🧬 Unlocking Long-Read Transcriptomics: End-to-End Analysis of Long Reads in OmicsBox
Unlocking Long-Read Transcriptomics: End-to-End Analysis of Long Reads in OmicsBox End-to-End Analysis of Long Reads in OmicsBox Fabian Jetzinger, Doctoral Candidate in BioBam, explores how OmicsBox provides a comprehensive, end-to-end pipeline for long-read RNA-sequencing. By moving beyond gene-level analysis, researchers can resolve the complexity of isoforms created through alternative splicing. The OmicsBox Workflow: Pre-processing & […]
👩🔬📢 LongTREC in action: Ana Conesa Talks About Reading the Transcriptome on CienciaEs
Ana Conesa, Coordinator of LongTREC and CSIC researcher at the Institute for Integrative Systems Biology (I2SysBio, CSIC-UV), was interviewed by Ángel Rodríguez Lozano on Hablando con Científicos, the science podcast of CienciaEs, in an episode titled “El transcriptoma y su lectura” (The transcriptome and how to read it). In this engaging conversation (in Spanish), Ana […]
👩🔬📢 LongTREC in action: Fabian Jetzinger and Tianyuan Liu Bring Artificial Intelligence to I2SysBio
On 9 July 2024, Fabian Jetzinger and Tianyuan Liu, Doctoral Candidates at BioBam and I2SysBio respectively, gave a seminar to the whole Institute for Integrative Systems Biology (I2SysBio, CSIC-UV) on artificial intelligence applied to bioinformatics. Fabian explained what AI is and delved into its use for machine learning, while Tianyuan focused on ChatGPT and its […]
👩🔬📢 LongTREC in action: Inspiring the Winners of the Spanish Biology Olympiad
On 3 July 2024, the Genomics of Gene Expression (GGE) Lab at I2SysBio (CSIC-UV) welcomed the winners of the Spanish Biology Olympiad. Tianyuan Liu and Fabian Jetzinger, Doctoral Candidates at I2SysBio and BioBam respectively, together with Alejandro Paniagua, PhD student at the GGE Lab (FPU fellowship), guided these talented young students through the lab and […]
LongTREC presents: Evidence-based unification of potato gene models with the UniTato collaborative genome browser
LongTREC presents: Evidence-based unification of potato gene models with the UniTato collaborative genome browser Maja Zagorščak, Jan Zrimec, Carissa Bleker, Nadja Nolte, Mojca Juteršek, Živa Ramšak, Kristina Gruden, Marko Petek Potato is a key food crop and a model for studying how plants cope with stresses such as drought and disease. To study it, scientists […]
🧬Unlocking Long-Read Transcriptomics: Isoform Identification and Quantification with IsoQuant
Isoform Identification and Quantification with IsoQuant In today’s BioBam article, Fabian Jetzinger, Doctoral Candidate, introduces IsoQuant, a powerful tool for isoform identification and quantification in long-read transcriptomics. IsoQuant sets itself apart from traditional tools through its unique graph-based strategy, which constructs an intron-graph to define complex transcript models from PacBio or ONT data. […]
LongTREC presents: Icarust, a real-time simulator for Oxford Nanopore adaptive sampling
LongTREC presents: Icarust, a real-time simulator for Oxford Nanopore adaptive sampling Rory Munro, Satrio Wibowo, Alexander Payne, Matthew Loose Nanopore sequencers read DNA and RNA as long molecules pass through tiny pores, and they do it in real time. This makes “adaptive sampling” possible: while a molecule is being read, software checks its first part […]