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: GenomeBrowser
https://packages.ecosyste.ms/registries/pypi.org/packages/GenomeBrowser
Python classes for making Genomebrowser snapshots.
5 versions
Latest release: over 5 years ago
20 downloads last month
Papers Mentioning GenomeBrowser 19
10.7554/eLife.54655
Hfq CLASH uncovers sRNA-target interaction networks linked to nutrient availability adaptationCited by: 58
Author(s): Ira Alexandra Iosub, Rob W. van Nues, Stuart McKellar, Karen Jule Nieken, Marta Marchioretto, Brandon Sy, Jai J. Tree, Gabriella Viero, Sander Granneman
Software Mentions: 6
Published: over 4 years ago
10.1186/s13073-016-0315-y
The IL-4/STAT6 signaling axis establishes a conserved microRNA signature in human and mouse macrophages regulating cell survival via miR-342-3pCited by: 34
Author(s): Zsolt Czimmerer, Tamás Varga, Máté Kiss, Cesaré Ovando Vázquez, Quang Minh Doan‐Xuan, Dominik Rückerl, Sudhir Gopal Tattikota, Xin Yan, Zsuzsanna Nagy, Bence Dániel, Szilárd Póliska, Attila Horváth, Gergely Nagy, Éva Várallyay, Matthew N. Poy, Judith E. Allen, Zsolt Bacsó, Cei Abreu‐Goodger, László Nagy
Software Mentions: 5
Published: over 8 years ago
10.1080/15476286.2020.1827784
The mRNA derived MalH sRNA contributes to alternative carbon source utilization by tuning maltoporin expression in E. coliCited by: 10
Author(s): Ira Alexandra Iosub, Marta Marchioretto, Rob W. van Nues, Stuart McKellar, Gabriella Viero, Sander Granneman
Software Mentions: 5
Published: about 4 years ago
10.1371/journal.pone.0102398
JAGuaR: Junction Alignments to Genome for RNA-Seq ReadsCited by: 51
Author(s): Yaron S.N. Butterfield, Maayan Kreitzman, Nina Thiessen, Richard Corbett, Yisu Li, Johnson Pang, P. Yussanne, Steven J.M. Jones, İnanç Birol
Software Mentions: 4
Published: over 10 years ago
10.7554/eLife.35551
Ssd1 and Gcn2 suppress global translation efficiency in replicatively aged yeast while their activation extends lifespanCited by: 54
Author(s): Zheng Hu, Bo Xia, Spike D. L. Postnikoff, Zih Jie Shen, Alin Tomoiaga, Troy A. A. Harkness, Ja Hwan Seol, Wei Li, Kaifu Chen, Jessica K. Tyler
Software Mentions: 4
Published: over 6 years ago
10.1038/s41598-017-06200-4
Associating transcription factors and conserved RNA structures with gene regulation in the human brainCited by: 12
Author(s): Nikolai Hecker, Stefan E. Seemann, Asli Silahtaroglu, Walter L. Ruzzo, Jan Gorodkin
Software Mentions: 4
Published: over 7 years ago
10.3791/57633
A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to GenomesCited by: 3
Author(s): Christoph N. Schlaffner, Georg J. Pirklbauer, Andreas Bender, Judith A. Steen, Jyoti S. Choudhary
Software Mentions: 3
Published: over 6 years ago
10.1371/journal.pbio.3000838
A comparison of humans and baboons suggests germline mutation rates do not track cell divisionsCited by: 55
Author(s): Felix L. Wu, Alva I. Strand, Laura A. Cox, Carole Ober, Jeffrey D. Wall, Priya Moorjani, Molly Przeworski
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pone.0204474
GC4S: A bioinformatics-oriented Java software library of reusable graphical user interface componentsCited by: 5
Author(s): Hugo López-Fernández, Miguel Reboiro-Jato, Daniel Glez-Peña, Rosalía Laza, Reyes Pavón, Florentino Fdez-Riverola
Software Mentions: 3
Published: about 6 years ago
10.3390/antiox9080662
Neuroprotective Effect of HIF Prolyl Hydroxylase Inhibition in an In Vitro Hypoxia ModelCited by: 18
Author(s): Maria Savyuk, Mikhail Krivonosov, Tatiana A. Mishchenko, Irina G. Gazaryan, Mikhail Ivanchenko, A. Yu. Khristichenko, Andrey Poloznikov, Dmitry M. Hushpulian, С. В. Никулин, E. A. Tonevitsky, Guzal Abuzarova, Еlena V. Mitroshina, Maria V. Vedunova
Software Mentions: 2
Published: over 4 years ago
10.1007/s12020-017-1287-4
Mutations in proteasome-related genes are associated with thyroid hemiagenesisCited by: 16
Author(s): Bartłomiej Budny, Ewelina Szczepanek‐Parulska, Tomasz Żemojtel, Witold Szaflarski, Małgorzata Rydzanicz, Joanna Wesoły, Luiza Handschuh, Kosma Woliński, Katarzyna Piątek, Marek Niedziela, Katarzyna Ziemnicka, Marek Figlerowicz, Maciej Zabel, Marek Ruchała
Software Mentions: 2
Published: over 7 years ago
10.1186/1471-2407-8-138
A novel diffuse gastric cancer susceptibility variant in E-cadherin (CDH1) intron 2: A case control study in an Italian populationCited by: 13
Author(s): Soroush Nasri, Helen More, Francesco Graziano, Annamaria Ruzzo, Emily Wilson, Anita K. Dunbier, Cushla McKinney, Tony R. Merriman, Parry Guilford, Mauro Magnani, Bostjan Humar
Software Mentions: 2
Published: over 16 years ago
10.1186/1471-2105-11-S1-S37
Hit integration for identifying optimal spaced seedsCited by: 4
Author(s): Won-Hyoung Chung, Seong-Bae Park
Software Mentions: 2
Published: almost 15 years ago
10.1371/journal.pone.0052836
An Integrative Approach to Inferring Gene Regulatory Module NetworksCited by: 5
Author(s): Michael Baitaluk, Sergey Kozhenkov, Julia Ponomarenko
Software Mentions: 2
Published: almost 12 years ago
10.1371/journal.pgen.1004559
Early Mesozoic Coexistence of Amniotes and HepadnaviridaeCited by: 59
Author(s): Alexander Suh, Claudia Weber, Christian Kehlmaier, Edward L. Braun, Edward Green, Uwe Fritz, David A. Ray, Hans Ellegren
Software Mentions: 1
Published: almost 10 years ago
10.1186/s12881-017-0474-8
“Homozygous, and compound heterozygous mutation in 3 Turkish family with Jervell and Lange-Nielsen syndrome: case reports”Cited by: 1
Author(s): Fahrettin Uysal, Burcu Türkgenç, Güven Toksoy, Özlem Bostan, Elif Evke, Zehra Oya Uyguner, Cengiz Yakıcıer, Hülya Kayserili, Ergün Çil, Şehime Gülsün Temel
Software Mentions: 1
Published: about 7 years ago
10.1534/g3.120.401727
Origins and Evolutionary Patterns of the<i>1.688</i>Satellite DNA Family in<i>Drosophila</i>PhylogenyCited by: 15
Author(s): Leonardo Gomes de Lima, Stacey L Hanlon, Jennifer L. Gerton
Software Mentions: 1
Published: about 4 years ago
10.3390/genes11091058
Negative Regulation of Serine Threonine Kinase 11 (STK11) through miR-100 in Head and Neck CancerCited by: 10
Author(s): Gabriela Figueroa‐González, José F. Carrillo-Hernández, Itzel Perez-Rodriguez, David Cantú de León, Alma D. Campos‐Parra, Antonio Martínez-Gutiérrez, Jossimar Coronel-Hernández, Verónica García-Castillo, César López-Camarillo, Oscar Peralta‐Zaragoza, Nadia Jacobo-Herrera, Mariano Guardado-Estrada, Carlos Pérez‐Plasencia
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0013510
Novel Primate-Specific Genes, RMEL 1, 2 and 3, with Highly Restricted Expression in Melanoma, Assessed by New Data Mining ToolCited by: 19
Author(s): Josane F. Sousa, Raul Torrieri, Rodrigo R. Silva, Cristiano Gonçalves Pereira, Valéria Valente, Érico Torrieri, Kamila Chagas Peronni, Waleska Keller Martins, Nair Hideko Muto, Guilherme Francisco, Carla Abdo Brohem, Carlos Gilberto Carlotti, Silvya Stuchi Maria‐Engler, Roger Chammas, Enilza Maria Espreáfico
Software Mentions: 1
Published: about 14 years ago