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: igv

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

Jupyter extension for embedding the genome visualation igv.js in a notebook
9 versions
Latest release: over 3 years ago
48 downloads last month

Papers Mentioning igv 16

Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome
Cited by: 19
Author(s): Richard Edwards, Matthew A. Field, James M. Ferguson, Olga Dudchenko, Jens Keilwagen, Benjamin D. Rosen, Gary S. Johnson, Edward S. Rice, La Deanna Hillier, Jillian M. Hammond, Samuel G. Towarnicki, Arina D. Omer, Ruqayya Khan, Ksenia Skvortsova, Ozren Bogdanović, Robert A. Zammit, E Aiden, Wesley C. Warren, J. William O. Ballard
Software Mentions: 10
Published: over 3 years ago

10.1111/mec.14054

The fire ant social chromosome supergene variant Sb shows low diversity but high divergence from SB
Cited by: 60
Author(s): Rodrigo Pracana, Anurag Priyam, Levantis Ilya, Richard A. Nichols, Yannick Wurm
Software Mentions: 8
Published: over 7 years ago

10.1002/1878-0261.12435

Detection of human papillomavirus in cases of head and neck squamous cell carcinoma by RNA‐seq and VirTect
Cited by: 7
Author(s): Atlas Khan, Qian Liu, Xuelian Chen, Andres Stucky, Parish P. Sedghizadeh, Daniel Adelpour, Xi Zhang, Kai Wang, Jiang Zhong
Software Mentions: 6
Published: over 5 years ago

10.7554/eLife.02200

Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms
Cited by: 206
Author(s): Mary A. Allen, Zdeněk Andrysík, Veronica L. Dengler, Hestia Mellert, Anna L. Guarnieri, John H. Freeman, Kelly D. Sullivan, Matthew D. Galbraith, Xin Luo, W. Lee Kraus, Robin D. Dowell, Joaquín M. Espinosa
Software Mentions: 5
Published: over 10 years ago

10.1002/1878-0261.12491

A 17 gene panel for non‐small‐cell lung cancer prognosis identified through integrative epigenomic‐transcriptomic analyses of hypoxia‐induced epithelial–mesenchymal transition
Cited by: 21
Author(s): Yue‐Lei Chen, Yihe Zhang, Junwen Wang, Na Chen, Weiying Fang, Jianing Zhong, Yi Liu, Rui Qin, Xinxin Yu, Zhen Sun, Fei Gao
Software Mentions: 5
Published: over 5 years ago

10.1111/1751-7915.12328

Understanding butanol tolerance and assimilation in <scp> <i>P</i> </scp> <i>seudomonas putida</i> <scp>BIRD</scp> ‐1: an integrated omics approach
Cited by: 34
Author(s): María del Sol Cuenca, Amalia Roca, Carlos Molina‐Santiago, Estrella Duque, Jean Armengaud, María Gómez–García, Juan L. Ramos
Software Mentions: 3
Published: almost 9 years ago

10.3390/cancers13133176

Epigenetic Upregulation of MAGE-A Isoforms Promotes Breast Cancer Cell Aggressiveness
Cited by: 4
Author(s): Chaeun Oh, Hwa Ryeon Kim, Seungmin Oh, Je Yeong Ko, Yesol Kim, Keunsoo Kang, Young Yang, Jongmin Kim, Jae Seok Roe, Kyung Hyun Yoo
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pgen.1004161

Insights into the Dekkera bruxellensis Genomic Landscape: Comparative Genomics Reveals Variations in Ploidy and Nutrient Utilisation Potential amongst Wine Isolates
Cited by: 81
Author(s): Anthony R. Borneman, Ryan Zeppel, Paul J. Chambers, Chris Curtin
Software Mentions: 2
Published: almost 11 years ago

10.1038/s41419-021-03860-z

FKBP39 controls nutrient dependent Nprl3 expression and TORC1 activity in Drosophila
Cited by: 5
Author(s): Ying Zhou, Jiamei Guo, Xinyu Wang, Yang Cheng, Jianwen Guan, Priyam Barman, Ming-an Sun, Yuanyuan Fu, Wanhong Wei, Chao Feng, Mary A. Lilly, Youheng Wei
Software Mentions: 2
Published: over 3 years ago

10.1111/pbi.12664

RNAi-mediated endogene silencing in strawberry fruit: detection of primary and secondary siRNAs by deep sequencing
Cited by: 9
Author(s): Katja Härtl, Gregor Kalinowski, Thomas Hoffmann, Anja Preuß, Wilfried Schwab
Software Mentions: 2
Published: over 7 years ago

10.1099/mgen.0.000032

Single molecule real-time sequencing of Xanthomonas oryzae genomes reveals a dynamic structure and complex TAL (transcription activator-like) effector gene relationships
Cited by: 62
Author(s): Nicholas J. Booher, Sara C. D. Carpenter, Robert Sebra, Li Wang, Steven L. Salzberg, Jan E. Leach, Adam J. Bogdanove
Software Mentions: 1
Published: about 9 years ago

10.1016/j.cub.2020.09.028

Eco-evolutionary Dynamics Set the Tempo and Trajectory of Metabolic Evolution in Multispecies Communities
Cited by: 14
Author(s): Rachael A. Evans, Andrew P. Beckerman, Rosanna Wright, Simon J. McQueen‐Mason, Neil C. Bruce, Michael A. Brockhurst
Software Mentions: 1
Published: almost 4 years ago

10.3389/fimmu.2018.02542

Regulatory Networks Involving STATs, IRFs, and NFκB in Inflammation
Cited by: 131
Author(s): Ekaterini Platanitis, Thomas Decker
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-017-02548-9

Inhibition of PI3K suppresses propagation of drug-tolerant cancer cell subpopulations enriched by 5-fluorouracil
Cited by: 8
Author(s): Kazunari Ishida, Chie Ito, Yukimi Ohmori, Kohei Kume, Kei Sato, Yuka Koizumi, Akari Konta, Takeshi Iwaya, Mamoru Nukatsuka, Takashi Kobunai, Teiji Takechi, Satoshi Nishizuka
Software Mentions: 1
Published: over 7 years ago

10.3390/jof4010013

Analysis of Transposable Elements in Coccidioides Species
Cited by: 13
Author(s): Theo N. Kirkland, Anna Muszewska, Jason E. Stajich
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pbio.2006057

Cross-resistance is modular in bacteria–phage interactions
Cited by: 74
Author(s): Rosanna Wright, Ville‐Petri Friman, Margaret C. M. Smith, Michael A. Brockhurst
Software Mentions: 1
Published: about 6 years ago