| Title: |
Open Problems in Extracellular RNA Data Analysis: Insights From an ERCC Online Workshop |
| Authors: |
Alexander, Roger, P; Kitchen, Robert, R; Tosar, Juan, Pablo; Roth, Matthew; Mestdagh, Pieter; E. A. Max, Klaas; Rozowsky, Joel; Elżbieta Kaczor-Urbanowicz, Karolina; Chang, Justin; Balaj, Leonora; Losic, Bojan; L. van Nostrand, Eric; Laplante, Emily; Mateescu, Bogdan; S. White, Brian; Yu, Rongshan; Milosavljevic, Aleksander; Stolovitzky, Gustavo; M. Spengler, Ryan |
| Contributors: |
Extracellular RNA Communication Consortium Phoenix, AZ, USA (ERCC - exRNA); Massachusetts General Hospital Boston; Harvard Medical School Boston (HMS); Institut Pasteur de Montevideo; Pasteur Network (Réseau International des Instituts Pasteur); University of the Republic of Uruguay; Baylor College of Medicine (BCM); Baylor University; Universiteit Gent = Ghent University = Université de Gand (UGent); Rockefeller University New York; Yale University New Haven; University of California Los Angeles (UCLA); University of California (UC); Icahn School of Medicine at Mount Sinai New York (MSSM); Universität Zürich Zürich = University of Zurich (UZH); The Jackson Laboratory Bar Harbor (JAX); Xiamen University; IBM Thomas J. Watson Research Center; IBM; University of Wisconsin-Madison |
| Source: |
ISSN: 1664-8021 ; Frontiers in Genetics ; https://riip.hal.science/pasteur-05022510 ; Frontiers in Genetics, 2022, 12, pp.778416. ⟨10.3389/fgene.2021.778416⟩. |
| Publisher Information: |
CCSD; Frontiers Media |
| Publication Year: |
2022 |
| Collection: |
Réseau International des Instituts Pasteur, Paris: HAL-RIIP |
| Subject Terms: |
extracellular RNA; RNA-seq; RNA sequencing; deconvolulion; batch variation; DREAM challenge; tissue of origin; biomarker discovery; [SDV]Life Sciences [q-bio] |
| Description: |
International audience ; We now know RNA can survive the harsh environment of biofluids when encapsulated in vesicles or by associating with lipoproteins or RNA binding proteins. These extracellular RNA (exRNA) play a role in intercellular signaling, serve as biomarkers of disease, and form the basis of new strategies for disease treatment. The Extracellular RNA Communication Consortium (ERCC) hosted a two-day online workshop (April 19–20, 2021) on the unique challenges of exRNA data analysis. The goal was to foster an open dialog about best practices and discuss open problems in the field, focusing initially on small exRNA sequencing data. Video recordings of workshop presentations and discussions are available (https://exRNA.org/exRNAdata2021-videos/). There were three target audiences: experimentalists who generate exRNA sequencing data, computational and data scientists who work with those groups to analyze their data, and experimental and data scientists new to the field. Here we summarize issues explored during the workshop, including progress on an effort to develop an exRNA data analysis challenge to engage the community in solving some of these open problems. |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| Relation: |
info:eu-repo/semantics/altIdentifier/pmid/35047007; PUBMED: 35047007; PUBMEDCENTRAL: PMC8762274 |
| DOI: |
10.3389/fgene.2021.778416 |
| Availability: |
https://riip.hal.science/pasteur-05022510; https://riip.hal.science/pasteur-05022510v1/document; https://riip.hal.science/pasteur-05022510v1/file/Open%20Problems.pdf; https://doi.org/10.3389/fgene.2021.778416 |
| Rights: |
https://creativecommons.org/licenses/by/4.0/ ; info:eu-repo/semantics/OpenAccess |
| Accession Number: |
edsbas.84B34100 |
| Database: |
BASE |