bioconductor: RNASeqPower | Projects

10.1186/s13059-016-0881-8

A survey of best practices for RNA-seq data analysis
Cited by: 1,691
Author(s): Ana Conesa, Pedro Madrigal, Sonia Tarazona, David Gomez-Cabrero, Alejandra Cervera, Andrew McPherson, Michał Wojciech Szcześniak, Daniel J. Gaffney, Laura L. Elo, Xuegong Zhang, A Mortazavi
Software Mentions: 21
Published: almost 9 years ago

10.1177/2515841419835460

RNA-sequencing in ophthalmology research: considerations for experimental design and analysis
Cited by: 6
Author(s): Nicholas Owen, Mariya Moosajee
Software Mentions: 9
Published: almost 6 years ago

10.1016/j.devcel.2018.07.005

Transcriptional Convergence of Oligodendrocyte Lineage Progenitors during Development
Cited by: 184
Author(s): Sueli Marques, David van Bruggen, Darya Vanichkina, Elisa M. Floriddia, Hermany Munguba, Leif Väremo, Stefania Giacomello, Ana Mendanha Falcão, Mandy Meijer, Åsa K. Björklund, Jens Hjerling-Leffler, Ryan J. Taft, Gonçalo Castelo‐Branco
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pone.0224879

Long non-coding RNAs and latent HIV – A search for novel targets for latency reversal
Cited by: 17
Author(s): Wim Trypsteen, Cory H. White, Amey Mukim, Celsa A. Spina, Ward De Spiegelaere, Steve Lefever, Vicente Planelles, Alberto Bosque, Christopher H. Woelk, Linos Vandekerckhove, Nadejda Beliakova-Bethell
Software Mentions: 8
Published: about 5 years ago

10.18632/oncotarget.16664

MiRNA profiling of gastrointestinal stromal tumors by next-generation sequencing
Cited by: 31
Author(s): Ugnė Gyvytė, Simonas Juzėnas, Violeta Šaltenienė, Juozas Kupčinskas, Lina Poškienė, Laimutis Kučinskas, Sonata Jarmalaitė, Kristina Stuopelytė, Rūta Steponaitienė, Georg Hemmrich-Stanisak, Matthias Hübenthal, Alexander Link, Sabine Franke, André Franke, Dalia Pangonytė, Vaiva Lesauskaitė, Limas Kupčinskas, Jurgita Skiecevičienė
Software Mentions: 8
Published: over 7 years ago

10.7554/eLife.09800

Cell type-specific transcriptomics of hypothalamic energy-sensing neuron responses to weight-loss
Cited by: 177
Author(s): Fredrick E. Henry, Ken Sugino, Adam Tozer, Tiago Branco, Scott M. Sternson
Software Mentions: 6
Published: about 9 years ago

10.3390/ijms22147322

Effect of the Electromagnetic Field (EMF) Radiation on Transcriptomic Profile of Pig Myometrium during the Peri-Implantation Period—An In Vitro Study
Cited by: 6
Author(s): Ewa Monika Drzewiecka, Wiktoria Kozlowska, Łukasz Paukszto, Agata Żmijewska, Pawel Jozef Wydorski, J Jastrzebski, Anita Franczak
Software Mentions: 6
Published: over 3 years ago

10.1242/dmm.047225

Hearing impairment due to Mir183/96/182 mutations suggests both loss-of-function and gain-of-function effects
Cited by: 10
Author(s): Morag A. Lewis, Francesca Di Domenico, Neil J. Ingham, Haydn M. Prosser, Karen P. Steel
Software Mentions: 6
Published: almost 4 years ago

10.1038/onc.2016.382

Genomic modelling of the ESR1 Y537S mutation for evaluating function and new therapeutic approaches for metastatic breast cancer
Cited by: 125
Author(s): Alison Harrod, Janet S. Fulton, Van Nguyen, Manikandan Periyasamy, L Ramos-Garcia, C-F Lai, Gergana Metodieva, Alex de Giorgio, Richard Williams, Delfran Batista dos Santos, Pablo Gómez, M-L Lin, Metodi V. Metodiev, Justin Stebbing, Leandro Castellano, Luca Magnani, R. Charles Coombes, Laki Buluwela, Simak Ali
Software Mentions: 5
Published: about 8 years ago

10.1128/mBio.00575-18

Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis
Cited by: 76
Author(s): Emily M. Nowicki, Raghav Shroff, Jacqueline A. Singleton, Diane E. Renaud, Debra L. Wallace, Julie Drury, Jolene Zirnheld, Brock Colleti, Andrew D. Ellington, Richard J. Lamont, David A. Scott, Marvin Whiteley
Software Mentions: 5
Published: over 6 years ago

10.1186/s12859-018-2191-5

RnaSeqSampleSize: real data based sample size estimation for RNA sequencing
Cited by: 54
Author(s): Shilin Zhao, Chung I. Li, Yan Guo, Quanhu Sheng, Yu Shyr
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-017-3797-0

Differentially expressed genes from RNA-Seq and functional enrichment results are affected by the choice of single-end versus paired-end reads and stranded versus non-stranded protocols
Cited by: 20
Author(s): Susan M. Corley, Karen L. MacKenzie, Annemiek Beverdam, Louise F. Roddam, Marc R. Wilkins
Software Mentions: 4
Published: over 7 years ago

10.7717/peerj.11020

Differential gene expression in a tripartite interaction:Drosophila,Spiroplasmaand parasitic wasps
Cited by: 4
Author(s): Victor Manuel Higareda Alvear, Mariana Mateos, Diego Cortez, Cécilia Tamborindeguy, Esperanza Martínez‐Romero
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0140049

Transcriptome Analysis of CD4+ T Cells in Coeliac Disease Reveals Imprint of BACH2 and IFNγ Regulation
Cited by: 29
Author(s): Emma M. Quinn, Ciara Coleman, Ben Molloy, Patricia Domínguez Castro, Paul Cormican, Valerie Trimble, Nasir Mahmud, Ross McManus
Software Mentions: 4
Published: about 9 years ago

10.1038/s41368-018-0037-7

Increased virulence of the oral microbiome in oral squamous cell carcinoma revealed by metatranscriptome analyses
Cited by: 74
Author(s): Susan Yost, Philip Stashenko, Yoon-Hee Choi, Maria A. Kukuruzinska, Caroline A. Genco, Andrew Salama, Ellen O. Weinberg, Carolyn D. Kramer, Jorge Frias-Lopez
Software Mentions: 4
Published: about 6 years ago

10.1002/ece3.5956

Transcriptomic regulation of seasonal coat color change in hares
Cited by: 13
Author(s): Mafalda S. Ferreira, Paulo C. Alves, Colin M. Callahan, Iwona Giska, Liliana Farelo, Hannes Jenny, L. Scott Mills, Klaus Hackländer, Jeffrey M. Good, José Melo‐Ferreira
Software Mentions: 3
Published: almost 5 years ago

10.3390/genes10100801

Transcriptomics of Tasmanian Devil (Sarcophilus Harrisii) Ear Tissue Reveals Homogeneous Gene Expression Patterns across a Heterogeneous Landscape
Cited by: 5
Author(s): Alexandra K. Fraik, Corey R. Quackenbush, Mark J. Margres, Sébastien Comte, David G. Hamilton, Christopher P. Kozakiewicz, Menna Lloyd Jones, Rodrigo Hamede, Paul A. Hohenlohe, Andrew Storfer, Joanna L. Kelley
Software Mentions: 3
Published: about 5 years ago

10.1186/s12929-021-00718-6

HCV eradication with IFN-based therapy does not completely restore gene expression in PBMCs from HIV/HCV-coinfected patients
Cited by: 4
Author(s): Óscar Brochado, Isidoro Martı́nez, Juan Berenguer, Luz María Medrano, Juan González-García, María Ángeles Jiménez-Sousa, Ana Carrero, Víctor Hontañón, Jordi Navarro, Josep M. Guardiola, Amanda Fernández‐Rodríguez, Salvador Resino
Software Mentions: 3
Published: over 3 years ago

10.1186/s12920-017-0270-5

Post-operative atrial fibrillation examined using whole-genome RNA sequencing in human left atrial tissue
Cited by: 17
Author(s): Martin I. Sigurdsson, Louis A. Saddic, Mahyar Heydarpour, Tzuu-Wang Chang, Prem Shekar, Sary F. Aranki, Gregory S. Couper, Stanton K. Shernan, Jochen D. Muehlschlegel, Simon C. Body
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms21124338

Adaptation of the Marine Bacterium Shewanella baltica to Low Temperature Stress
Cited by: 16
Author(s): Anna Kłoska, Grzegorz M. Cech, Marta Sadowska, Klaudyna Krause, Agnieszka Szalewska-Pałasz, Paweł Olszewski
Software Mentions: 2
Published: over 4 years ago

10.1186/s12920-018-0379-1

Transcriptomic signatures reveal immune dysregulation in human diabetic and idiopathic gastroparesis
Cited by: 37
Author(s): Madhusudan Grover, Simon J. Gibbons, Asha Nair, Cheryl E. Bernard, Adeel S. Zubair, Seth T. Eisenman, Laura Wilson, Laura Miriel, Pankaj J. Pasricha, Henry P. Parkman, Irene Sarosiek, Richard W. McCallum, Kenneth L. Koch, Thomas L. Abell, William J. Snape, Braden Kuo, Robert J. Shulman, Travis J. McKenzie, Todd A. Kellogg, Michael L. Kendrick, James Tonascia, Frank A. Hamilton, Gianrico Farrugia
Software Mentions: 2
Published: over 6 years ago

10.3389/fped.2020.00197

Clinical Protocol for a Longitudinal Cohort Study Employing Systems Biology to Identify Markers of Vaccine Immunogenicity in Newborn Infants in The Gambia and Papua New Guinea
Cited by: 10
Author(s): Olubukola T. Idoko, Kinga K. Smolen, Oghenebrume Wariri, Abdulazeez Imam, Casey P. Shannon, Tida Dibassey, Joann Diray‐Arce, Alansana Darboe, Julia Strandmark, Rym Ben‐Othman, Oludare A. Odumade, Kerry McEnaney, Nelly Amenyogbe, William Pomat, Simon van Haren, Guzman Sánchez-Schmitz, Ryan R. Brinkman, Hanno Steen, Robert E. W. Hancock, Scott J. Tebbutt, Peter Richmond, Anita H. J. van den Biggelaar, Tobias R. Kollmann, Ofer Levy, Al Ozonoff, Beate Kampmann
Software Mentions: 1
Published: over 4 years ago

Ecosyste.ms: Papers

Projects: bioconductor: RNASeqPower

Papers Mentioning RNASeqPower 22