PostDoc/Scientist: Epigenomics and Transcriptomics of Pathogens, Host and their Interactions
Themes: Epigenomics (special focus on underexplored and new types of epigenetic variations), Transcriptomics, Integrate Single Molecule Sequencing (PacBio, Oxford Nanopore) + Illumina, Systems Biology of Human Diseases
Job description: Two postdoctoral/scientist positions are available at the Mount Sinai School of Medicine (Top-20 medical school in the US) in New York City. Our lab is in the Department of Genetics and Genomic Sciences and the Institute for Genomics and Multi-scale Biology, one of the leading institutes on computational and systems biology. Our humid lab (80% computation + 20% experimental) emphasizes biological and biomedical impacts in the design of computational, experimental, statistical and integrative methods. Successful candidates will have unique opportunities to i) build on our unique expertise and momentum of epigenomics and transcriptomics, and a strong network of collaborators, ii) synergize effective computational design with innovative experimental design, iii) take the lead role in multiple projects on the innovative use of third-generation sequencing and systems biology to better understand basic biology (bacteria, lower eukaryotes and mammals), human diseases and personalized medicine. Compensations for successful candidates are highly competitive. All employees are eligible for medical, dental, and health insurance. Subsidized housing (in New York City) is available for postdoctoral fellows.
Research: Although cytosine methylation has been almost exclusively studied as the DNA methylation in human, methylation (as well as other forms of DNA modifications) of other nucleotides also exists across all kingdoms of life. Recent work by us and others discovered that 6mA has significant functional roles in the regulation of core biological processes (e.g. cell cycle, gene expression, DNA repair etc.) in both prokaryotes and eukaryotes. The research goal and focus of our lab is to explore this young and promising field of 6mA epigenomes, discover other novel types of DNA modifications, their relationship to well-studied DNA/histone modifications, and make fundamentally new discoveries about human diseases: infectious diseases, cancers and mental disorders.
Unique expertise: We pioneered the fast growing field of bacterial epigenomics, focusing on pathogens that cause infectious diseases and associated cancers (especially interested in multi-drug resistance and virulence). We are expanding our expertise towards 6mA in eukaryotes and other novel types of epigenetic variations. We have unique expertise in the use of third generation sequencing (single molecule real-time, ~20kbp read length, and the emerging nanopore technique) with advantages of detecting >20 different types of DNA modifications, single molecule-level epigenetic phasing, full-length gene isoforms, complex structural variations, beyond second-generation techniques, in prokaryotes and eukaryotes. We integrate third-generation and second-generation sequencing for functional/comparative epigenomics/genomics and transcriptomics.
Recent publications on these topics include:
- Nature, 2016 (in press)
- Nature Communications, 2015
- PLoS Genetics, 2015
- Biological Psychiatry, 2015
- Nature Communications, 2014
- Molecular Psychiatry, 2014
- PLoS Genetics, 2013
- PLoS Computational Biology, 2013
- Nature Biotechnology, 2012
- Genome Research, 2012
Lab page with details: http://research.mssm.edu/fanglab
Desired skills/experience: Interested? Excited? Join us to reveal the fascinating biology! Candidates with computational background are expected have solid computer programming and statistical skills. Candidates with biology background are expected have basic computer skills and a strong motivation to improve computational and statistical skills. Please send the following to email@example.com
- CV with a list of publications
- PDF files for the papers in which you are first, co-first or second author.
Thank you for the interests!
Gang Fang, Assistant Professor, Genetics and Genomics, Icahn School of Medicine at Mount Sinai, New York, US
P.S. Key words (without ordering): Epigenomics, DNA methylation, DNA modifications, personalized medicine, translational research, genome assembly, genome-wide association datasets, data integration, network biology, protein interaction, regulatory networks, eQTL, brain imaging, structural and functional MRI, data mining, mental disorders, neurodegenerative diseases, cancers, pathogen-host interaction, epistasis, genetic interactions, functional genomics, comparative genomics, microbiology, combinatorial, statistics, machine learning, bioinformatics, human induced pluripotent stem cell, gene expression, RNASeq, mitochondrial DNA, bacterial virulence, antibiotic resistance, drug design, next generation sequencing, third-generation sequencing, single molecule real-time sequencing, C/C++/Java, perl/python, Matlab/R, Microbiology, GWAS, data mining, machine learning, biological networks, large scale data analysis, Big data, metagenomics, metatranscriptomics, meta-genomics, meta-transcriptomics.