Genome Biol April 2023 PMID 37069586

Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs.

Maria Katsantoni, Erik van Nimwegen, Mihaela Zavolan

Mentions

10
Peak: 6 in Jul 2022
across 2 sources since Jul 2022

Extended reach

36,429
potential audience

Total likes

11

Video views

33

Mentions per month

Jul 2022 – Aug 2023

Where it's discussed

  • X / Twitter9 posts
  • YouTube1 videos

AI synopsis

What people are saying

The discussions reveal a balanced appreciation for the methodological advances, with mentions of terms like 'compendium', 'binding sites', and 'motifs' indicating technical focus. The tone is professional yet enthusiastic about the potential for improved understanding in RNA-protein interactions, as seen in phrases like 'yields a comprehensive database' and references to 'bioinformatics' and 'computation'. This reflects a community interested in the scientific progress and applications stemming from the publication.

AgreementModerate agreement

Most discussions highlight the value and improvements brought by the RCRUNCH tool, indicating general support for the publication's findings.

InterestModerate interest

Participants show moderate interest, focusing on the technical aspects and potential applications rather than emotional or broad societal impacts.

EngagementModerate engagement

Comments include specific mentions of RBP binding sites, motifs, and the significance for bioinformatics, suggesting active engagement with the research.

ImpactModerate impact

The conversations imply the work could influence future studies in RNA biology and computational analysis, though direct practical impacts are not explicitly emphasized.

Abstract in brief

  • RCRUNCH is a comprehensive tool for analyzing CLIP data, specifically useful for identifying where RNA-binding proteins (RBPs) attach to RNA and what sequence motifs they prefer.
  • It can handle complex data, including reads that map to multiple locations or span across different gene regions, and it accounts for various background signals to improve accuracy.
  • Using RCRUNCH on ENCODE's eCLIP data, researchers created a detailed, standardized database of RBP binding sites and motifs, facilitating studies on how proteins regulate gene expression after transcription.]

Top posts

Most liked on X and Bluesky
NCCR RNA & Disease
@NCCR_RNADisease · X

Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRUNCH yields a compendium of #RNA-binding #protein binding sites and motifs" @biorxivpreprint https://t.co/U543OO8hBi @M_Katsantoni #Bioinformatics #Computation https://t.co/m2ucX5LJJP

Jul 8, 2022 · 5 likes · 2 shares · 1,416 followers View post →
NCCR RNA & Disease
@NCCR_RNADisease · X

Publication by the @ZavolanLab and @NimwegenLab w/ 1st author @M_Katsantoni "Improved analysis of (e)#CLIP data with RCRUNCH yields a compendium of #RNA-binding #protein binding sites and motifs" @GenomeBiology https://t.co/EsxjdTFlou https://t.co/tr2EQ5pbU6

Apr 20, 2023 · 4 likes · 2 shares · 1,416 followers View post →
bioRxiv Bioinfo
@biorxiv_bioinfo · X

Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs https://t.co/oTpZJNcTVl #biorxiv_bioinfo

Jul 6, 2022 · 2 likes · 18,067 followers View post →
Bioinformatics Trends 
@BinfoTrends · X

RT @NCCR_RNADisease: Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRU…

Jul 8, 2022 · 2 shares · 8,159 followers View post →
NimwegenLab
@NimwegenLab · X

RT @NCCR_RNADisease: Publication by the @ZavolanLab and @NimwegenLab w/ 1st author @M_Katsantoni "Improved analysis of (e)#CLIP data with R…

Apr 20, 2023 · 2 shares · 3,585 followers View post →
CompChemBio Bot
@CompChemBioBot · X

RT @NCCR_RNADisease: Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRU…

Jul 8, 2022 · 2 shares · 2,761 followers View post →

All mentions

Giorgos Tsaousis
@g_tsaousis · X

RT @NCCR_RNADisease: Publication by the @ZavolanLab and @NimwegenLab w/ 1st author @M_Katsantoni "Improved analysis of (e)#CLIP data with R…

Apr 20, 2023 · 2 shares · 320 followers View post →
NimwegenLab
@NimwegenLab · X

RT @NCCR_RNADisease: Publication by the @ZavolanLab and @NimwegenLab w/ 1st author @M_Katsantoni "Improved analysis of (e)#CLIP data with R…

Apr 20, 2023 · 2 shares · 3,585 followers View post →
NCCR RNA & Disease
@NCCR_RNADisease · X

Publication by the @ZavolanLab and @NimwegenLab w/ 1st author @M_Katsantoni "Improved analysis of (e)#CLIP data with RCRUNCH yields a compendium of #RNA-binding #protein binding sites and motifs" @GenomeBiology https://t.co/EsxjdTFlou https://t.co/tr2EQ5pbU6

Apr 20, 2023 · 4 likes · 2 shares · 1,416 followers View post →
Bioinformatics Trends 
@BinfoTrends · X

RT @NCCR_RNADisease: Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRU…

Jul 8, 2022 · 2 shares · 8,159 followers View post →
CompChemBio Bot
@CompChemBioBot · X

RT @NCCR_RNADisease: Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRU…

Jul 8, 2022 · 2 shares · 2,761 followers View post →
NCCR RNA & Disease
@NCCR_RNADisease · X

Preprint by the @NimwegenLab & @ZavolanLab (@biozentrum @UniBasel_en ) " Improved analysis of (e)#CLIP data with #RCRUNCH yields a compendium of #RNA-binding #protein binding sites and motifs" @biorxivpreprint https://t.co/U543OO8hBi @M_Katsantoni #Bioinformatics #Computation https://t.co/m2ucX5LJJP

Jul 8, 2022 · 5 likes · 2 shares · 1,416 followers View post →
Biorxiv Reddit
@BiorxivReddit · X

Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs https://t.co/FbtLGTlAZi

Jul 7, 2022 · 39 followers View post →
Helio Rocha
@_elioRocha · X

#bioRxiv Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs #bioinfo https://t.co/Hq7jZ3Q12m

Jul 7, 2022 · 609 followers View post →
bioRxiv Bioinfo
@biorxiv_bioinfo · X

Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs https://t.co/oTpZJNcTVl #biorxiv_bioinfo

Jul 6, 2022 · 2 likes · 18,067 followers View post →