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: GenomicInteractions
https://packages.ecosyste.ms/registries/bioconductor.org/packages/GenomicInteractions
Utilities for handling genomic interaction data
1 version
Latest release: 10 months ago
7 dependent packages
38,355 downloads total
Papers Mentioning GenomicInteractions 10
10.3389/fonc.2020.00423
Computational Oncology in the Multi-Omics Era: State of the ArtCited by: 55
Author(s): Guillermo de Anda-Jáuregui, Enrique Hernández‐Lemus
Software Mentions: 46
Published: over 4 years ago
10.12688/f1000research.13577.2
Using regulatory genomics data to interpret the function of disease variants and prioritise genes from expression studiesCited by: 2
Author(s): Enrico Ferrero
Software Mentions: 21
Published: over 6 years ago
10.1186/s12864-015-2140-x
GenomicInteractions: An R/Bioconductor package for manipulating and investigating chromatin interaction dataCited by: 54
Author(s): Nathan Harmston, Elizabeth Ing-Simmons, Malcolm Perry, Anja Barešić, Boris Lenhard
Software Mentions: 15
Published: over 8 years ago
10.1186/s12859-019-3029-5
CAGEfightR: analysis of 5′-end data using R/BioconductorCited by: 35
Author(s): Malte Thodberg, Axel Thieffry, Kristoffer Vitting-Seerup, Robin Andersson, Albin Sandelin
Software Mentions: 13
Published: almost 5 years ago
10.12688/f1000research.8759.2
Infrastructure for genomic interactions: Bioconductor classes for Hi-C, ChIA-PET and related experimentsCited by: 16
Author(s): Aaron T. L. Lun, Malcolm Perry, Elizabeth Ing-Simmons
Software Mentions: 10
Published: about 8 years ago
10.1186/s13059-018-1432-2
FOCS: a novel method for analyzing enhancer and gene activity patterns infers an extensive enhancer–promoter mapCited by: 57
Author(s): Tom Aharon Hait, David Amar, Ron Shamir, Ran Elkon
Software Mentions: 10
Published: about 6 years ago
10.1186/s13073-021-00908-9
scGRNom: a computational pipeline of integrative multi-omics analyses for predicting cell-type disease genes and regulatory networksCited by: 16
Author(s): Ting Jin, Peter Rehani, Mufang Ying, Jiawei Huang, Shuang Liu, Panagiotis Roussos, Daifeng Wang
Software Mentions: 7
Published: about 3 years ago
10.1038/s41375-020-0856-3
Contribution of CTCF binding to transcriptional activity at the HOXA locus in NPM1-mutant AML cellsCited by: 19
Author(s): Reza Ghasemi, Heidi Struthers, Elisabeth R. Wilson, David H. Spencer
Software Mentions: 5
Published: about 4 years ago
10.1371/journal.pcbi.1004809
QuIN: A Web Server for Querying and Visualizing Chromatin Interaction NetworksCited by: 11
Author(s): Asa Thibodeau, Eladio J. Márquez, Oscar Junhong Luo, Yijun Ruan, Francesca Menghi, Dong-Guk Shin, Michael L. Stitzel, Paola Vera-Licona, Duygu Ucar
Software Mentions: 4
Published: about 8 years ago
10.1186/s12864-019-6088-0
7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifsCited by: 10
Author(s): Jonas Ibn-Salem, Miguel A. Andrade‐Navarro
Software Mentions: 4
Published: almost 5 years ago