Careers

We are seeking a junior bioinformatician for a cancer research position at the TCI newly established Bioinformatics for Next Generation Sequencing core facility (BiNGS). The mission of BiNGS is to enhance scholarship and facilitate research in the TCI community by providing access to state-of-the-art bioinformatics analysis, and training. The BiNGS stuff support a broad range of bioinformatics analyses for multiple applications spanning genomics, transcriptomics and epigenomics research, through standard and custom analysis, data management, bioinfomatics tools development, access to biocomputing resources, and advanced computational training in data analysis. We are focused on delivering a comprehensive, rapid and user-friendly service.

We are seeking a highly motivated molecular biologist with extensive experience in data analysis, who wants the opportunity to significantly impact the growth and success of the TCI cancer research program, by serving on the interface between wet-lab scientists and the bioinformatic core. The candidate will work closely with TCI investigators to facilitate and enhance the progression and impact of their projects. The ability to work closely and independently with multiple investigators and trainees to enhance their studies, and the ability to communicate computational concepts to non-computational scientists are critical competencies for this role.

Job responsibilities will include but not be limited to:

• Utilize computational tools for the analysis of epigenetic and transcriptomic datasets.
• Perform data integration across multiple platforms (e.g. RNA-seq and ChIP-seq).
• Integrate data from publically available resources (e.g. ENCODE, PCAWG, TCGA, ICGC and GTEx).
• Provide analyses and visualization for presentations and publications.
• Implement new available bioinformatic platforms into the core’s pipelines.
• Work closely with multiple investigators to enhance and extend their scientific capabilities into the bioinformatic space.
• Train TCI investigators and trainees in bioinformatic analysis.

Requirements

• Ph.D. degree in computer sciences or molecular biology.
• Strong background in cancer and chromatin biology and familiarity with recent advances in these fields and NGS technologies.
• Extensive proven experience in experimental execution and data analysis of RNA-, ChIP-, and ATAC-sequencing and DNA methylation in the context of cancer.
• Extensive capabilities in integrating multiple RNA-seq, ChIP-seq and ATAC-seq datasets to characterize chromatin landscapes; extract transcription factors networks and identify epigenetics patterns across multiple samples.
• Experience with bash terminal data manipulation and data analysis through HPC cluster environment with a parallel file system.
• Experience working in a Linux environment, R and scientific workflows
• Extensive experience with standard genomics tools for high-throughput sequencing data analysis (e.g. Bowtie2, deepTools, Samtools, and the UCSC genome browser.
• Excellent communication and teaching skills. Must be able to work as an individual while part of a small team.

Please send your CV and a cover letter that specifically addresses this job description to:

Dan Hasson, Ph.D
Assistant Professor
Icahn School of Medicine at Mount Sinai
Department of Oncological Sciences and Dermatology
Hess Center for Science and Medicine
1470 Madison Avenue, 6th Fl., Rm. 302
Email: dan.hasson@mssm.edu

We are seeking a junior bioinformatician for cancer research and development position at the TCI newly established Bioinformatics for Next Generation Sequencing core facility (BiNGS). The mission of BiNGS is to enhance scholarship and facilitate research in the TCI community by providing access to state-of-the-art bioinformatics analysis, and training. The BiNGS stuff support a broad range of bioinformatics analyses for multiple applications spanning genomics, transcriptomics and epigenomics research, through standard and custom analysis, data management, bioinfomatics tools development, access to biocomputing resources, and advanced computational training in data analysis. We are focused on delivering a comprehensive, rapid and user-friendly service.

We are seeking a highly motivated Bioinformatics Scientist who wants the opportunity to significantly impact the growth and success of our cancer research programs, the Bioinformatics core and the service we provide to the TCI investigators. The candidate will work closely with TCI investigators to facilitate and enhance the processing of their projects. Commitment to accuracy, high attention-to-detail, and ability to work independently are critical competencies for the role.

Job responsibilities will include but not be limited to:

• Execute computational analysis for RNA-seq and scRNA-seq, ChIP-seq, Cut&Run, ATAC-seq and scATAC-seq, DNA methylation, whole genome- and exom-sequencing and HiC, using existing standard analysis pipelines.
• Integrate data from publically available resources (e.g. ENCODE, PCAWG, TCGA, ICGC and GTEx).
• Provide analyses and visualization for presentations and publications.
• Participate in development of new software tools to process, analyze and visualize high-throughput multidimensional sequencing data.
• Manage the core online database and interactive tools on local HPC and commercially available clouds preferably Amazon Web Services.
• Tracking and reporting of ongoing projects.
• Provide bioinformatic support and training to TCI investigators.

Requirements

• BSc or MSc in Bioinformatics, Computational Biology, Computer Science, or related discipline.
• Proven experience in analyzing and integrating genomics, transcriptomics and epigenomics data sets in the context of cancer.
• Proven experience with Python, Perl, R and Unix. Additional experience with standard genomics tools for high-throughput sequencing data analysis (e.g. Bowtie2, deepTools, Samtools, and the UCSC genome browser). Experience with markup languages such as HTML is preferred.
• Experience in batch HPC cluster environment with a parallel file system.
• Proven ability to research, analyze, recommend, communicate, and implement solutions.
• Good understanding of genomics, cancer, chromatin biology, and technologies such as qPCR and next-generation sequencing.
• Must be able to work as an individual while part of a small team.

Please send your CV and a cover letter that specifically addresses this job description to:

Dan Hasson, Ph.D
Assistant Professor
Icahn School of Medicine at Mount Sinai
Department of Oncological Sciences and Dermatology
Hess Center for Science and Medicine
1470 Madison Avenue, 6th Fl., Rm. 302
Email: dan.hasson@mssm.edu