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: pypi: cooler

https://packages.ecosyste.ms/registries/pypi.org/packages/cooler

Sparse binary format for genomic interaction matrices.
45 versions
Latest release: over 1 year ago
13 dependent packages
3,152 downloads last month

Papers Mentioning cooler 7

Sensitivity of cohesin–chromatin association to high-salt treatment corroborates non-topological mode of loop extrusion
Cited by: 4
Author(s): Arkadiy K. Golov, Anastasia V. Golova, А. В. Гаврилов, Sergey V. Razin
Software Mentions: 6
Published: over 3 years ago

10.1371/journal.pgen.1009691

Induction of a chromatin boundary in vivo upon insertion of a TAD border
Cited by: 11
Author(s): Andréa Willemin, Lucille Lopez-Delisle, Christopher Chase Bolt, Marie-Laure Gadolini, Denis Duboule, Eddie Rodríguez-Carballo
Software Mentions: 6
Published: over 3 years ago

10.1186/s12915-018-0608-2

Migration through a small pore disrupts inactive chromatin organization in neutrophil-like cells
Cited by: 35
Author(s): Elsie C. Jacobson, Jo K. Perry, David S. Long, Ada L. Olins, Bryon E. Wright, Mark H. Vickers, Justin M. O’Sullivan
Software Mentions: 6
Published: about 6 years ago

10.1186/s13059-020-01986-5

HiNT: a computational method for detecting copy number variations and translocations from Hi-C data
Cited by: 43
Author(s): Wang Su, Soohyun Lee, Chong Chu, Dhawal Jain, Peter Kerpedjiev, Geoffrey M. Nelson, Jennifer Walsh, B. Alver, Peter J. Park
Software Mentions: 4
Published: almost 5 years ago

10.1016/j.isci.2021.102741

Derepression of inflammation-related genes link to microglia activation and neural maturation defect in a mouse model of Kleefstra syndrome
Cited by: 3
Author(s): Ayumi Yamada, Takae Hirasawa, Kayako Nishimura, Chikako Shimura, Naomi Kogo, Kei Fukuda, Madoka Kato, Masaki Yokomori, Tetsutaro Hayashi, Mana Umeda, Mika Yoshimura, Yoichiro Iwakura, Itoshi Nikaido, Shigeyoshi Itohara, Yoichi Shinkai
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-021-83903-9

Erythrocytes 3D genome organization in vertebrates
Cited by: 10
Author(s): Anastasia Ryzhkova, Alena Taskina, А. А. Хабарова, Veniamin Fishman, Nariman Battulin
Software Mentions: 2
Published: almost 4 years ago

10.7717/peerj.9566

Cumulative contact frequency of a chromatin region is an intrinsic property linked to its function
Cited by: 2
Author(s): Margarita D Samborskaia, Aleksandra A. Galitsyna, Ilya A. Pletenev, Anna Trofimova, Andrey A. Mironov, Mikhail S. Gelfand, Ekaterina E. Khrameeva
Software Mentions: 1
Published: over 4 years ago