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: goatools

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

Python scripts to find enrichment of GO terms
46 versions
Latest release: 12 months ago
17 dependent packages
4,858 downloads last month

Papers Mentioning goatools 24

Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study
Cited by: 49
Author(s): Marco Galardini, Olivier Clermont, Agnès Baron, Bede P. Busby, Sara Dion, Sören Schubert, Pedro Beltrão, Erick Denamur
Software Mentions: 20
Published: almost 4 years ago

10.12688/f1000research.17548.2

Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python
Cited by: 8
Author(s): Klara Kaleb, Alex Warwick Vesztrocy, Adrian M. Altenhoff, Christophe Dessimoz
Software Mentions: 13
Published: over 5 years ago

10.12688/wellcomeopenres.16430.2

Polysomal mRNA Association and Gene Expression in Trypanosoma brucei
Cited by: 0
Author(s): Michele Tinti, Anna Kelner-Mirôn, Lizzie J. Marriott, Michael A. J. Ferguson
Software Mentions: 11
Published: about 3 years ago

10.15252/msb.20209819

Phosphoproteomics identifies microglial Siglec‐F inflammatory response during neurodegeneration
Cited by: 17
Author(s): Nader Morshed, William T. Ralvenius, Alexi Nott, L. Ashley Watson, Felicia H. Rodriguez, Leyla Anne Akay, Brian A. Joughin, Ping‐Chieh Pao, Jay Penney, Lauren M. LaRocque, Diego Mastroeni, Li Huei Tsai, Forest M. White
Software Mentions: 9
Published: almost 4 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

10.1371/journal.pone.0246052

Transcriptomic profiling of susceptible and resistant flax seedlings after Fusarium oxysporum lini infection
Cited by: 10
Author(s): Aleksandra Boba, Kamil Kostyń, Bartosz Kozak, Iwan Zalewski, Jan Szopa, Anna Kulma
Software Mentions: 8
Published: over 3 years ago

10.3390/ijms21010269

Genome-Wide Identification and Characterization of the Mitochondrial Transcription Termination Factors (mTERFs) in Capsicum annuum L.
Cited by: 20
Author(s): Bi‐Yu Tang, Lingling Xie, Tao Yi, Junheng Lv, Huiping Yang, Xiang Cheng, Feng Liu, Xuexiao Zou
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0147221

Comprehensive Annotation of the Parastagonospora nodorum Reference Genome Using Next-Generation Genomics, Transcriptomics and Proteogenomics
Cited by: 36
Author(s): Robert A. Syme, Kar‐Chun Tan, James K. Hane, Kejal N Dodhia, Thomas Stoll, Marcus L. Hastie, Eiko Furuki, Simon R. Ellwood, Angela H. Williams, Yew‐Foon Tan, Alison C. Testa, Jeffrey J. Gorman, Richard P. Oliver
Software Mentions: 4
Published: over 8 years ago

10.1186/s12859-017-1698-5

NaviSE: superenhancer navigator integrating epigenomics signal algebra
Cited by: 5
Author(s): Alex M. Ascensión, Mikel Arrospide-Elgarresta, Ander Izeta, Marcos J. Araúzo-Bravo
Software Mentions: 4
Published: over 7 years ago

10.1186/s12864-016-3034-2

Transcriptome sequencing reveals genome-wide variation in molecular evolutionary rate among ferns
Cited by: 11
Author(s): Amanda L. Grusz, Carl J. Rothfels, Eric Schuettpelz
Software Mentions: 3
Published: about 8 years ago

10.1186/s12864-021-07837-2

Comparative analyses of the Hymenoscyphus fraxineus and Hymenoscyphus albidus genomes reveals potentially adaptive differences in secondary metabolite and transposable element repertoires
Cited by: 5
Author(s): Malin Elfstrand, Jun Chen, Michelle Cleary, Sandra Halecker, Katarina Ihrmark, Magnus Karlsson, Kateryna Davydenko, Jan Stenlid, Marc Stadler, Mikael Brandström Durling
Software Mentions: 3
Published: about 3 years ago

10.1128/mSystems.00142-16

Integrated Regulatory and Metabolic Networks of the Marine Diatom <i>Phaeodactylum tricornutum</i> Predict the Response to Rising CO <sub>2</sub> Levels
Cited by: 37
Author(s): Jennifer Levering, Christopher L. Dupont, Andrew E. Allen, Bernhard Ø. Palsson, Karsten Zengler
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-42178-x

Exploratory Gene Ontology Analysis with Interactive Visualization
Cited by: 9
Author(s): Junjie Zhu, Qian Zhao, Eugene Katsevich, Chiara Sabatti
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2020.565085

Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
Cited by: 18
Author(s): Ruili Liu, Xianxun Liu, Xuejin Bai, Xiao Chen, Yanjun Dong
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12862-015-0434-x

Positive selection in development and growth rate regulation genes involved in species divergence of the genus Radix
Cited by: 12
Author(s): Barbara Feldmeyer, Bastian Greshake, Elisabeth Funke, Ingo Ebersberger, Markus Pfenninger
Software Mentions: 2
Published: about 9 years ago

10.1186/s12859-021-03989-w

Ranking cancer drivers via betweenness-based outlier detection and random walks
Cited by: 5
Author(s): Cesim Erten, Aissa Houdjedj, Hilal Kazan
Software Mentions: 2
Published: over 3 years ago

10.1093/database/bay114

ZFLNC: a comprehensive and well-annotated database for zebrafish lncRNA
Cited by: 24
Author(s): Xiang Hu, Wen Chen, Jing Li, Shulan Huang, Xuling Xu, Xuan Zhang, Sheng Xiang, Changning Liu
Software Mentions: 1
Published: over 6 years ago

10.3390/microorganisms8121848

Transcriptional Landscape of Waddlia chondrophila Aberrant Bodies Induced by Iron Starvation
Cited by: 3
Author(s): Silvia Ardissone, Aurélie Scherler, Trestan Pillonel, Virginie Martin, Carole Kebbi-Beghdadi, Gilbert Greub
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12864-018-4458-7

Comprehensive analysis of coding-lncRNA gene co-expression network uncovers conserved functional lncRNAs in zebrafish
Cited by: 27
Author(s): Wen Chen, Xuan Zhang, Jing Li, Shulan Huang, Sheng Xiang, Xiang Hu, Changning Liu
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-13-246

Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications
Cited by: 87
Author(s): Jianguo Lü, Eric Peatman, Haibao Tang, Joshua P. Lewis, Zhanjiang Liu
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2229-13-19

Transcriptome analysis of embryo maturation in maize
Cited by: 24
Author(s): Keat Thomas Teoh, Deborah Vicuna Requesens, Shivakumar P. Devaiah, Daniel Johnson, Xiuzhen Huang, John A. Howard, Elizabeth E. Hood
Software Mentions: 1
Published: over 11 years ago

10.3389/fmicb.2018.00406

An Ontology Systems Approach on Human Brain Expression and Metaproteomics
Cited by: 4
Author(s): Adolfo Flores-Saiffe Farías, Adriana P. Mendizabal-Ruiz, J. Alejandro Morales
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-017-12326-2

Dynamic transcriptome and phytohormone profiling along the time of light exposure in the mesocotyl of rice seedling
Cited by: 28
Author(s): Fang Fěng, Hanwei Mei, Ping Fan, Yanan Li, Xiaoyan Xu, Haibin Wei, Mengyao Yan, Lijun Luo
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-020-77094-y

Expression profiling of sexually dimorphic genes in the Japanese quail, Coturnix japonica
Cited by: 3
Author(s): Miki Okuno, Shuntaro Miyamoto, Takehiko Itoh, Masahide Seki, Yutaka Suzuki, Shusei Mizushima, Asato Kuroiwa
Software Mentions: 1
Published: almost 4 years ago