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: HTSeqGenie
https://packages.ecosyste.ms/registries/bioconductor.org/packages/HTSeqGenie
A NGS analysis pipeline.
1 version
Latest release: about 1 year ago
11,023 downloads total
Papers Mentioning HTSeqGenie 12
10.7554/eLife.62250
Age-related changes in polycomb gene regulation disrupt lineage fidelity in intestinal stem cellsCited by: 11
Author(s): Helen M Tauc, Imilce A. Rodriguez‐Fernandez, Jason A. Hackney, Michał Pawlak, Tal Oron, Jerome Korzelius, Hagar F. Moussa, Subhra Chaudhuri, Zora Modrušan, Bruce A Edgar, Heinrich Jasper
Software Mentions: 10
Published: almost 4 years ago
10.1016/j.celrep.2020.107843
Alzheimer’s Patient Microglia Exhibit Enhanced Aging and Unique Transcriptional ActivationCited by: 194
Author(s): Karpagam Srinivasan, Brad A. Friedman, Ainhoa Etxeberría, Melanie A. Huntley, Marcel P. van der Brug, Oded Foreman, Jonathan S. Paw, Zora Modrušan, Thomas G. Beach, Geidy E. Serrano, David V. Hansen
Software Mentions: 5
Published: over 4 years ago
10.1172/jci.insight.143626
Molecular mapping of interstitial lung disease reveals a phenotypically distinct senescent basal epithelial cell populationCited by: 34
Author(s): Daryle J. DePianto, Jason A. Vander Heiden, Katrina B. Morshead, Kan Sun, Zora Modrušan, Grace Teng, Paul J. Wolters, Joseph R. Arron
Software Mentions: 5
Published: over 3 years ago
10.1371/journal.pone.0244439
The peptide symporter SLC15a4 is essential for the development of systemic lupus erythematosus in murine modelsCited by: 14
Author(s): Arna Katewa, Eric Suto, Jessica Hui, Jose Heredia, Jie Liang, Jason A. Hackney, Keith R. Anderson, Tuija Alcantar, Natasha Bacarro, Debra Dunlap, Jeffrey Eastham, Andrés Paler-Martı́nez, Xin Y. Rairdan, Zora Modrušan, Wyne P. Lee, Cary D. Austin, Daniel Lafkas, Nico Ghilardi
Software Mentions: 5
Published: almost 4 years ago
10.3389/fcell.2020.00808
Integrated Microarray and RNAseq Transcriptomic Analysis of Retinal Pigment Epithelium/Choroid in Age-Related Macular DegenerationCited by: 10
Author(s): Dhanach Dhirachaikulpanich, Xin Li, Louise F. Porter, Luminita Paraoan
Software Mentions: 4
Published: over 4 years ago
10.1186/s13058-018-0933-y
HER2 is not a cancer subtype but rather a pan-cancer event and is highly enriched in AR-driven breast tumorsCited by: 44
Author(s): Anneleen Daemen, Gerard Manning
Software Mentions: 4
Published: almost 7 years ago
10.3389/fimmu.2021.662443
An Integrated Genomic, Proteomic, and Immunopeptidomic Approach to Discover Treatment-Induced NeoantigensCited by: 17
Author(s): Niclas Olsson, Marlene L Heberling, Lichao Zhang, Suchit Jhunjhunwala, Qui Phung, Sarah Lin, Veronica G. Anania, Jennie R. Lill, Joshua E. Elias
Software Mentions: 4
Published: over 3 years ago
10.7554/eLife.62320
Multiplexed proteomics of autophagy-deficient murine macrophages reveals enhanced antimicrobial immunity via the oxidative stress responseCited by: 9
Author(s): Timurs Maculins, Erik Verschueren, Trent Hinkle, Meena Choi, Patrick Chang, Cécile Chalouni, Shilpa Rao, Youngsu Kwon, Junghyun Lim, Anand Kumar Katakam, Ryan C. Kunz, Brian K. Erickson, Ting Huang, Tsung-Heng Tsai, Olga Vitek, Mike Reichelt, Yasin Şenbabaoğlu, Brent McKenzie, John R. Rohde, Ivan Đikić, Donald S. Kirkpatrick, Aditya Murthy
Software Mentions: 4
Published: over 3 years ago
10.7554/eLife.20725
Dual leucine zipper kinase-dependent PERK activation contributes to neuronal degeneration following insultCited by: 49
Author(s): Martin Larhammar, Sarah Huntwork‐Rodriguez, Zhiyu Jiang, Hilda Solanoy, Arundhati Sengupta Ghosh, Bei Wang, Joshua S. Kaminker, Kevin Huang, Jeffrey Eastham-Anderson, Michael Siu, Zora Modrušan, Madeline M. Farley, Marc Tessier‐Lavigne, Joseph W. Lewcock, Trent A. Watkins
Software Mentions: 2
Published: over 7 years ago
10.1186/s12864-015-2291-9
Complex regulation of ADAR-mediated RNA-editing across tissuesCited by: 61
Author(s): Melanie A. Huntley, Melanie Lou, Leonard D. Goldstein, Michael C. Lawrence, Gerrit J.P. Dijkgraaf, Joshua S. Kaminker, Robert Gentleman
Software Mentions: 2
Published: almost 9 years ago
10.1186/2049-3002-2-20
Metabolic and transcriptional profiling reveals pyruvate dehydrogenase kinase 4 as a mediator of epithelial-mesenchymal transition and drug resistance in tumor cellsCited by: 106
Author(s): Yuting Sun, Anneleen Daemen, Georgia Hatzivassiliou, David Arnott, Catherine Wilson, Guanglei Zhuang, Min Gao, Peter Liu, Aaron Boudreau, Leisa Johnson, Jeff Settleman
Software Mentions: 1
Published: about 10 years ago