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: categoryCompare

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

Meta-analysis of high-throughput experiments using feature annotations
1 version
Latest release: 10 months ago
22,141 downloads total

Papers Mentioning categoryCompare 12

10.3389/fgene.2019.00182

Detection of Differentially Expressed Cleavage Site Intervals Within 3′ Untranslated Regions Using CSI-UTR Reveals Regulated Interaction Motifs
Cited by: 9
Author(s): Benjamin J. Harrison, Juw Won Park, Cynthia Gomes, Jeffrey C. Petruska, Matthew R. Sapio, Michael J. Iadarola, Julia H. Chariker, Eric C. Rouchka
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0220728

Advances in gene ontology utilization improve statistical power of annotation enrichment
Cited by: 10
Author(s): Eugene W. Hinderer, Robert M. Flight, Raju Kumar Dubey, James N. MacLeod, Hunter N. B. Moseley
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12864-015-1295-9

Inorganic Arsenic-induced cellular transformation is coupled with genome wide changes in chromatin structure, transcriptome and splicing patterns
Cited by: 39
Author(s): Caitlyn Riedmann, Ye Ma, Manana Melikishvili, Steven Grason Godfrey, Zhou Zhang, Kuey Chu Chen, Eric C. Rouchka, Yvonne Fondufe‐Mittendorf
Software Mentions: 2
Published: over 9 years ago

10.1038/celldisc.2015.46

Involvement of PARP1 in the regulation of alternative splicing
Cited by: 56
Author(s): Elena A. Matveeva, J. Nicholas Maiorano, Qingyang Zhang, Abdallah M. Eteleeb, Paolo Convertini, Jing Chen, Vittoria Infantino, Stefan Stamm, Jiping Wang, Eric C. Rouchka, Yvonne Fondufe‐Mittendorf
Software Mentions: 2
Published: over 8 years ago

10.1016/j.dib.2016.03.012

Data set for transcriptional response to depletion of the Shoc2 scaffolding protein
Cited by: 5
Author(s): Eric C. Rouchka, Myoungkun Jeoung, Eun Ryoung Jang, Jinpeng Liu, Chi Wang, Xiaohong Li, Emilia Galperin
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-019-45636-8

HNRNPA2/B1 is upregulated in endocrine-resistant LCC9 breast cancer cells and alters the miRNA transcriptome when overexpressed in MCF-7 cells
Cited by: 72
Author(s): Carolyn M. Klinge, Kellianne M. Piell, Christine Schaner Tooley, Eric C. Rouchka
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-017-1781-y

Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics
Cited by: 1
Author(s): Eric C. Rouchka, Julia H. Chariker, David Tieri, Juw Won Park, Shreedharkumar D. Rajurkar, Vikas Singh, Nishchal K. Verma, Yan Cui, Mark L. Farman, Bradford Condon, Neil Moore, Jerzy W. Jaromczyk, Jolanta Jaromczyk, Daniel R. Harris, Patrick J. Calie, Eun Kyong Shin, Robert L. Davis, Arash Shaban-Nejad, Joshua M. Mitchell, Robert M Flight, Qing Jun Wang, Richard M. Higashi, Teresa W.‐M. Fan, Andrew N. Lane, Hunter N. B. Moseley, Liangqun Lu, Bernie J. Daigle, Xi Chen, Andrey Smelter, Jerzy W. Jaromczyk, Li Chen, Bailey K. Phan, Nathaniel J. Serpico, Ethan Toney, Caroline E. Melton, Jennifer R. Mandel, Hao Chen, Kazi I. Zaman, Ramin Homayouni, Patrick J. Trainor, Samantha M. Carlisle, Andrew P. DeFilippis, N. Shesh
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-018-26429-x

Transcriptomic response of breast cancer cells to anacardic acid
Cited by: 30
Author(s): David J. Schultz, Abirami Krishna, Stephany L. Vittitow, Negin Alizadeh-Rad, Penn Muluhngwi, Eric C. Rouchka, Carolyn M. Klinge
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-2105-12-S7-A1

Proceedings of the Tenth Annual UT-ORNL-KBRIN Bioinformatics Summit 2011
Cited by: 0
Author(s): Eric C. Rouchka, Robert M. Flight, Ramin Homayouni
Software Mentions: 1
Published: almost 13 years ago

10.3389/fgene.2014.00098

categoryCompare, an analytical tool based on feature annotations
Cited by: 28
Author(s): Robert M. Flight, Benjamin J. Harrison, Fahim Mohammad, Mary Bartlett Bunge, Lawrence Moon, Jeffrey C. Petruska, Eric C. Rouchka
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2105-12-S7-A16

categoryCompare: high-throughput data meta-analysis using gene annotations
Cited by: 0
Author(s): Robert M Flight, Jeffrey C. Petruska, Benjamin J. Harrison, Eric C. Rouchka
Software Mentions: 1
Published: almost 13 years ago

10.1186/s13072-019-0261-1

Coupling of PARP1-mediated chromatin structural changes to transcriptional RNA polymerase II elongation and cotranscriptional splicing
Cited by: 36
Author(s): Elena A. Matveeva, Qamar M. H. Al-Tinawi, Eric C. Rouchka, Yvonne Fondufe‐Mittendorf
Software Mentions: 1
Published: over 5 years ago