Articles

Variability of multi-omics profiles in a population-based child cohort
M Gallego-Paüls, C Hernandez-Ferrer, M Bustamente, M Vrijheid, L Maitre
BMC Medicine  (2021-03-30) submitted
 
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) accepted
 
The early-life exposome and epigenetic age acceleration in children
P Prado-Bert, M Vives-Usano, ..., C Hernandez-Ferrer, ... M Vrijheid, M Bustamante
Environmental International  (2021-02-10) submitted
 
Multi-omics signatures of the human early life exposome
L Maitre, M Bustamante, C Hernandez-Ferrer, D Thiel, ..., M Coen, JR González, HC Keun, M Vrijheid
Cell  (2021-02-03) submitted
 
WEScover: selection between clinical whole exome sequencing and gene panel testing
IH Lee, Y Lin, WJ Alvarez, C Hernandez-Ferrer, KD Mandl, S Kong
BMC Bioinformtics  (2020-12-17) submitted
 
Solving patients with rare diseases through programmatic reanalysis of genome-phenome data
L Matalonga, Carles Hernandez-Ferrer, D Piscia, ..., H Graessner, S Beltran
European Journal of Human Genetics  (2020-11-13) accepted
 
Identification of blood autosomal cis-expression quantitative trait methylation (cis-eQTM) in children
C Ruiz-Arenas, C Hernandez-Ferrer, M Vives-Usano, ..., M Vrijheid, JR Gonzalez, M Bustamante
bioRxiv  (2020-11-05) bioRxiv
 
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  (2020-10-23) submitted
 
In utero and childhood exposure to tobacco smoke and multi-layer molecular signatures in children
M Vives-Usano, C Hernandez-Ferrer, L Maitre, ..., V Vrijheid, M Bustamante
BMC Medicine  (2020-08-19) published
 
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) published
 
Association between the pregnancy exposome and fetal growth
L Agier, X Basagaña, C Hernandez-Ferrer, L Maitre, I Tamayo Uria, ..., M Vrijheid, R Slama
International Journal of Epidemiology  (2020-03-13) published
 
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) published
 
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, W Jefferson Alvarez, KD Mandl, SW Kong
Human Mutation  (2019-11-06) published
 
Dose and time effects of solar simulated ultraviolet radiation on the in vivo human skin transcriptome
M Bustamante*, C Hernandez‐Ferrer*, A Tewari, Y Sarria, GI Harrison, E Puigdecanet, L Nonell, W Kang, MR Friedländer, X Estivill, JR González, M Nieuwenhuijsen, AR Young
The British Journal of Dermatology  (2019-09-16) published
 
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) published
 
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) published
 
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) published
 
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) published
 
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) published
 
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, G Carrasco-Turigas, M Bustamante, M Nieuwenhuijsen, JR Gonzalez
Environmental science and pollution research international  (2018-08-23) published
 
CTDquerier: a bioconductor R package for Comparative Toxicogenomics Database (TM) data extraction, visualization and enrichment of environmental and toxicological studies
C Hernandez-Ferrer, JR Gonzalez
Bioinformatics  (2018-04-24) published
 
Circulating miRNAs, isomiRs and small RNA clusters in human plasma and breast milk
M Rubio, M Bustamante, C Hernandez-Ferrer, D Fernandez-Orth, L Pantano, Y Sarria, M Piqué-Borras, K Vellve, S Agramunt, R Carreras, X Estivill, JR Gonzalez, A Mayor
PloS ONE  (2018-03-05) published
 
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) published
 
The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD3
M Bustamante*, C Hernandez-Ferrer*, Y Sarria, GI Harrison, L Nonell, W Kang, MR Friedländer, X Estivill, JR González, M Nieuwenhuij, AR Younge
Environmental Research  (2017-11-01) published
 
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) published
 
The Pregnancy Exposome: Multiple Environmental Exposures in the INMA-Sabadell Birth Cohort
O Robinson, X Basagaña, L Agier, M de Castro, C Hernandez-Ferrer, JR Gonzalez, J. Grimalt, M Nieuwenhuijsen, J Sunyer, R Slama, M Vrijheid
Environmental Science & Technology  (2015-07-13) published
 
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, K Danielski, A Carracedo, LA Pérez-Jurado, JR Gonzalez
BMC Bioinformatics  (2015-05-20) published
 

Talks

The Treatabolome flags treatable genes and variants: an emerging concept
A Atalaia, R Thompson, L Matalonga, C Hernandez-Ferrer, A Corvo, ..., S Beltran, G Bonne, and the Treatabolome Project Group
World Muscle Society Virtual Congress 2021  program
to 2021-09-24 (performed: None)
 
Treatabolome database: towards enhancing Rare Diseases’ treatment visibility
C Hernandez-Ferrer, A Corvó, L Matalonga, ..., H Lochmuller, G Bonne, S Beltran
Solve-RD Annual Meeting 2021  program
to 2021-04-21 (performed: 2021-04-21)
 
Exposome-Wide Association Study in Autism Spectrum Disorder Using Targeted and Untargeted Metabolomics Platforms
C Hernandez-Ferrer, DI Walker, CC Johnson, MK Chung, IH Lee, WJ Alvarez, CJ Patel, KD Pennell, DP Jones, SW Kong
2019 International Society for Autism Research Annual Meeting (INSAR 2019)  program
to 2019-05-04 (performed: 2019-05-02)
 
Extending Bioconductor To Exposome Data Analysis
C Hernandez-Ferrer, JR Gonzalez
BioC 2017: Where Software and Biology Connect  program
to 2017-07-28 (performed: 2017-07-27)
 
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
Bioconductor European Developers’ Workshop  program
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
The Emory Exposome Summer Course  program
to 2016-06-17 (performed: 2016-06-12)
 

Posters

Treatabolome database: towards enhancing Rare Diseases’ treatment visibility
C Hernandez-Ferrer, A Corvó, L Matalonga, ..., H Lochmuller, G Bonne, S Beltran (conductor: S Beltran)
European Human Genetics Conference Virtual Conference 2021  program
 
Treatabolome: a rare diseases treatment awareness project
A Atalaia, R Thompson, ..., C Hernandez-Ferrer, ..., S Beltran, G Bonne (conductor: A Atalaia)
European Conference on Rare Diseases (ECRD2020)  program  poster
 
Improving the RD-Connect GPAP usability to facilitate rare disease diagnosis and gene discovery
A Corvò, L Matalonga, D Piscia, S Laurie, G Bullich, M Fernandez, D Picó, C Hernandez-Ferrer, A Papakonstantinou, I Gut, S Beltran (conductor: A Corvò)
VII Jornada de Bioinformàtica i Genòmica  program
 
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
C Hernandez-Ferrer, I Quintela Garcia, K Danielski, A Carracedo Alvarez, LA Perez-Jurado, JR Gonzalez (conductor: C Hernandez-Ferrer)
Molecular Targets for Predictive and Personalized Medicine of Cancer  program  poster
 
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
C Hernandez-Ferrer, I Quintela Garcia, K Danielski, A Carracedo Alvarez, LA Perez-Jurado, JR Gonzalez (conductor: C Hernandez-Ferrer)
XII Symposium on Bioinformatics  program  poster
 
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 2021-01 as External Collaborator

Acting as final master thesis director:

  1. Analyzing glioma samples to identify glimoa-specific expression biomarkers
    • by Aitor Gómez Osuna and being conducted during 2nd semester of 2020
  2. Análisis de integración en la asociación de datos omicos con la exposición a aire contaminado (diésel)
    • by Laura Pauner Sotes and being conducted during 2nd semester of 2020
  3. 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 (grade: A; score of 9.2/10)
  4. 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 (grade: A; score of 9.4/10)
  5. 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 (grade: B; score of 8.97/10)
  6. Multi-Omic Data clustering in Brain Cancer
    • by Paula Fernández and conducted during 1st semester of 2019 (grade: A; score of 9.16/10)

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 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.

  1. 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)
  2. 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

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

2h: Genomic data visualization

Introduction to python for bioinformatics
Centre for Research in Agricultural Genomics // Statistical and population genomics
2013-06 as Instructor

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 (Combinational Circuits, Sequential Circuits, and Process Unit-Control Unit architecture and processors) as well as individual tutorship on student's demand.