Jordi Abante

@web.ub.edu

Ramón y Cajal Fellow, Department of Biomedical Sciences, School of Medicine
Universitat de Barcelona

Jordi Abante


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https://researchid.co/jordi.abante

RESEARCH, TEACHING, or OTHER INTERESTS

Electrical and Electronic Engineering, Computer Science, Biochemistry, Genetics and Molecular Biology
683

Scholar Citations

10

Scholar h-index

10

Scholar i10-index

RECENT SCHOLAR PUBLICATIONS

  • Integration of Calcium Imaging Traces via Deep Generative Modeling
    B Ros, M Olives-Verger, C Fuses, JM Canals, J Soriano, J Abante
    ICASSP 2026-2026 IEEE International Conference on Acoustics, Speech and … , 2026
    2026
  • snputils: A High-Performance Python Library for Genetic Variation and Population Structure
    D Bonet, M Comajoan Cara, M Barrabés, R Smeriglio, D Agrawal, ...
    bioRxiv, 2026.02. 28.708618 , 2026
    2026
    Citations: 3
  • ARGformer: learning on ancestral recombination graphs with transformers
    D Bonet, C Shanks, MC Cara, J Abante, AG Ioannidis
    bioRxiv, 2026.02. 11.705405 , 2026
    2026
  • Context-Dependent Genetic Modifiers of Huntington’s Disease Revealed Through Multimodal Machine Learning
    C Fuses, G Zavou, B Ros, JM Canals, J Abante
    Machine Learning in Computational Biology, 128-147 , 2025
    2025
  • CD200-based cell sorting results in homogeneous transplantable striatal neuroblasts for human cell therapy for Huntington's disease
    FJ Molina-Ruiz, P Sanders, C Gomis, J Abante, F Londono, G Bombau, ...
    Neurobiology of Disease 209, 106905 , 2025
    2025
    Citations: 3
  • Explainable AI model reveals disease-related mechanisms in single-cell RNA-seq data
    M Usman, O Varea, P Radeva, J Canals, J Abante, D Ortiz
    arXiv preprint arXiv:2501.03923 , 2025
    2025
    Citations: 5
  • Expansion of the neocortex and protection from neurodegeneration by in vivo transient reprogramming
    YR Shen, S Zaballa, X Bech, A Sancho-Balsells, I Rodríguez-Navarro, ...
    Cell Stem Cell 31 (12), 1741-1759. e8 , 2024
    2024
    Citations: 20
  • Leveraging protein-protein interactions in phenotype prediction through graph neural networks
    R Smeriglio, J Rosell-Mirmi, P Radeva, J Abante
    2024 IEEE Conference on Computational Intelligence in Bioinformatics and … , 2024
    2024
    Citations: 4
  • Assessing tree-based phenotype prediction on the uk biobank
    A Meléndez, C López, D Bonet, G Sant, DM Montserrat, J Abante, M Rivas, ...
    2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM … , 2023
    2023
    Citations: 4
  • DIVE: a reference-free statistical approach to diversity-generating and mobile genetic element discovery
    J Abante, PL Wang, J Salzman
    Genome Biology 24 (1), 240 , 2023
    2023
    Citations: 6
  • DNA methylation entropy is associated with DNA sequence features and developmental epigenetic divergence
    Y Fang, Z Ji, W Zhou, J Abante, MA Koldobskiy, H Ji, AP Feinberg
    Nucleic Acids Research , 2023
    2023
    Citations: 17
  • Estimating DNA methylation potential energy landscapes from nanopore sequencing data
    J Abante, S Kambhampati, AP Feinberg, J Goutsias
    Scientific Reports 11 (21619) , 2021
    2021
    Citations: 14
  • Converging genetic and epigenetic drivers of paediatric acute lymphoblastic leukaemia identified by an information-theoretic analysis
    MA Koldobskiy, G Jenkinson, J Abante, VA Rodriguez DiBlasi, W Zhou, ...
    Nature biomedical engineering 5 (4), 360-376 , 2021
    2021
    Citations: 26
  • CpelTdm.jl: a Julia package for targeted differential DNA methylation analysis
    J Abante, J Goutsias
    bioRxiv, 343020 , 2020
    2020
    Citations: 2
  • Detection of haplotype-dependent allele-specific DNA methylation in WGBS data
    J Abante, Y Fang, AP Feinberg, J Goutsias
    Nature communications 11 (1), 5238 , 2020
    2020
    Citations: 32
  • A dysregulated DNA methylation landscape linked to gene expression in MLL-rearranged AML
    MA Koldobskiy, J Abante, G Jenkinson, E Pujadas, A Tetens, F Zhao, ...
    Epigenetics 15 (8), 841-858 , 2020
    2020
    Citations: 25
  • Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae
    C Qiu, H Jin, I Vvedenskaya, JA Llenas, T Zhao, I Malik, AM Visbisky, ...
    Genome biology 21 (1), 132 , 2020
    2020
    Citations: 54
  • Promoter scanning during transcription initiation in Saccharomyces cerevisiae : Pol II in the “shooting gallery”
    C Qiu, H Jin, I Vvedenskaya, JA Llenas, T Zhao, I Malik, AM Visbisky, ...
    Biorxiv, 810127 , 2019
    2019
    Citations: 3
  • Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen
    MP Menden, D Wang, MJ Mason, B Szalai, KC Bulusu, Y Guan, T Yu, ...
    Nature communications 10 (1), 2674 , 2019
    2019
    Citations: 403
  • Ranking genomic features using an information-theoretic measure of epigenetic discordance
    G Jenkinson, J Abante, MA Koldobskiy, AP Feinberg, J Goutsias
    BMC bioinformatics 20 (1), 175 , 2019
    2019
    Citations: 17

MOST CITED SCHOLAR PUBLICATIONS

  • Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen
    MP Menden, D Wang, MJ Mason, B Szalai, KC Bulusu, Y Guan, T Yu, ...
    Nature communications 10 (1), 2674 , 2019
    2019
    Citations: 403
  • Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae
    C Qiu, H Jin, I Vvedenskaya, JA Llenas, T Zhao, I Malik, AM Visbisky, ...
    Genome biology 21 (1), 132 , 2020
    2020
    Citations: 54
  • An information-theoretic approach to the modeling and analysis of whole-genome bisulfite sequencing data
    G Jenkinson, J Abante, AP Feinberg, J Goutsias
    BMC bioinformatics 19 (1), 87 , 2018
    2018
    Citations: 39
  • Detection of haplotype-dependent allele-specific DNA methylation in WGBS data
    J Abante, Y Fang, AP Feinberg, J Goutsias
    Nature communications 11 (1), 5238 , 2020
    2020
    Citations: 32
  • Converging genetic and epigenetic drivers of paediatric acute lymphoblastic leukaemia identified by an information-theoretic analysis
    MA Koldobskiy, G Jenkinson, J Abante, VA Rodriguez DiBlasi, W Zhou, ...
    Nature biomedical engineering 5 (4), 360-376 , 2021
    2021
    Citations: 26
  • A dysregulated DNA methylation landscape linked to gene expression in MLL-rearranged AML
    MA Koldobskiy, J Abante, G Jenkinson, E Pujadas, A Tetens, F Zhao, ...
    Epigenetics 15 (8), 841-858 , 2020
    2020
    Citations: 25
  • Expansion of the neocortex and protection from neurodegeneration by in vivo transient reprogramming
    YR Shen, S Zaballa, X Bech, A Sancho-Balsells, I Rodríguez-Navarro, ...
    Cell Stem Cell 31 (12), 1741-1759. e8 , 2024
    2024
    Citations: 20
  • DNA methylation entropy is associated with DNA sequence features and developmental epigenetic divergence
    Y Fang, Z Ji, W Zhou, J Abante, MA Koldobskiy, H Ji, AP Feinberg
    Nucleic Acids Research , 2023
    2023
    Citations: 17
  • Ranking genomic features using an information-theoretic measure of epigenetic discordance
    G Jenkinson, J Abante, MA Koldobskiy, AP Feinberg, J Goutsias
    BMC bioinformatics 20 (1), 175 , 2019
    2019
    Citations: 17
  • Estimating DNA methylation potential energy landscapes from nanopore sequencing data
    J Abante, S Kambhampati, AP Feinberg, J Goutsias
    Scientific Reports 11 (21619) , 2021
    2021
    Citations: 14
  • DIVE: a reference-free statistical approach to diversity-generating and mobile genetic element discovery
    J Abante, PL Wang, J Salzman
    Genome Biology 24 (1), 240 , 2023
    2023
    Citations: 6
  • Explainable AI model reveals disease-related mechanisms in single-cell RNA-seq data
    M Usman, O Varea, P Radeva, J Canals, J Abante, D Ortiz
    arXiv preprint arXiv:2501.03923 , 2025
    2025
    Citations: 5
  • Leveraging protein-protein interactions in phenotype prediction through graph neural networks
    R Smeriglio, J Rosell-Mirmi, P Radeva, J Abante
    2024 IEEE Conference on Computational Intelligence in Bioinformatics and … , 2024
    2024
    Citations: 4
  • Assessing tree-based phenotype prediction on the uk biobank
    A Meléndez, C López, D Bonet, G Sant, DM Montserrat, J Abante, M Rivas, ...
    2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM … , 2023
    2023
    Citations: 4
  • HiMMe: using genetic patterns as a proxy for genome assembly reliability assessment
    J Abante, N Ghaffari, CD Johnson, A Datta
    BMC genomics 18 (1), 694 , 2017
    2017
    Citations: 4
  • snputils: A High-Performance Python Library for Genetic Variation and Population Structure
    D Bonet, M Comajoan Cara, M Barrabés, R Smeriglio, D Agrawal, ...
    bioRxiv, 2026.02. 28.708618 , 2026
    2026
    Citations: 3
  • CD200-based cell sorting results in homogeneous transplantable striatal neuroblasts for human cell therapy for Huntington's disease
    FJ Molina-Ruiz, P Sanders, C Gomis, J Abante, F Londono, G Bombau, ...
    Neurobiology of Disease 209, 106905 , 2025
    2025
    Citations: 3
  • Promoter scanning during transcription initiation in Saccharomyces cerevisiae : Pol II in the “shooting gallery”
    C Qiu, H Jin, I Vvedenskaya, JA Llenas, T Zhao, I Malik, AM Visbisky, ...
    Biorxiv, 810127 , 2019
    2019
    Citations: 3
  • CpelTdm.jl: a Julia package for targeted differential DNA methylation analysis
    J Abante, J Goutsias
    bioRxiv, 343020 , 2020
    2020
    Citations: 2
  • Computational considerations in transcriptome assemblies and their evaluation, using high quality human rna-seq data
    N Ghaffari, J Abante, R Singh, PD Blood, CD Johnson
    Proceedings of the XSEDE16 Conference on Diversity, Big Data, and Science at … , 2016
    2016
    Citations: 2