Academic
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Articles
♠ : This symbol denotes that the authors consider that the two first authors should be regarded as “joint first authors”.
Published
Epimutation detection in the clinical context: guidelines and a use case from a new Bioconductor package
- C Ruiz-Arenas, …, C Hernandez-Ferrer, …, JR Gonzalez
- Epigenetics (2023-07-06)
Patterns of heterochromatin transitions linked to changes in the expression of Plasmodium falciparum clonally variant genes
- L Michel-Todó, C Bancells, …, C Hernandez-Ferrer, …, JR González, A Cortés
- Microbiology Spectrum (2022-12-14)
Multi-omics signatures of the human early life exposome
- L Maitre, M Bustamante, C Hernandez-Ferrer, …, HC Keun, M Vrijheid
- Nature Communications (2022-11-21)
Identification of autosomal cis expression quantitative trait methylation (cis eQTMs) in children’s blood
- C Ruiz-Arenas, C Hernandez-Ferrer, …, JR Gonzalez, M Bustamante
- eLife (2022-03-18)
The RD-Connect Genome-Phenome Analysis Platform: Accelerating diagnosis, research, and gene discovery for rare diseases
- S Laurie, …, C Hernandez-Ferrer, …, S Beltran
- Human Mutation (2022-02-17)
Variability of multi-omics profiles in a population-based child cohort
- M Gallego-Paüls, C Hernandez-Ferrer, …, M Vrijheid, L Maitre
- BMC Medicine (2021-07-22)
The early-life exposome and epigenetic age acceleration in children
- P Prado-Bert, C Ruiz-Arenas, …, C Hernandez-Ferrer, … M Vrijheid, M Bustamante
- Environmental International (2021-06-15)
Solving patients with rare diseases through programmatic reanalysis of genome-phenome data
- L Matalonga, C Hernandez-Ferrer, …, H Graessner, S Beltran
- European Journal of Human Genetics (2021-06-01)
Early Life Multiple Exposures and Child Cognitive Function: A Multi-Centric Birth Cohort Study in Six European Countries
- J Julvez, M López-Vicente, …, C Hernandez-Ferrer, …, X Basagaña, M Vrijheid
- Environmental Pollution (2021-05-24)
WEScover: selection between clinical whole exome sequencing and gene panel testing
- IH Lee, Y Lin, …, C Hernandez-Ferrer, KD Mandl, SW Kong
- BMC Bioinformatics (2021-05-20)
Early-life environmental exposure determinants of child behavior in Europe: a longitudinal, population-based study
- L Maitre, J Julvez, …, C Hernandez-Ferrer, …, J Wright, M Vrijheid
- Environment International (2021-03-25)
In utero and childhood exposure to tobacco smoke and multi-layer molecular signatures in children
- M Vives-Usano, C Hernandez-Ferrer, …, M Vrijheid, M Bustamante
- BMC Medicine (2020-08-19)
A guide to writing systematic reviews of rare disease treatments to generate FAIR-compliant datasets: building a Treatabolome
- A Atalaia, R Thompson, …, C Hernandez-Ferrer, …, S Beltran, G Bonne
- Orphanet Journal of Rare Diseases (2020-08-12)
Association between the pregnancy exposome and fetal growth
- L Agier, X Basagaña, C Hernandez-Ferrer, …, M Vrijheid, R Slama
- International Journal of Epidemiology (2020-03-13)
Assessment of coverage for endogenous metabolites and exogenous chemical compounds using an untargeted metabolomics platform
- SW Kong, C Hernandez-Ferrer
- Pacific Symposium on Biocomputing (2020-01-01)
The Clinical Genome and Ancestry Report (CGAR): An Interactive Web Application for Prioritizing Clinically-implicated Variants from Genome Sequencing Data with Ancestry Composition
- IH Lee, JA Negron, C Hernandez-Ferrer, …, KD Mandl, SW Kong
- Human Mutation (2019-11-06)
Dose and time effects of solar simulated ultraviolet radiation on the in vivo human skin transcriptome
- M Bustamante ♠, C Hernandez-Ferrer ♠, …, M Nieuwenhuijsen, AR Young
- The British Journal of Dermatology (2019-09-16)
Early-Life Environmental Exposures and Blood Pressure in Children
- C Warembourg, L Maitre, …, C Hernandez-Ferrer, …, M Vrijheid, X Basagaña
- Journal of the American College of Cardiology (2019-09-10)
Comprehensive study of the exposome and omic data using rexposome Bioconductor packages
- C Hernandez-Ferrer, G A Wellenius, I Tamayo, X Basagaña, J Sunyer, M Vrijheid, JR Gonzalez
- Bioinformatics (2019-06-27)
Prenatal Particulate Air Pollution and DNA Methylation in Newborns: An Epigenome-Wide Meta-Analysis
- O Gruzieva, C Xu, …, C Hernandez-Ferrer, …, AA Baccarelli, E Melén
- Environmental Health Perspectives (2019-05-31)
Comparative analysis of whole-genome sequencing pipelines to minimize false negative findings
- K Hwang, IH Lee, H Li, DG Won, C Hernandez-Ferrer, JA Negron, SW Kong
- Scientific reports (2019-03-01)
Human Early Life Exposome (HELIX) study: a European population-based exposome cohort
- L Maitre, J de Bont, …,C Hernandez-Ferrer, …, J Wright, M Vrijheid
- BMJ open (2018-09-10)
A systemic approach to identify signaling pathways activated during short-term exposure to traffic-related urban air pollution from human blood
- JE Vargas, N Kubesch, C Hernandez-Ferrer, …, M Nieuwenhuijsen, JR Gonzalez
- Environmental Science and Pollution Research (2018-08-23)
CTDquerier: a bioconductor R package for Comparative Toxicogenomics Database ™ data extraction, visualization and enrichment of environmental and toxicological studies
- C Hernandez-Ferrer, JR Gonzalez
- Bioinformatics (2018-04-24)
Circulating miRNAs, isomiRs and small RNA clusters in human plasma and breast milk
- M Rubio, M Bustamante, C Hernandez-Ferrer, …, JR Gonzalez, A Mayor
- PloS ONE (2018-03-05)
psygenet2r: a R/Bioconductor package for the analysis of psychiatric disease genes
- A Gutiérrez-Sacristán ♠, C Hernandez-Ferrer ♠, JR Gonzalez, LI Furlong
- Bioinformatics (2017-12-15)
The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD3
- M Bustamante ♠, C Hernandez-Ferrer ♠, …, M Nieuwenhuij, AR Younge
- Environmental Research (2017-11-01)
MultiDataSet: an R package for encapsulating multiple data sets with application to omic data integration
- C Hernandez-Ferrer, C Ruiz-Arenas, A Beltran-Gomila, JR González
- BMC Bioinformatics (2017-01-17)
The Pregnancy Exposome: Multiple Environmental Exposures in the INMA-Sabadell Birth Cohort
- O Robinson, X Basagaña, …, C Hernandez-Ferrer, …, R Slama, M Vrijheid
- Environmental Science & Technology (2015-07-13)
affy2sv: an R package to pre-process Affymetrix CytoScan HD and 750K arrays for SNP, CNV, inversion and mosaicism calling
- C Hernandez-Ferrer, I Quintela Garcia, …, LA Pérez-Jurado, JR Gonzalez
- BMC Bioinformatics (2015-05-20)
The PAU camera and the PAU survey at the William Herschel Telescope
- FJ Castander, O Ballester, …, C Hernandez-Ferrer, …, N Tonello; J de Vicente
- SPIE, Ground-based and Airborne Instrumentation for Astronomy IV (2012-09-24)
A motion control networked solution for the PAUCam slow control
- O Ballester, C Pio, C Hernandez-Ferrer, M Albareda-Sirvent
- SPIE, Software and Cyberinfrastructure for Astronomy II (2012-09-24)
Design and implementation of a distributed system for the PAUCam camera control system
- O Ballester, C Pio, C Hernandez-Ferrer, S Serrano, N Tonello
- SPIE, Software and Cyberinfrastructure for Astronomy II (2012-09-24)
Accepted or Submitted
-
In preparation
- Treatabolome DB: a knowledge platform on treatments and interventions for genetic-based diseases
- C Hernandez-Ferrer, …, S Beltran
Aknowledged
- A two-step gas chromatography-tandem mass spectrometry method for measurement of multiple environmental pollutants in human plasma
- CL Johnson, E Jazan, SW Kong, KD Pennell
- Environmental Science and Pollution Research (2020-09-10)
Talks
New RD-Connect GPAP features implemented in collaboration with Solve-RD, EJP-RD and ELIXIR enable the diagnosis of rare disease patients with previously negative WES/WGS.
- L Matalonga, D Piscia, …, C Hernandez-Ferrer, …, I Gut, S Beltran (conductor: L Matalonga)
- European Human Genetics Conference 2022 | Hybrid Conference (program)
- from 2022-06-11 to 2022-06-14 (pending)
El re-análisis sistemático de datos genómicos y fenotípicos de mas de 4000 pacientes con enfermedades raras no diagnosticadas contribuye a resolver más de un 8% de los casos
- L Matalonga Borrel, C Hernandez-Ferrer, …, A Hoischen, S Beltran (conductor: L Matalonga)
- III Congreso Interdisciplinar de Genética Humana (program)
- from 2021-11-03 to 2021-11-05 (performed: 2021-11-03)
Treatabolome database: towards enhancing Rare Diseases’ treatment visibility
- C Hernandez-Ferrer, A Corvó, …, G Bonne, S Beltran (conductor: C Hernandez-Ferrer)
- Solve-RD Annual Meeting 2021 (program)
- from 2021-04-19 to 2021-04-21 (performed: 2021-04-21)
Exposome-Wide Association Study in Autism Spectrum Disorder Using Targeted and Untargeted Metabolomics Platforms
Extending Bioconductor To Exposome Data Analysis
- C Hernandez-Ferrer, JR Gonzalez (conductor: C Hernandez-Ferrer)
- BioC 2017: Where Software and Biology Connect (program)
- from 2017-07-26 to 2017-07-28 (performed: 2017-07-26)
rexposome: a Bioconductor package for characterizing multiple environmental factors and its association with different omics biomarkers and diseases
- C Hernandez-Ferrer, M Vrijheid, JR Gonzalez (conductor: C Hernandez-Ferrer)
- Bioconductor European Developers’ Workshop (program)
- from 2016-12-06 to 2016-12-07 (performed: 2016-12-06)
rexposome: a bioinformatic tool for characterizing multiple environmental factors and its association with different omics biomarkers and diseases
- C Hernandez-Ferrer, M Vrijheid, JR Gonzalez (conductor: C Hernandez-Ferrer)
- The Emory Exposome Summer Course (highlights, agenda)
- to 2016-06-17 (performed: 2016-06-12)
Posters
OpenEBench 2023 update: better support and deeper interactions with benchmarking scientific communities
Federated Learning: General Review and Future Directions
- M Chavero-Díez, S Jouide, C Hernandez-Ferrer, L Codó, S Capella-Gutierrez, K Lekadir, JL Gelpí (conductor: M Chavero-Díez)
- ELIXIR All Hands 2023 (program)
Treatabolome database: towards enhancing Rare Diseases’ treatment visibility
- C Hernandez-Ferrer, A Corvó, …, G Bonne, S Beltran (conductor: A Atalaia)
- European Human Genetics Conference 2021 | Virtual Conference (program)
Treatabolome: a rare diseases treatment awareness project
Improving the RD-Connect GPAP usability to facilitate rare disease diagnosis and gene discovery
- A Corvò, L Matalonga, …, C Hernandez-Ferrer, …, I Gut, S Beltran (conductor: A Corvò)
- VII Jornada de Bioinformàtica i Genòmica (program)
rexposome: A bioinformatic tool for characterizing multiple environmental factors and its association with different omics biomarkers and disease
- C Hernandez-Ferrer, M Vrijheid, JR Gonzalez (conductor: C Hernandez-Ferrer)
- Emory Exposome Summer Course · 2016 (poster, Highlights)
MEAL: Methylation and Expression AnaLyzer
- C Ruiz Arenas, C Hernandez-Ferrer, JR Gonzalez (conductor: C Ruiz Arenas)
- XIII Symposium on Bioinformatics
rexposome: A bioinformatic tool for characterizing multiple environmental factors and its association with different omics biomarkers and disease
- C Hernandez-Ferrer, M Vrijheid, JR Gonzalez (conductor: C Hernandez-Ferrer)
- XIII Symposium on Bioinformatics (poster)
Analyzing SNPs, CNVs, inversions and mosaicisms association studies using Affymetrix CytoScan
The correlation structure of the Pregnancy Exposome: multiple environmental exposures in the INMA-Sabadell Birth Cohort
- O Robinson, M Casas, X Basagaña, C Hernandez-Ferrer, M Vrijheid (conductor: M Casas)
- Prenatal Programming and Toxicity Summit (PPTOX IV)
Analyzing SNPs, CNVs, inversions and mosaicisms association studies using Affymetrix CytoScan
Detection of cancer signatures by integrating different features from omics data combining multi-block and path modelling methods
- JR Gonzalez, M Esnaola, A Caceres, C Hernandez-Ferrer, M Lopez-Sanchez, LA Perez-Jurado (conductor: JR Gonzalez)
- Integrative and Computational Biology Joint Symposium
Teaching
Direction of master thesis in bioinformatics
- Open University of Catalonia // Master in Bioinformatics and Biostatistics
- from 2019-09 to 2021-06 as External Collaborator
Acting as final master thesis director:
- Identificación de biomarcadores de la expresión génica específicos de glioma y clasificación de pacientes por machine learning; by Aitor Gómez and conducted during 2nd semester of 2020-2021 (grade: B; score of 8.7⁄10)
- Estudio sobre la repercusión de la contaminación ambiental en general y de las emisiones diésel en particular sobre el transcriptoma humano; by Laura Pauner and conducted during 2nd semester of 2020-2021 (grade: B, score: 8.8⁄10)
- Implementación de un paquete de python para el análisis de datos genómicos en enfermedades raras; by Irene Sánchez López and conducted during 1st semester of 2020-2021 (grade: A; score of 9.2⁄10)
- Búsqueda de correlaciones entre metilación de sitios CpG y expresión de genes a lo largo del genoma humano; by Óscar Crespo and conducted during 1st semester of 2020-2021 (grade: A; score of 9.4⁄10)
- Impacto de la polución ambiental aérea en la metilación del DNA y microRNAs en ictus isquémico; by Carolina Soriano and conducted during 2nd semester of 2019-2020 (grade: B; score of 8.9⁄10)
- Multi-Omic Data clustering in Brain Cancer; by Paula Fernández and conducted during 1st semester of 2019-2020 (grade: A; score of 9.2⁄10)
Biotools for biostatistics and bioinformatics (1st edition)
- Barcelona Institute for Global Health // Bioinformatic Research Group in Epidemiology
- 2017-05 as Instructor
4’5h: Code management using GIT repositories
Tutorship of high school research projects
- Barcelona Institute for Global Health
- From 2016-06 to 2018-01 as Tutor and/or supervisor
The institution was collaborating with the regional government in order to host some students in an internship during their last year of high school, allowing them to conduct a research project.
- Aproximació als TADs com unitat funcional i la seva associació amb malalties humanes; by David Morón and Maria Solà, from INS Estany de la Ricarda, and conducted during summer of 2017 (grade: A+; a score of 10⁄10)
- Relació entre desenvolupament cognitiu i metilació genética: Una anàlisi exploratòria; by Alba Cabús, from IES Can Puig, and conducted during summer of 2016 (grade: A; score of 10⁄10)
Statistical analysis of omic data in R (3th edition)
- Barcelona Institute for Global Health // Bioinformatic Research Group in Epidemiology
- 2016-05 as Instructor (2 days)
6h: RNASeq data analysis using R and Bioconductor packages
Statistical analysis of omic data in R (2nd edition)
- Barcelona Institute for Global Health // Bioinformatic Research Group in Epidemiology
- 2015-05 as Instructor (1 day)
2h: Genomic data visualization
Introduction to R
- Barcelona Institute for Global Health
- 2014-04 as Instructor (1 day)
4h: Algorithms and programming structures
Introduction to python for bioinformatics
- Centre for Research in Agricultural Genomics // Statistical and population genomics
- 2013-06 as Instructor (2 days)
8h: Basic introduction to python programming for non-programmers in bioinformatics in the field of plant and animal genomics. The session covered from languages description to small bioinformatics exercises.
Fonaments dels Computadors (subject 102765)
- Universitat Autonoma de Barcelona // Bachelor’s Degree in Computer Engineering
- From 2010-09 to 2011-06 as Teaching Assistant
100h: Computer laboratory sessions covering the three main blocks of the subject (Combinatorial Circuits, Sequential Circuits, and Process Unit-Control Unit architecture and processors) as well as individual tutorship on student’s demand.
Certificates
- Associate Professor (Professor lector), AQU (Catalan Government), January 2023