Long-TREC: The Long-Reads Transcriptomics European Consortium. The next generation transcriptome biology revealed by single molecule sequencing technologies

Informations projet

LongTREC

N° de convention de subvention: 101072892

DOI

10.3030/101072892

Date de signature de la CE 14 Juillet 2022

Date de début 1 Octobre 2022

Date de fin 30 Septembre 2026

Financé au titre de

• Marie Skłodowska-Curie Actions (MSCA)

Coût total

Aucune donnée

Contribution de l’UE

€ 2 621 931,00

Coordonné par

AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTIFICAS
Spain

CORDIS fournit des liens vers les livrables publics et les publications des projets HORIZON.

Les liens vers les livrables et les publications des projets du 7e PC, ainsi que les liens vers certains types de résultats spécifiques tels que les jeux de données et les logiciels, sont récupérés dynamiquement sur OpenAIRE .

Livrables

Documents, reports (9)

Interim report including links to a protocol repository

Updated report on the state of library preparation, sequencing and mapping algorithm developments, including links to a protocol repository (i.e. protocols.io) and GitHub for code of novel mapping algorithms

Interim report on the state of algorithm developments in WP4 applied to use cases

Updated progress report on the state of algorithm developments in WP4, including a list of links to GitHub repositories containing code

Initial report on the state of algorithm developments in WP5
Interim report on the state of algorithm developed in WP5 and pipelines comparison

Updated progress report on the state of algorithm developments in WP5 and comparison of pipelines

Initial progress report on the state of algorithm developments in WP3

Progress report on the state of algorithm developments in WP3

Progress report on the state of library preparation, sequencing and mapping algorithm

Progress report on the state of library preparation, sequencing, and mapping algorithm developments.

Interim report on the state of algorithm developed in WP3, including benchmarks

Updated progress report on the state of algorithm developments in WP3, including a list of links to a GitHub repository containing code

Progress report on the state of algorithm developments in WP4
LongTREC website and social network profiles

Publications

Peer reviewed articles (6)

IsoTools 2.0: Software for Comprehensive Analysis of Long-read Transcriptome Sequencing Data

Auteurs: Yalan Bi, Tom Lukas Lankenau, Matthias Lienhard, Ralf Herwig
Publié dans: Journal of Molecular Biology, 2025, ISSN 0022-2836
Éditeur: Elsevier BV
DOI: 10.1016/j.jmb.2025.169049

Icarust, a real-time simulator for Oxford Nanopore adaptive sampling

Auteurs: Rory Munro, Satrio Wibowo, Alexander Payne, Matthew Loose
Publié dans: Bioinformatics, Numéro 40, 2024, ISSN 1367-4811
Éditeur: Oxford University Press (OUP)
DOI: 10.1093/bioinformatics/btae141

Long-read transcriptome sequencing of CLL and MDS patients uncovers molecular effects of<i>SF3B1</i>mutations

Auteurs: Alicja Pacholewska, Matthias Lienhard, Mirko Brüggemann, Heike Hänel, Lorina Bilalli, Anja Königs, Felix Heß, Kerstin Becker, Karl Köhrer, Jesko Kaiser, Holger Gohlke, Norbert Gattermann, Michael Hallek, Carmen D. Herling, Julian König, Christina Grimm, Ralf Herwig, Kathi Zarnack, Michal R. Schweiger
Publié dans: Genome Research, Numéro 34, 2024, ISSN 1088-9051
Éditeur: Cold Spring Harbor Laboratory
DOI: 10.1101/GR.279327.124

Evidence-based unification of potato gene models with the UniTato collaborative genome browser

Auteurs: Maja Zagorščak, Jan Zrimec, Carissa Bleker, Nadja Nolte, Mojca Juteršek, Živa Ramšak, Kristina Gruden, Marko Petek
Publié dans: Frontiers in Plant Science, Numéro 15, 2024, ISSN 1664-462X
Éditeur: Frontiers Media SA
DOI: 10.3389/FPLS.2024.1352253

Toward the use of nanopore RNA sequencing technologies in the clinic: challenges and opportunities

Auteurs: Xanthi-Lida Katopodi, Oguzhan Begik, Eva Maria Novoa
Publié dans: Nucleic Acids Research, Numéro 53, 2025, ISSN 0305-1048
Éditeur: Oxford University Press (OUP)
DOI: 10.1093/NAR/GKAF128

Profiling the epigenome using long-read sequencing

Auteurs: Tianyuan Liu, Ana Conesa
Publié dans: Nature Genetics, Numéro 57, 2025, ISSN 1061-4036
Éditeur: Springer Science and Business Media LLC
DOI: 10.1038/s41588-024-02038-5