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: Glimma

https://packages.ecosyste.ms/registries/bioconductor.org/packages/Glimma

Interactive HTML graphics
1 version
Latest release: about 1 year ago
1 dependent package
120,754 downloads total

Papers Mentioning Glimma 17

10.1038/s41598-020-80165-9

Multi-level remodelling of chromatin underlying activation of human T cells
Cited by: 23
Author(s): Naiara G. Bediaga, Hannah D. Coughlan, Timothy M. Johanson, Alexandra L. Garnham, Gaetano Naselli, Jan Schröder, Liam G. Fearnley, Esther Bandala‐Sanchez, Rhys S. Allan, Gordon K. Smyth, Leonard C. Harrison
Software Mentions: 14
Published: almost 4 years ago

10.12688/f1000research.12544.1

Easy and efficient ensemble gene set testing with EGSEA
Cited by: 45
Author(s): Monther Alhamdoosh, Charity W. Law, Tian Li, Julie Sheridan, Milica Ng, Matthew E. Ritchie
Software Mentions: 12
Published: about 7 years ago

10.7554/eLife.55529

Smchd1 is a maternal effect gene required for genomic imprinting
Cited by: 22
Author(s): Iromi Wanigasuriya, Quentin Gouil, Sarah Kinkel, Andrés Tapia del Fierro, Tamara Beck, Ellise A Roper, Kelsey Breslin, Jessica M Stringer, Karla J. Hutt, Heather Lee, Andrew Keniry, Matthew E. Ritchie, Marnie E. Blewitt
Software Mentions: 12
Published: about 4 years ago

10.12688/f1000research.27893.1

A guide to creating design matrices for gene expression experiments
Cited by: 18
Author(s): Charity W. Law, Kathleen Zeglinski, Xueyi Dong, Monther Alhamdoosh, Gordon K. Smyth, Matthew E. Ritchie
Software Mentions: 12
Published: about 4 years ago

10.1172/jci.insight.145854

Cell-autonomous retinoic acid receptor signaling has stage-specific effects on mouse enteric nervous system
Cited by: 6
Author(s): Tao Gao, Elizabeth C. Wright-Jin, Rajarshi Sengupta, Jessica B. Anderson, Robert O. Heuckeroth
Software Mentions: 10
Published: over 3 years ago

10.1371/journal.pone.0250344

One dog’s waste is another dog’s wealth: A pilot study of fecal microbiota transplantation in dogs with acute hemorrhagic diarrhea syndrome
Cited by: 13
Author(s): Arnon Gal, Patrick C. Barko, Patrick J. Biggs, Kristene Gedye, Anne C. Midwinter, David A. Williams, Richard K. Burchell, P. Pazzi
Software Mentions: 7
Published: over 3 years ago

10.12688/f1000research.9005.3

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR
Cited by: 297
Author(s): Charity W. Law, Monther Alhamdoosh, Shian Su, Xueyi Dong, Tian Li, Gordon K. Smyth, Matthew E. Ritchie
Software Mentions: 7
Published: almost 6 years ago

10.3389/fimmu.2020.628804

Transcriptomic Analysis of Long-Term Protective Immunity Induced by Vaccination With Mycoplasma gallisepticum Strain ts-304
Cited by: 5
Author(s): Sathya N Kulappu Arachchige, Neil D. Young, Anna Kanci Condello, Oluwadamilola S Omotainse, Amir H. Noormohammadi, Nadeeka K. Wawegama, Glenn F. Browning
Software Mentions: 6
Published: almost 4 years ago

10.1038/s41598-020-72988-3

Machine learning approach to integrated endometrial transcriptomic datasets reveals biomarkers predicting uterine receptivity in cattle at seven days after estrous
Cited by: 10
Author(s): María Belén Rabaglino, Haja N. Kadarmideen
Software Mentions: 5
Published: about 4 years ago

10.1007/s00442-019-04499-6

Resistance is futile: RNA-sequencing reveals differing responses to bat fungal pathogen in Nearctic Myotis lucifugus and Palearctic Myotis myotis
Cited by: 20
Author(s): Thomas M. Lilley, Jenni M. Prokkola, Anna Blomberg, Steve Paterson, Joseph S. Johnson, Gregory G. Turner, Tomáš Bartonička, Erik Bachorec, DeeAnn M. Reeder, Kenneth A. Field
Software Mentions: 5
Published: over 5 years ago

10.1186/s12864-018-5396-0

s·nr: a visual analytics framework for contextual analyses of private and public RNA-seq data
Cited by: 0
Author(s): Paul Klemm, Peter Frommolt, Jan-Wilhelm Kornfeld
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-021-90095-9

miRNAs of Aedes aegypti (Linnaeus 1762) conserved in six orders of the class Insecta
Cited by: 1
Author(s): Iram P. Rodríguez‐Sánchez, Daniel Rafael Saldaña-Torres, Olga Karina Villanueva-Segura, María Lourdes Garza‐Rodríguez, Mayra A. Gómez‐Govea, Ghongwei Liang, María de Lourdes Ramírez‐Ahuja, Margarita L. Martínez‐Fierro, Iván Delgado‐Enciso, Laura Elia Martínez-de-Villarreal, Yu Zhou, Adriana E. Flores-Suárez, Xi Chen, Diana Reséndez‐Pérez, Chenyu Zhang, Gustavo Ponce‐García
Software Mentions: 5
Published: over 3 years ago

10.3390/ijms22116159

Virus–Host Interaction Gets Curiouser and Curiouser. PART II: Functional Transcriptomics of the E. coli DksA-Deficient Cell upon Phage P1vir Infection
Cited by: 2
Author(s): Grzegorz M. Cech, Agnieszka Szalewska-Pałasz, Katarzyna Potrykus, Anna Kłoska
Software Mentions: 4
Published: over 3 years ago

10.1093/bioinformatics/btx094

Glimma: interactive graphics for gene expression analysis
Cited by: 120
Author(s): Shian Su, Charity W. Law, Casey Ah-Cann, Marie Liesse Asselin-Labat, Marnie E. Blewitt, Matthew E. Ritchie
Software Mentions: 4
Published: almost 8 years ago

10.3390/cells10020452

Upregulation of COX4-2 via HIF-1α in Mitochondrial COX4-1 Deficiency
Cited by: 7
Author(s): Liza Douiev, Chaya Miller, Shmuel Ruppo, Hadar Benyamini, Bassam Abu‐Libdeh, Ann Saada
Software Mentions: 3
Published: almost 4 years ago

10.3390/cancers13102455

Epigenetic Modulation of Radiation-Induced Diacylglycerol Kinase Alpha Expression Prevents Pro-Fibrotic Fibroblast Response
Cited by: 5
Author(s): Chun‐Shan Liu, Réka Tóth, Ali Bakr, Ashish Goyal, Saiful Islam, Kersten Breuer, Anand Mayakonda, Yu-Yu Lin, Peter Stepper, Tomasz P. Jurkowski, Marlon R. Veldwijk, Elena Sperk, Carsten Herskind, Pavlo Lutsik, Dieter Weichenhan, Christoph Plass, Peter Schmezer, Odilia Popanda
Software Mentions: 3
Published: over 3 years ago

10.1186/s12859-019-2702-z

DEvis: an R package for aggregation and visualization of differential expression data
Cited by: 17
Author(s): Adam Price, Adrian Caciula, Cheng Guo, Bohyun Lee, Juliet Morrison, Angela L. Rasmussen, W. Ian Lipkin, Komal Jain
Software Mentions: 2
Published: almost 6 years ago