao‐Lin Hu, Miao Wang, Wei Zhang, Yaoguang Zhang, Qianqian Wang, Yuhui He
Software Mentions: 4
Published: almost 4 years ago
10.3389/fonc.2021.705627
Decoupling Lineage-Associated Genes in Acute Myeloid Leukemia Reveals Inflammatory and Metabolic Signatures Associated With Outcomes
Cited by: 4
Author(s): Hussein A. Abbas, Vakul Mohanty, Ruiping Wang, Yu-Ting Huang, Shaoheng Liang, Feng Wang, Jianhua Zhang, Yihua Qiu, Chenyue W. Hu, Amina A. Qutub, Monique Dail, Christopher R. Bolen, Naval Daver, Marina Konopleva, Andrew Futreal, Ken Chen, Linghua Wang, Steven M. Kornblau
Software Mentions: 4
Published: over 3 years ago
10.1186/s12935-020-01632-x
Targeting Lymphotoxin Beta and Paired Box 5: a potential therapeutic strategy for soft tissue sarcoma metastasis
Cited by: 0
Author(s): Runzhi Huang, Zhiwei Zeng, Penghui Yan, Huabin Yin, Xiaolong Zhu, Peng Hu, Juanwei Zhuang, Jiaju Li, Siqi Li, Dianwen Song, Tong Meng, Zongqiang Huang
Software Mentions: 4
Published: almost 4 years ago
10.18632/aging.202857
Two reactive behaviors of chondrocytes in an IL-1β-induced inflammatory environment revealed by the single-cell RNA sequencing
Cited by: 4
Author(s): Chenghao Gao, Hongxu Pu, Qian Zhou, Tenghui Tao, Hui Liu, Xuying Sun, Ximiao He, Jun Xiao
Software Mentions: 4
Published: over 3 years ago
10.3389/fmolb.2021.706949
CD74 Correlated With Malignancies and Immune Microenvironment in Gliomas
Cited by: 11
Author(s): Shengchao Xu, Xizhe Li, Lu Tang, Zhixiong Liu, Kui Yang, Quan Cheng
Software Mentions: 4
Published: about 3 years ago
10.1186/s13059-020-02240-8
Aberrant splicing isoforms detected by full-length transcriptome sequencing as transcripts of potential neoantigens in non-small cell lung cancer
Cited by: 51
Author(s): Miho Oka, Lai Xu, Toshihiro Suzuki, Toshiaki Yoshikawa, Hiromi Sanada, Hayato Uemura, Akiyasu C. Yoshizawa, Yutaka Suzuki, Tetsuya Nakatsura, Yasushi Ishihama, Ayako Suzuki, Masahide Seki
Software Mentions: 4
Published: almost 4 years ago
10.1186/s13073-017-0429-x
Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes
Cited by: 14
Author(s): Mumtahena Rahman, Shelley M. MacNeil, D. Graham Jenkins, Gajendra Shrestha, Sydney Rose Wyatt, Jasmine A. McQuerry, Stephen R. Piccolo, Laura M. Heiser, Joe W. Gray, W. Evan Johnson, Andrea Bild
Software Mentions: 4
Published: over 7 years ago
10.1111/jcmm.16343
Prognostic values and immune suppression of the S100A family in pancreatic cancer
Cited by: 23
Author(s): Hongkai Zhuang, Xinming Chen, Fengying Dong, Zedan Zhang, Zixuan Zhou, Zuyi Ma, Shanzhou Huang, Bin Chen, Chuanzhao Zhang
Software Mentions: 4
Published: almost 4 years ago
10.1038/s41598-020-77259-9
A novel methylation signature predicts radiotherapy sensitivity in glioma
Cited by: 5
Author(s): Yuemei Feng, Guanzhang Li, Zhongcheng Shi, Xu Yan, Zhiliang Wang, Haiyan Jiang, Ye Chen, Renpeng Li, You Zhai, Yuanhao Chang, Wei Zhang, Fang Yuan
Software Mentions: 4
Published: about 4 years ago
10.18632/aging.103945
Single-cell transcriptome analysis demonstrates inter-patient and intra-tumor heterogeneity in primary and metastatic lung adenocarcinoma
Cited by: 20
Author(s): Yafei Liu, Guanchao Ye, Lan Huang, Chunyang Zhang, Yinliang Sheng, Bin Wu, Lu Han, Chunli Wu, Bo Dong, Yu Qi
Software Mentions: 4
Published: about 4 years ago
10.1186/s12967-020-02491-w
Analyzing and validating the prognostic value and mechanism of colon cancer immune microenvironment
Cited by: 46
Author(s): Xinyi Wang, Jinzhong Duanmu, Xiaorui Fu, Taiyuan Li, Qunguang Jiang
Software Mentions: 4
Published: about 4 years ago
10.1371/journal.pcbi.1007851
LMSM: A modular approach for identifying lncRNA related miRNA sponge modules in breast cancer
Cited by: 16
Author(s): Junpeng Zhang, Taosheng Xu, Lin Liu, Wu Zhang, Chunwen Zhao, Sijing Li, Jiuyong Li, Nini Rao, Thuc Duy Le
Software Mentions: 4
Published: over 4 years ago
10.18632/aging.203030
Downregulation of USP18 reduces tumor-infiltrating activated dendritic cells in extranodal diffuse large B cell lymphoma patients
Cited by: 5
Author(s): Chong Zhao, Runzhi Huang, Zhiwei Zeng, Siqi Yang, Wei Lü, Jiali Liu, Yanyu Wei, Hong Guo, Yanjie Zhang, Penghui Yan, Zongqiang Huang, Jun Shi
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2021.724655
Super-Enhancer Induced IL-20RA Promotes Proliferation/Metastasis and Immune Evasion in Colorectal Cancer
Cited by: 12
Author(s): Du Yu, Xiao Yang, Jia Wei Lin, Zichao Cao, Chenghao Lu, Zheyu Yang, Minhua Zheng, Ruijun Pan, Wei Cai
Software Mentions: 4
Published: over 3 years ago
10.3389/fonc.2020.610513
Tumor Immune Microenvironment Characterization in Hepatocellular Carcinoma Identifies Four Prognostic and Immunotherapeutically Relevant Subclasses
Cited by: 15
Author(s): Xingxing Gao, Hechen Huang, Yübo Wang, Caixu Pan, Shengyong Yin, Lin Zhou, Shusen Zheng
Software Mentions: 4
Published: almost 4 years ago
10.1186/s12935-020-1116-3
Multi-dimensional omics characterization in glioblastoma identifies the purity-associated pattern and prognostic gene signatures
Cited by: 12
Author(s): Yi Xiong, Zujian Xiong, Hang Cao, Chang Li, Siyi Wanggou, Xuejun Li
Software Mentions: 4
Published: almost 5 years ago
10.3389/fcell.2021.657917
PSMC5 Promotes Proliferation and Metastasis of Colorectal Cancer by Activating Epithelial–Mesenchymal Transition Signaling and Modulating Immune Infiltrating Cells
Cited by: 8
Author(s): Zengyou He, Xiao Yang, Ling Huang, Leqi Zhou, Sen Zhang, Jing Ping Sun, Min Zheng, Junjun Ma, Bo Feng, Lu Zang
Software Mentions: 4
Published: over 3 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 3 years ago
10.1172/jci.insight.139932
Immunopathogenesis of hidradenitis suppurativa and response to anti–TNF-α therapy
Cited by: 61
Author(s): Margaret M. Lowe, Haley B. Naik, Sean Clancy, Mariela Pauli, Kathleen M. Smith, Yingtao Bi, Robert W. Dunstan, Johann E. Gudjonsson, Maia Paul, Hobart W. Harris, Esther Kim, Uk Sok Shin, Richard Ahn, Wilson Liao, Scott L. Hansen, Michael D. Rosenblum
Software Mentions: 4
Published: about 4 years ago
10.3389/fonc.2021.636461
Identification of Early Diagnostic and Prognostic Biomarkers via WGCNA in Stomach Adenocarcinoma
Cited by: 21
Author(s): Ruoyue Tan, Guanghui Zhang, Ruochen Liu, Jingyao Hou, Zhen Dong, Chaowei Deng, Sicheng Wan, Xiaodong Liu, Hongjuan Cui
Software Mentions: 4
Published: over 3 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
10.7150/jca.41983
Predictive value of hypoxia, metabolism and immune factors for prognosis in hepatocellular carcinoma: a retrospective analysis and multicenter validation study
Cited by: 4
Author(s): Peng Lin, Dong‐Yue Wen, Gang Chen, Yi‐Wu Dang, Yun He, Hong Yang
Software Mentions: 4
Published: almost 5 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
10.7717/peerj.5822
Meta-analysis of microarray datasets identify several chromosome segregation-related cancer/testis genes potentially contributing to anaplastic thyroid carcinoma
Cited by: 10
Author(s): Lan Mu, Yulu Qiu, Tong Jin, Zhou Yin, Zhiyuan Mao, Yongjie Zhang
Software Mentions: 4
Published: about 6 years ago
10.3389/fcell.2021.704704
Comprehensive Analysis of NAFLD and the Therapeutic Target Identified
Cited by: 8
Author(s): Weiheng Wen, Peili Wu, Yugang Zhang, Zijian Chen, Jia Sun, Hong Chen
Software Mentions: 4
Published: about 3 years ago
10.3389/fonc.2021.569295
Resveratrol Mediates the Apoptosis of Triple Negative Breast Cancer Cells by Reducing POLD1 Expression
Cited by: 18
Author(s): Zheng Liang, Yu Wan, Dandan Zhu, Mengxin Wang, Hong-Mian Jiang, Deng-Shing Huang, Lifeng Luo, Mao-jian Chen, Weiping Yang, Hong-Mian Li, Changyuan Wei
Software Mentions: 4
Published: over 3 years ago
10.3389/fmolb.2021.633951
Identification of Epithelial-Mesenchymal Transition-Related lncRNAs that Associated With the Prognosis and Immune Microenvironment in Colorectal Cancer
Cited by: 6
Author(s): Chuan Liu, Chuan Hu, Jianyi Li, Liqing Jiang, Chengliang Zhao
Software Mentions: 4
Published: over 3 years ago
10.3389/fcell.2021.595331
Construction of Two Alternative Polyadenylation Signatures to Predict the Prognosis of Sarcoma Patients
Cited by: 3
Author(s): Chuan Hu, Chuan Liu, Jianyi Li, Tengbo Yu, Jun Dong, Bin Chen, Yukun Du, Xiaojie Tang, Yongming Xi
Software Mentions: 4
Published: over 3 years ago
10.3389/fgene.2020.549213
Stemness Related Genes Revealed by Network Analysis Associated With Tumor Immune Microenvironment and the Clinical Outcome in Lung Adenocarcinoma
Cited by: 41
Author(s): Hao Zeng, Jianrui Ji, Xindi Song, Yeqian Huang, Hui Li, Juan Huang, Xuelei Ma
Software Mentions: 4
Published: about 4 years ago
10.3389/fgene.2021.719099
Interpretable, Scalable, and Transferrable Functional Projection of Large-Scale Transcriptome Data Using Constrained Matrix Decomposition
Cited by: 2
Author(s): Nicholas Panchy, Kazuhide Watanabe, Tian Hong
Software Mentions: 4
Published: over 3 years ago
10.1016/j.jcmgh.2021.04.011
Transcriptomic Profiling of Collagenous Colitis Identifies Hallmarks of Nondestructive Inflammatory Bowel Disease
Cited by: 5
Author(s): Celia Escudero-Hernández, Atle van Beelen Granlund, Arne K. Sandvik, Stefan Koch, Ann Elisabet Østvik, Andreas Münch
Software Mentions: 3
Published: almost 4 years ago
10.18632/aging.202499
Comprehensive analysis of macrophage-related multigene signature in the tumor microenvironment of head and neck squamous cancer
Cited by: 4
Author(s): Bo Lin, Hao Li, Tianwen Zhang, Xin Ye, Hongyu Yang, Yuehong Shen
Software Mentions: 3
Published: almost 4 years ago
10.3389/fcell.2020.584232
HS-5 and HS-27A Stromal Cell Lines to Study Bone Marrow Mesenchymal Stromal Cell-Mediated Support to Cancer Development
Cited by: 24
Author(s): Annalisa Adamo, Pietro Delfino, Alessandro Gatti, Alice Bonato, Paul Takam Kamga, Ilaria Tanasi, Stefano Ugel, Angela Mercuri, Simone Caligola, Mauro Krampera
Software Mentions: 3
Published: about 4 years ago
10.1371/journal.pone.0217196
Alternative polyadenylation of single cells delineates cell types and serves as a prognostic marker in early stage breast cancer
Cited by: 22
Author(s): Nayoung Kim, Wingyan Chung, Hye Hyeon Eum, Hae‐Ock Lee, Woong-Yang Park
Software Mentions: 3
Published: over 5 years ago
10.3390/ijms21093045
High Expression of miR-34a Associated with Less Aggressive Cancer Biology but Not with Survival in Breast Cancer
Cited by: 35
Author(s): Yoshihisa Tokumaru, Eriko Katsuta, Masanori Oshi, Judith C. Sporn, Li Yan, Lan Le, Nobuhisa Matsuhashi, Manabu Futamura, Yukihiro Akao, Kazuhiro Yoshida, Kazuaki Takabe
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pone.0148450
Molecular and Cellular Profiling of Scalp Psoriasis Reveals Differences and Similarities Compared to Skin Psoriasis
Cited by: 31
Author(s): Juan Ruano, Mayte Suárez‐Fariñas, Avner Shemer, Margeaux Oliva, Emma Guttman‐Yassky, James G. Krueger
Software Mentions: 3
Published: almost 9 years ago
10.3389/fcell.2021.633035
Co-treatment With Everolimus, an mTOR-Specific Antagonist, or Downregulation of ELK1 Enhances the Sensitivity of Pancreatic Cancer Cells to Genistein
Cited by: 1
Author(s): Tianyu Li, Tiantao Kuang, Zhao-Shuo Yang, Qiqi Zhang, Wen Zhang, Yue Fan
Software Mentions: 3
Published: about 3 years ago
10.1371/journal.pone.0083213
Candida utilis and Chlorella vulgaris Counteract Intestinal Inflammation in Atlantic Salmon (Salmo salar L.)
Cited by: 77
Author(s): Fabian Grammes, Felipe E. Reveco, Odd Helge Romarheim, Thor Landsverk, Liv Torunn Mydland, Margareth Øverland
Software Mentions: 3
Published: almost 11 years ago
10.1371/journal.pone.0233380
Aberrant expression of CPSF1 promotes head and neck squamous cell carcinoma via regulating alternative splicing
Cited by: 11
Author(s): Akihiro Sakai, Mizuo Ando, Takahito Fukusumi, Shuling Ren, Chao Liu, Jesse R. Qualliotine, Sunny Haft, Sayed Sadat, Yuki Saito, Theresa Guo, Guiyin Xu, Roman Šášik, Kathleen M. Fisch, J. Silvio Gutkind, Elana J. Fertig, Alfredo A. Molinolo, Joseph A. Califano
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pone.0191452
Developmental profiling of microRNAs in the human embryonic inner ear
Cited by: 16
Author(s): Duncan M. Chadly, Jennifer M. Best, Cong Ran, M Bruska, W Woźniak, Bartosz Kempisty, Mark W. Schwartz, Bonnie LaFleur, Billie‐Jo M. Kerns, John A. Kessler, Akihiro Matsuoka
Software Mentions: 3
Published: almost 7 years ago
10.3389/fcell.2020.580005
Identification of a Prognostic Immune Signature for Esophageal Squamous Cell Carcinoma to Predict Survival and Inflammatory Landscapes
Cited by: 9
Author(s): Chaoqi Zhang, Yuejun Luo, Zhen Zhang, Zhihui Zhang, Guochao Zhang, Rui Wang, Yun Cao, Lingling Fang, Yi Zhang, Nan Sun, Jié He
Software Mentions: 3
Published: almost 4 years ago