Advisory Board and Editors Computational Biology
Pedro G Ferreira
Pedro G. Ferreira graduated in Systems and Informatics Engineering from the University of Minho in 2002 and obtained his Ph. D. in Artificial Intelligence from the same University in 2007. From 2008 to 2012, he was a Postdoctoral Researcher at the Bioinformatics and Genomics Laboratory, Centre for Genomic Regulation, Barcelona. From 2012 to 2014, he was a Postdoctoral Fellow the Functional Population Genomics and Genetics of Complex Traits group, School of Medicine, University of Geneva. He has been involved in several large international consortia including: ICGC-CLL, ENCODE, GEUVADIS, SYSCOL and GTEx. He published several papers in high impact journals, including the multidisciplinary journals: Nature, Science, Nature Communications, Scientific Reports, PNAS and eLife. Other papers have been published in high impact specialized journals including Genome Biology, Genome Research, American Journal of Human Genetics, Nature Cell Biology, RNA or Leukemia. He is the author of 3 book chapters and 2 books. He has an h-index of 31, with a total > 32 000 citations. In 2015, he was awarded an FCT Investigator Starting grant and he joined Ipatimup/i3s. He was awrded the Research Award 2015 and 2019 from Portuguese Society of Human Genetics - SPGH and the Microsoft Azure Research Award for Data Science 2017. He is a partner in a bioinformatics data analysis company with national and international clients, including hospitals, diagnostic clinics and research centres. From 2015 to 2018, he was an invited assistant professor at the Department of Informatics at the University of Minho, where he taught bioinformatics and data analysis at master's level. He has been involved in the final supervision of 1 postdoctoral fellow, 2 PhD students, 22 Masters students and 3 research assistants, and in the ongoing (main and co-) supervision of 5 PhD students and 5 Masters students. He was the director of the Masters and Specialisation in Bioinformatics and Computational Biology (2020-2023). He has experience in the genomics start-up environment, where he developed information systems for personal genomics data interpretation. He is currently an Assistant Professor (since 02/2019) with Habilitation (since 10/2022) at Department of Computer Science, Faculty of Sciences of the University of Porto and a Senior Researcher at the Artificial Intelligence and Decision Support Group at INESCTEC. He is currently the Director of the Bachelor in Bioinformatics and Adjunct Director of the Bachelor in Artificial Intelligence and Data Science. His main research focus is on developing methods for a variety of problems in genomic data science. In particular, he is interested in unravelling the role of genomics in human health and disease. To achieve this goal, he applies and develops data analysis models using machine learning and probabilistic methods to analyse and interpret diverse, complex and large-scale genomic datasets.
Daniel Fischer
I studied Statistics and Computer Sciences at the Technical University of Dortmund, Germany. During that time, my interest was particularly in mathematical statistics with a focus on high-dimensional extensions of the univariate median. After graduating, I moved to Tampere, Finland and completed my PhD in at the University of Tampere in Biostatistics with minor Bioinformatics.
While still being enrolled as PhD student at the University I started to work as a researcher in Bioinformatics at the MTT, Jokioinen, Finland. Since 2015 I am working at the Natural Resources Institute Finland (Luke) where I finalized my PhD.
My published articles in peer-reviewed journals cover a wide range of applications as well as statistical theory. My areas of expertise are target gene detection, biomarker identification and novel gene detection with a special focus on long non-coding RNAs. Further, I have experiences in the development of statistical methods for DE testing as well as deriving novel non-parametrical tests for (e)QTL analyses. I published and maintain currently six R-packages, i.e. for (e)QTL testing, cross-species ortholog detection and dimension reduction methods.
Lasse Folkersen
PhD in genetics from Karolinska Institute, Sweden. Research according to an overarching theme of my research is the use of high-throughput omics to bridge the gap between research and medicine. My initial interest was in expression quantitative trait loci (eQTL), and their possibilities for translating genetics to medical use. This followed a further step into actual industrial drug and pharmacogenetics development from the technique, performed at Novo Nordisk, Denmark. Current interests focus on further translation of main genetics results into actual use both in the clinical context of response stratification and in the industrial context of drug development.
Simon DW Frost
Reader in Pathogen Dynamics at the University of Cambridge; formerly Adjunct Associate Professor in the Dept. of Pathology, University of California San Diego (UCSD). Graduated with a BA in Natural Sciences (1st class), Trinity College, Cambridge (1992), DPhil in Mathematical Biology, Merton College, Oxford (1996). Postdoctoral positions at Princeton University, Oxford University, University of Edinburgh and UCSD. Awards include: NATO Postdoctoral Fellowship (1996), MRC Nonclinical Training Fellowship (1997-2000), a Royal Society Wolfson Research Merit Award (2008-2013), and Thomson-Reuters Highly Cited Researcher awards in 2014, 2015, and 2016.
Atsushi Fukushima
I am a professor at Kyoto Prefectural University. My current research interests focus on characterization of metabolic regulatory networks and integrated analysis of multi-omics data in plants. I am a member of the editorial board for BMC Genomics, Plant Methods, Frontiers in Plant Science, Plants, BioTech, and PeerJ.
Mikhail S Gelfand
Vice-Director for Science at the Kharkevich Institute for Information Transmission Problems. Professor of the Lomonosov Moscow State University, Skolkovo Institute of Science and Technology, and Higher School of Economics. Member of Academia Europaea. Recipient of the 2007 Baev Prize of the Russian Academy of Sciences. Member of Editorial Boards of PeerJ and Biology Direct.
Joshy George
Associate Director fo Computational Sciences, The Jackson Laboratory for Genomic Medicine, CT, USA. Previously worked at the Peter MacCallum Cancer Center in Melbourne Australia and at the Genome Institute of Singapore.
Noushin Ghaffari
Dr. Noushin Ghaffari is a senior member of the bioinformatics team at Texas A&M AgriLife Genomics and Bioinformatics (TxGen), where she is involved in various projects from planning experiments to data analysis. She is also focused on method development and application projects that will impact scientific community. Her research activities have encompassed various areas of computational biology and have enabled her to study and learn more about the characteristics of multiple species. Furthermore, she intensely pursues her theoretical interests focusing on applications of mathematics in solving biological problems. Dr. Ghaffari has led numerous genome and transcriptome assembly projects for novel species such as cattle tick, gene discovery research though RNA-Seq studies, studying microbiome communities via metagenomics research and etc. Dr. Ghaffari has vast teaching experiences and continues to educate Texas A&M faculty/students/researcher on high performance computing, data analysis and bioinformatics.
Joseph J Gillespie
Dr. Gillespie is an evolutionary biologist with broad interests in organismal and molecular evolution. The major focus of his current research is deciphering the mechanisms by which obligate intracellular species of Rickettsiales (Alphaproteobacteria) invade, survive and replicate within eukaryotic cells.
In research funded by the National Institutes of Health, Dr. Gillespie utilizes phylogenetics, comparative genomics and bioinformatics to guide experimental research on various pathogenic species of Rickettsia and their associated arthropod vectors. His early research resulted in the reclassification of Rickettsia species and the identification of many lineage-specific pathogenicity factors. Through years of intense scrutinization of dozens of diverse rickettsial genomes, Dr. Gillespie and colleagues have described a large, dynamic mobilome for Rickettsia species, resulting in the identification of integrative conjugative elements as the vehicles for seeding Rickettsia genomes with many of the factors underlying obligate intracellular biology and pathogenesis. Via an iterative process of genome sequencing, phylogenomics, bioinformatics, and classical molecular biology and microbiology, Dr. Gillespie continues to lead and assist research projects on the characterization of rickettsial gene and protein function, as well as the description of cell envelope glycoconjugates.
Leonardo L Gollo
Leonardo is a Senior Research Fellow with training in Neuroscience and Physics. He works on Neuroscience, Computational Biology, Connectomics, and Complex Systems. His research focuses on computational and mathematical models of brain function.
Bruno Duarte Gomes
My primary area of research is in brain decoding using machine learning and deep learning, particularly in the context of epilepsy, Parkinson's disease, and cognitive processes in healthy individuals. My research also includes studying human and non-human primates visual system using psychophysics, visual evoked potentials and cortical extracellular recordings.
Education:
Ph.D., Neuroscience and Cell Biology, Federal University of Para
M.Sc., Neuroscience and Cell Biology, Federal University of Para
B.Sc., Biological Sciences, Federal University of Para
Shawn M Gomez
Professor and Associate Chair for Research in the Joint Department of Biomedical Engineering at UNC-CH and NCSU and Professor in the Department of Pharmacology at UNC-CH. Previous Florence Gould Scholar and Pasteur Foundation Fellow. Current research interests in systems and synthetic biology, bioimage informatics, and network science applied to biology. Broader interests in translational medicine and the fostering of innovative solutions to problems in healthcare.