Genomics of Gene Expression

Welcome to the ConesaLab website!

Understanding functional aspects of gene expression by combining a wide variety of high-throughput molecular techniques.

Latest Papers
Screenshot 2024-09-15 at 21-29-33 Fig. 1 Overview of SQANTI3
Sqanti3: curation of long-read transcriptomes for accurate identification of known and novel isoforms
TranD
Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD
sqantisim
SQANTI-SIM: a simulator of controlled transcript novelty for lrRNA-seq benchmark
metagenome
Integration of multi-omics data to elucidate keystone unknown taxa within microbialite-forming ecosystems
Screenshot 2024-09-15 at 21-29-33 Fig. 1 Overview of SQANTI3
Sqanti3: curation of long-read transcriptomes for accurate identification of known and novel isoforms
TranD
Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD
sqantisim
SQANTI-SIM: a simulator of controlled transcript novelty for lrRNA-seq benchmark
Research Lines
Long-reads transcriptomics
We are developing methods and software for the analysis of alternative isoform expression and its effect on the phenotype.

Integration of multi-omic data

We have created a wide array of tools for the analysis of multi-omics data including experimental design, removal of batch effects, simulation of datasets, integration, and visualization.

Single-cell and spatial transcriptomics

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Resource and community building

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Our Tools

Our lab develops statistical methods and user-friendly software tools to analyze these multi-omics data. Our most current interest is the application of long reads sequencing technologies for transcriptome analysis and the integration of multi-omics data to model chromatin-metabolome regulation.

Latest News
El Conesa Lab asiste a la Asamble General de la Conexión BCB
La segunda Asamblea General de la Conexión BCB, celebrada en la sede central del CSIC en Madrid, ha sido...
MOSim: bulk and single-cell multi-layer regulatory network simulator.
In this blogpost we present our latest tool, MOSim, developed by Carolina Monzó MOSim, a novel multi-omic...
New paper released in the journal Bioinformatics! ​
8 July, 2024 Priyansh Srivastava, PhD student in the European project INTERCEPT-MDS (https://intercept-mds.eu/)...
Publication of LRGASP Paper in Nature Methods
The Conesa Lab is proud to announce that our collaborative paper from the Long-Read RNA-Seq Genome Annotation...