Genome Biol January 2016 PMID 26813401

A survey of best practices for RNA-seq data analysis.

Ana Conesa, Pedro Madrigal, Sonia Tarazona, David Gomez-Cabrero, Alejandra Cervera, Andrew McPherson, Michał Wojciech Szcześniak, Daniel J Gaffney, Laura L Elo, Xuegong Zhang, Ali Mortazavi

Mentions

82
Peak: 21 in Nov 2019
across 6 sources since Jan 2019

Extended reach

294,119
potential audience

Total likes

129

Video views

117

Mentions per month

Jan 2019 – May 2025

Where it's discussed

  • X / Twitter56 posts
  • Facebook14 posts
  • Blogs5 articles
  • YouTube3 videos
  • Reddit2 posts
  • News2 articles

AI synopsis

What people are saying

Discussions around the article often emphasize its role as a foundational resource for RNA-seq data analysis. For example, several contributors remarked on its value for beginners, using phrases like 'best start for people who want to learn bulk transcriptomics,' which conveys the article's educational potential. Other posts mentioned its selection as one of the most accessed papers, reinforcing its high perceived impact in the scientific community.

AgreementStrong agreement

The majority of discussions reflect strong agreement with the methodologies and findings presented in the article, highlighting their importance.

InterestHigh interest

There is a high level of interest shown, with many contributors eager to explore the practices and techniques mentioned in the publication.

EngagementModerate engagement

Engagement is somewhat moderate, with some posts providing examples and referring to specific methodologies without extensive discussion.

ImpactHigh impact

Many users believe this article will have a significant influence on best practices for RNA-seq analysis.

Abstract in brief

  • RNA-sequencing (RNA-seq) is a versatile tool used for studying gene expression and requires a tailored analysis pipeline for different applications.
  • The review covers essential steps in RNA-seq data analysis, from experimental design to functional analysis, while also addressing challenges encountered along the way.
  • The article also explores the analysis of small RNAs, integration with other techniques, and future advancements in transcriptomics technology.

Top posts

Most liked on X and Bluesky
Lior Pachter
@lpachter · X

Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of an influential review on best practices for RNA-seq: https://t.co/S0sJoFwBhK

Nov 7, 2019 · 45 likes · 14 shares · 46,869 followers View post →
Lior Pachter
@lpachter · X

@leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co/S0sJoFeZTa

Jun 19, 2019 · 30 likes · 7 shares · 46,869 followers View post →
Pedro Madrigal
@compBiology · X

Wow! Our review 'A survey of best practices for RNA-seq data analysis' was chosen by @GenomeBiology as one of the 20 most-interesting/most-accessed papers of their first 20 years @ConesaLab @calizavi https://t.co/KGJKzIvYqY

Aug 18, 2020 · 9 likes · 1 share · 557 followers View post →
Burak Kahveci
@burakkahveci_ · X

There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides one of the best start for people who want to learn bulk transcriptomics. https://t.co/ajk4aUEDWu #RNASeqAnalysis #transcriptomics #Bioinformatics

Oct 6, 2022 · 9 likes · 5 shares · 500 followers View post →
BioDecoded
@BioDecoded · X

A survey of best practices for RNA-seq data analysis | Genome Biology https://t.co/GJFb0BE8wE #RNAseq #bioinformtics https://t.co/LUWPElhyHq

Sep 29, 2019 · 6 likes · 1 share · 8,901 followers View post →
Inés Lucía Patop
@inespatop · X

@RamosNeuro A few on RNA vs Prot https://t.co/B2Dy6PwgPg https://t.co/M77ym7p9tD and on RNA seq interpret https://t.co/9w9BYlByyo

Sep 15, 2022 · 5 likes · 283 followers View post →

All mentions

Best Practices for RNA-seq Data Analysis

This video provides a survey of best practices for RNA-seq data analysis, an essential tool for studying gene expression. It covers crucial steps from experimental design to functional analysis, while addressing…

豆豆 · Jan 13, 2023 17 views
Martin Paliocha
@paliocha · X

@BullCrys Start reading this? https://t.co/qkuqQuMd5q

Feb 13, 2024 · 2 likes · 208 followers View post →
Aloo Vicc TO
@AloVicky_HG · X

RT @wintergenomics: Este estudio describe los pasos principales en el análisis de datos de #RNAseq: control de calidad, alineación de lectu…

Apr 18, 2023 · 1 share · 266 followers View post →
Winter Genomics
@wintergenomics · X

Este estudio describe los pasos principales en el análisis de datos de #RNAseq: control de calidad, alineación de lecturas, cuantificación de los niveles de genes y transcritos, visualización, lmapeo de #eQTL entre otros. Info: https://t.co/ZGIaqs6PhV https://t.co/RZkhVrDgrc

Apr 18, 2023 · 3 likes · 1 share · 638 followers View post →
Burak Kahveci
@burakkahveci_ · X

@MoLOTSofScience You can look this links. https://t.co/iq3isRI5YF https://t.co/igUCcJGgsg Also, this paper is the best for the beginners https://t.co/ajk4aUEDWu

Feb 24, 2023 · 2 likes · 500 followers View post →
Pedro Madrigal
@compBiology · X

RT @burakkahveci_: There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides on…

Nov 5, 2022 · 5 shares · 557 followers View post →
Omicdata
@omicdata · X

RT @burakkahveci_: There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides on…

Oct 6, 2022 · 5 shares · 33 followers View post →
Pierre Poulain
@pierrepo · X

RT @burakkahveci_: There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides on…

Oct 6, 2022 · 5 shares · 1,615 followers View post →
Bioinformatics Trends 
@BinfoTrends · X

RT @burakkahveci_: There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides on…

Oct 6, 2022 · 5 shares · 8,158 followers View post →
CompChemBio Bot
@CompChemBioBot · X

RT @burakkahveci_: There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides on…

Oct 6, 2022 · 5 shares · 2,761 followers View post →
Burak Kahveci
@burakkahveci_ · X

There are some papers that you can learn new things each reading. Here is one such paper. I think this paper provides one of the best start for people who want to learn bulk transcriptomics. https://t.co/ajk4aUEDWu #RNASeqAnalysis #transcriptomics #Bioinformatics

Oct 6, 2022 · 9 likes · 5 shares · 500 followers View post →
Inés Lucía Patop
@inespatop · X

@RamosNeuro A few on RNA vs Prot https://t.co/B2Dy6PwgPg https://t.co/M77ym7p9tD and on RNA seq interpret https://t.co/9w9BYlByyo

Sep 15, 2022 · 5 likes · 283 followers View post →
Dalia K. M. Khojely
@DaliaACA · X

A survey of best practices for RNA-seq data analysis https://t.co/tRHHLmBM5D

Jun 7, 2022 · 2,088 followers View post →
Hec
@Muscles_n_Mitos · X

RT @metapredict: 2016: claimed n=3 was ok for calculating differential expression (across 10's of thousands of rows https://t.co/DLPybPJWep…

May 18, 2022 · 1 share · 64 followers View post →
Jamie Timmons
@metapredict · X

2016: claimed n=3 was ok for calculating differential expression (across 10's of thousands of rows https://t.co/DLPybPJWep) As implausible as that general advice might seem, in 2022 now DEseq2 and edgeR don't seem to work very well. What a surprise. https://t.co/K646SkONuu

May 18, 2022 · 4 likes · 1 share · 2,052 followers View post →
James.D.B
@JamesDB72801774 · X

A survey of best practices for RNA-seq data analysis https://t.co/sa6X88WUBz

Apr 7, 2022 View post →
Scientific Cockroach
@MVB_science · X

@tanjaslotte Maybe a little older but still useful https://t.co/1miOCbxFB0

Mar 5, 2021 · 2 likes · 202 followers View post →
Ali Mortazavi
@calizavi · X

RT @compBiology: Wow! Our review 'A survey of best practices for RNA-seq data analysis' was chosen by @GenomeBiology as one of the 20 most-…

Aug 18, 2020 · 1 share · 839 followers View post →
Pedro Madrigal
@compBiology · X

Wow! Our review 'A survey of best practices for RNA-seq data analysis' was chosen by @GenomeBiology as one of the 20 most-interesting/most-accessed papers of their first 20 years @ConesaLab @calizavi https://t.co/KGJKzIvYqY

Aug 18, 2020 · 9 likes · 1 share · 557 followers View post →
Dr Shailesh Kumar, PhD, MTech
@Shail2211 · X

RT @CancerEvolution: A generic roadmap for RNA-seq computational analyses. The major analysis steps are listed above the lines for pre-anal…

Feb 1, 2020 · 1 share · 53 followers View post →
Arash Davari Serej
@ireflectit · X

A generic roadmap for RNA-seq computational analyses. The major analysis steps are listed above the lines for pre-analysis, core analysis and advanced analysis. Ref: A survey of best practices for RNA-seq data analysis (https://t.co/BSo3xrU0lU) #singlecell #rnaseq #scRNAseq https://t.co/Fp3meqFzJM

Jan 31, 2020 · 3 likes · 1 share · 1,042 followers View post →
Pedro Madrigal
@compBiology · X

RT @bioinfo_mark: @bevthescientist Here’s a nice paper on best practices. Should get you going in the right direction. I’m also happy to…

Dec 24, 2019 · 1 share · 557 followers View post →
Mark T. W. Ebbert
@bioinfo_mark · X

@bevthescientist Here’s a nice paper on best practices. Should get you going in the right direction. I’m also happy to help. https://t.co/2DSLBRFxvj

Dec 19, 2019 · 2 likes · 1 share · 588 followers View post →
BF Francis Ouellette
@bffo · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 11, 2019 · 14 shares · 6,951 followers View post →
Pedro Madrigal
@compBiology · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 8, 2019 · 14 shares · 557 followers View post →
Fabrice Leclerc
@rnomics · X

https://t.co/T4VNBBfqGo A survey of best practices for RNA-seq data analysis | Genome Biology | Full Text https://t.co/QW9KEqdtZ9 RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be used in all cases. We review all of th…

Nov 8, 2019 · 2,761 followers View post →
Fabrice Leclerc
@rnomics · X

https://t.co/rv12ewG5Um The Tweeted Times - personal newspaper generated from your Twitter account https://t.co/58icWrgPSa posted by friends:  (1) garrymyers: Top RNomics #tweeted story: A survey of best practices for RNA-seq data analysis | Genome Biology | Full Text genom…

Nov 8, 2019 · 2,761 followers View post →
Fabrice Leclerc
@rnomics · X

Top #tweeted story in #bioscience: A survey of best practices for RNA-seq data analysis | Genome Biology | Full Text https://t.co/nPNEzcRqbk, see more https://t.co/kME3G1o122

Nov 8, 2019 · 2,761 followers View post →
Hafiz
@f1zzydoesmicro · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 8, 2019 · 14 shares · 31 followers View post →
Fabrice Leclerc
@rnomics · X

Top @RNomics #tweeted story: A survey of best practices for RNA-seq data analysis | Genome Biology | Full Text https://t.co/nPNEzcRqbk, see more https://t.co/mx2YzvfCax

Nov 8, 2019 · 3 likes · 2,761 followers View post →
Camille Marchet @CamilleMrcht@genomic.social
@CamilleMrcht · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 8, 2019 · 14 shares · 1,129 followers View post →
Fabrice Leclerc
@rnomics · X

A survey of best practices for RNA-seq data analysis | Genome Biology | Full Text https://t.co/T4VNBBfqGo https://t.co/QW9KEqdtZ9 RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be used in all cases. We review all of th…

Nov 8, 2019 · 2,761 followers View post →
GangWu
@GangWu10 · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 47 followers View post →
Athanasios (Athan) Zovoilis
@ZovoilisLab · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 489 followers View post →
GOBLET
@mygobletorg · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 1,308 followers View post →
H3ABioNet
@H3ABioNet · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 9,441 followers View post →
AnaConesa
@anaconesa · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 3,746 followers View post →
Alicia Oshlack
@AliciaOshlack · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 8,905 followers View post →
Amal Katrib (أمل قطريب)
@AmalKatrib · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 358 followers View post →
Jason "boundless delight " Williams
@JasonWilliamsNY · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 5,509 followers View post →
nextgenseek
@nextgenseek · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 6,355 followers View post →
จิตร์ทัศน์
@jittat · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 3,970 followers View post →
Genome Biology
@GenomeBiology · X

RT @lpachter: Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of…

Nov 7, 2019 · 14 shares · 90,007 followers View post →
Lior Pachter
@lpachter · X

Start of the transcriptomics session at #gi2019. First speaker is @anaconesa who is the primary author (with @compBiology) of an influential review on best practices for RNA-seq: https://t.co/S0sJoFwBhK

Nov 7, 2019 · 45 likes · 14 shares · 46,869 followers View post →
Tito
@tito_tasks · X

RT @BioDecoded: A survey of best practices for RNA-seq data analysis | Genome Biology https://t.co/GJFb0BE8wE #RNAseq #bioinformtics https…

Sep 29, 2019 · 1 share · 115 followers View post →
BioDecoded
@BioDecoded · X

A survey of best practices for RNA-seq data analysis | Genome Biology https://t.co/GJFb0BE8wE #RNAseq #bioinformtics https://t.co/LUWPElhyHq

Sep 29, 2019 · 6 likes · 1 share · 8,901 followers View post →
David Ashbrook
@DavidAshbrook · X

@SecondRatMom Off the top of my head, table 1 of this paper, which compares fold-change and power. https://t.co/MizmGVoZSa

Aug 12, 2019 · 1 like · 1,447 followers View post →
Anthony Mathelier
@AMathelier · X

RT @lpachter: @leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co…

Jun 20, 2019 · 7 shares · 2,288 followers View post →
GreiffLab
@victorgreiff · X

RT @lpachter: @leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co…

Jun 20, 2019 · 7 shares · 4,870 followers View post →
Jan Baumbach
@janbaumbach · X

RT @lpachter: @leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co…

Jun 20, 2019 · 7 shares · 858 followers View post →
Pedro Madrigal
@compBiology · X

RT @lpachter: @leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co…

Jun 19, 2019 · 7 shares · 557 followers View post →
Greg Szeto, @gregszeto@genomic.social
@greg_szeto · X

RT @lpachter: @leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co…

Jun 19, 2019 · 7 shares · 1,642 followers View post →
Lior Pachter
@lpachter · X

@leon_anavy @flo_compbio @IgorUlitsky @RNASeqBlog This is a very good review by @anaconesa, @compBiology et al. https://t.co/S0sJoFeZTa

Jun 19, 2019 · 30 likes · 7 shares · 46,869 followers View post →
Diego Forero MD, PhD
@daforerog · X

A survey of best practices for RNA-seq data analysis https://t.co/FsneqQ9XM4

May 6, 2019 · 1 like · 1,596 followers View post →
Miguel A. Minaya
@miguel_minaya_ · X

A cornerstone for RNA-seq data analyses!! A survey of best practices for RNA-seq data analysis https://t.co/n6DnTVij59

Mar 13, 2019 · 1 like · 279 followers View post →
Pedro Madrigal
@compBiology · X

RT @jmirobla: If you want to perform an RNAseq experiment properly, worth to check this review on best practices from @conesagroup @anacone…

Jan 14, 2019 · 10 shares · 557 followers View post →
Samuel Abalde
@saabalde · X

RT @jmirobla: If you want to perform an RNAseq experiment properly, worth to check this review on best practices from @conesagroup @anacone…

Jan 10, 2019 · 10 shares · 330 followers View post →