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: Category

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

Category Analysis
1 version
Latest release: 12 months ago
13 dependent packages
485,380 downloads total

Papers Mentioning Category 21

10.1186/1751-0473-8-1

MmPalateMiRNA, an R package compendium illustrating analysis of miRNA microarray data
Cited by: 11
Author(s): Guy Brock, Partha Mukhopadhyay, Vasyl Pihur, Cynthia L. Webb, Robert M. Greene, M. Michele Pisano
Software Mentions: 24
Published: over 11 years ago

10.1186/s13059-019-1790-4

Identifying significantly impacted pathways: a comprehensive review and assessment
Cited by: 113
Author(s): Tuan-Minh Nguyen, Adib Shafi, Tin Nguyen, Sorin Drăghici
Software Mentions: 12
Published: almost 5 years ago

10.1371/journal.pone.0201830

Exposure to a firefighting overhaul environment without respiratory protection increases immune dysregulation and lung disease risk
Cited by: 14
Author(s): Stephen J. Gainey, Gavin P. Horn, Albert E. Towers, Maci L. Oelschlager, Vincent L. Tir, Jenny Drnevich, Kenneth W. Fent, Stephen Kerber, Denise L. Smith, Gregory G. Freund
Software Mentions: 7
Published: about 6 years ago

10.18632/oncotarget.22636

3D-cultivation of NSCLC cell lines induce gene expression alterations of key cancer-associated pathways and mimic<i>in-vivo</i>conditions
Cited by: 11
Author(s): Gabriele Gamerith, Johannes Michael Rainer, Julia Huber, Hubert Hackl, Zlatko Trajanoski, Stefan Koeck, Edith Lorenz, Johann Kern, Reinhard Kofler, Jens M. Kelm, Heinz Zwierzina, Arno Amann
Software Mentions: 6
Published: almost 7 years ago

10.1186/s12918-018-0620-8

Module-detection approaches for the integration of multilevel omics data highlight the comprehensive response of Aspergillus fumigatus to caspofungin
Cited by: 11
Author(s): Theresia Conrad, Olaf Kniemeyer, Sebastian Henkel, Thomas Krüger, Derek J. Mattern, Vito Valiante, Reinhard Guthke, Ilse D. Jacobsen, Axel A. Brakhage, Sebastian Vlaic, Jörg Linde
Software Mentions: 6
Published: almost 6 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 5 years ago

10.1371/journal.pntd.0009587

Transcriptomic analysis and molecular docking reveal genes involved in the response of Aedes aegypti larvae to an essential oil extracted from Eucalyptus
Cited by: 9
Author(s): Ivana Sierra, José Manuel Latorre-Estivalis, Lucila Traverso, Paula Valeria Gonzalez, Ariel A Aptekmann, Alejandro D. Nadra, Héctor Mario Masuh, Sheila Ons
Software Mentions: 5
Published: about 3 years ago

10.1371/journal.pbio.1000335

The Sexually Antagonistic Genes of Drosophila melanogaster
Cited by: 294
Author(s): Paolo Innocenti, Edward H. Morrow
Software Mentions: 5
Published: over 14 years ago

10.18632/aging.102540

Screening, identification and validation of CCND1 and PECAM1/CD31 for predicting prognosis in renal cell carcinoma patients
Cited by: 23
Author(s): Jianfeng Yang, Shen-Nan Shi, Wenhao Xu, Yunhua Qiu, Jinzhou Zheng, Kyeong-Nam Yu, Xianrang Song, Feng Li, Yu Wang, Rui Wang, Yuanyuan Qu, Hai-Liang Zhang, Xiqiu Zhou
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pcbi.1002223

Transcriptomic Coordination in the Human Metabolic Network Reveals Links between n-3 Fat Intake, Adipose Tissue Gene Expression and Metabolic Health
Cited by: 35
Author(s): Melissa J. Morine, Audrey C. Tierney, Ben van Ommen, Hannelore Daniel, Sinéad Toomey, Ingrid M.F. Gjelstad, Isobel Claire Gormley, Pablo Pérez-Martı́nez, Christian A. Drevon, José López‐Miranda, Helen M. Roche
Software Mentions: 4
Published: almost 13 years ago

10.1186/1471-2105-9-502

Microarray-based gene set analysis: a comparison of current methods
Cited by: 68
Author(s): Sarah Song, Michael A. Black
Software Mentions: 3
Published: almost 16 years ago

10.1186/1471-2105-12-365

Simple Shared Motifs (SSM) in conserved region of promoters: a new approach to identify co-regulation patterns
Cited by: 2
Author(s): Jérémy Gruel, Michel LeBorgne, Nolwenn Le Meur, Nathalie Théret
Software Mentions: 3
Published: about 13 years ago

10.18632/aging.103192

Identification of potential novel differentially-expressed genes and their role in invasion and migration in renal cell carcinoma
Cited by: 3
Author(s): Shen-Nan Shi, Xia Qin, Shuo Wang, Wenfu Wang, Yao Zhu, Yu Lin, Zhou Zhang, Benkang Shi, Xigao Liu
Software Mentions: 2
Published: over 4 years ago

10.1186/1477-7827-7-94

A cross-study gene set enrichment analysis identifies critical pathways in endometriosis
Cited by: 20
Author(s): Hang Zhao, Qishan Wang, Chen Bai, Kan He, Yuchun Pan
Software Mentions: 2
Published: about 15 years ago

10.3892/etm.2013.1392

A study exploring critical pathways in clear cell renal cell carcinoma
Cited by: 12
Author(s): Zisan Zeng, Tengcheng Que, Jiange Zhang, Yanling Hu
Software Mentions: 2
Published: almost 11 years ago

10.3389/fgene.2019.00821

Screening and Identification of Potential Prognostic Biomarkers in Adrenocortical Carcinoma
Cited by: 17
Author(s): Wen Xu, Junlong Wu, Jun Wang, Fang Wan, Hong Kai Wang, Da Long Cao, Yuan Qu, Hai Liang Zhang, Ding Wei Ye
Software Mentions: 1
Published: about 5 years ago

10.18632/aging.102660

Prognostic value of epithelial-mesenchymal transition markers in clear cell renal cell carcinoma
Cited by: 11
Author(s): Hua Xu, Wen Xu, Fei Ren, Jun Wang, Hong Kai Wang, Da Long Cao, Guo Hai Shi, Yuan Qu, Hai Liang Zhang, Ding Wei Ye
Software Mentions: 1
Published: over 4 years ago

10.7150/ijbs.58295

Hexokinase 3 dysfunction promotes tumorigenesis and immune escape by upregulating monocyte/macrophage infiltration into the clear cell renal cell carcinoma microenvironment
Cited by: 31
Author(s): Wenhao Xu, Wangrui Liu, Yue Xu, Xi Tian, Aihetaimujiang Anwaier, Jiaqi Su, Wenkai Zhu, Guohai Shi, Gaomeng Wei, Yaji Huang, Yuanyuan Qu, Hai-Liang Zhang, Dingwei Ye
Software Mentions: 1
Published: almost 4 years ago

10.7150/jca.31454

Elevated MRE11 expression associated with progression and poor outcome in prostate cancer
Cited by: 22
Author(s): Wang Jun, Wen Xu, Wei Yu, Yushan Zhu, Qiong Xiao, Hai Liang Zhang, Dingwei Ye
Software Mentions: 1
Published: almost 6 years ago

10.1136/bmjopen-2020-037517

NEUROlogical Prognosis After Cardiac Arrest in Kids (NEUROPACK) study: protocol for a prospective multicentre clinical prediction model derivation and validation study in children after cardiac arrest
Cited by: 2
Author(s): Barnaby R. Scholefield, James Martín, Kate Penny-Thomas, Sarah Evans, Mirjam Kool, Roger Parslow, Richard Feltbower, Elizabeth S Draper, Victoria Hiley, Alice J Sitch, Hari Krishnan Kanthimathinathan, Kevin Morris, Fang Gao Smith
Software Mentions: 1
Published: about 4 years ago

10.7150/jca.30989

Elevated CD36 expression correlates with increased visceral adipose tissue and predicts poor prognosis in ccRCC patients
Cited by: 24
Author(s): Wenhao Xu, Yuanyuan Qu, Jun Wang, Hongkai Wang, Fangning Wan, Jian Zhao, Hai-Liang Zhang, Dingwei Ye
Software Mentions: 1
Published: almost 6 years ago