University of Massachusetts Medical School, Program in Systems Biology

470 12239
Position ID:UMASSMED-PSB-AP [#12239]
Position Title: Assistant Professor
Position Type:Non tenure-track faculty
Position Location:Worcester, Massachusetts 01655, United States [map]
Subject Area: Computational Biology / Computational Biology
Appl Deadline: finished (finished 2018/10/03, finished 2019/09/06, listed until 2019/04/03)
Position Description:    

*** this position has been closed, and no new applications will be accepted. ***

The laboratory of Job Dekker PhD (Howard Hughes Medical Institute Investigator) in the UMass Medical School Program in Systems Biology is seeking outstanding candidates for an Assistant Professor position (non-tenure track) to join a multidisciplinary team of molecular biologists, statisticians and bioinformaticians. This position will be responsible for developing and maintaining novel computational infrastructure in the laboratory of Dr. Dekker to analyze genomic data on chromosome folding and will participate in supervising bioinformatics graduate students and staff bioinformaticians that support ongoing research in the Dekker lab. We are a highly interdisciplinary lab, combining experimental and computational efforts to study how genomes function. We are funded by the Howard Hughes Medical Institute, and NIH. Recently we established the Center for 3D Structure and Physics of the Genome, as part of the NIH 4D Nucleome Consortium, to study the spatial organization of the human genome. More information on the Dekker laboratory can be found on our website: The Dekker Lab is one of the leading labs in the world that studies how the genome is organized in three dimensions in the cell nucleus. To explore and study genome folding we first developed several genomics technologies such as 3C, 5C and Hi-C (Dekker, Science 2002, Dostie Genome Res. 2006, Lieberman Aiden, van Berkum, Science 2009). These technologies employ deep sequencing to produce massive genome-wide chromatin interaction maps that we then analyze using a whole suite of computational and bioinformatic methods that we developed ourselves, and in collaboration with our close collaborator Leonid Mirny (MIT). (See Lajoie, Nature Methods 2009, Imakaev, Nature Methods 2012). Our research has revealed new insights into the mechanisms of long-range gene regulation by distal enhancers (Sanyal, Nature 2012), the compartmentalization of chromatin in distinct functional domains (Nora, Nature 2012), the internal organization of the chromatin fiber (Dekker, JBC 2008), the structure of mitotic chromosomes (Naumova, Science 2013), and the overall organization of entire genomes inside the nucleus (Gibcus, Mol. Cell 2013). Recently NIH started the 4D Nucleome initiative Our lab heads one of the largest centers in this network. In our center we employ state-of-the-art genomics, imaging, genome engineering, computational modeling and bioinformatic approaches to study the structure and biophysics of the human genome. We are looking for enthusiastic bioinformaticians and computational biologists to participate in and lead the analysis component of our center. In these positions, you would be playing a key role in the Center, as well as in the international 4D Nucleome consortium to explore this exciting new area of genome sciences.

Applicants must have a PhD in computational biology, bioinformatics, or computer science and at least two years of post-PhD experience. Successful candidates will have: a proven research record as reflected in authorship on peer-reviewed publications; deep expertise in genomic analyses, big data analysis and management, and a strong background in programming and statistics. Experience using BIG DATA (NGS data a plus, multi-TB); relation databases, SQL and or structured data formats (e.g. HDF5); Computer Clusters (LSF, SGE); Numpy/Scipy/HDF5; and web experience (PHP, JavaScript, JSON, REST) is a plus. Applicants should submit a cover letter explaining their interest in the Position, a curriculum vitae that includes honors, publications, a teaching statement, and a succinct research plan to (Position ID# 12239). The position is open until filled. To expedite the review process, applicants should invite three individuals who are familiar with their work and potential for success to upload their recommendation letters at the same web address. Inquiries, but not application materials, may be directed to Job Dekker (

UMass Medical School is committed to being an equal opportunity and affirmative action employer and recognizes the power of a diverse community. We encourage applications from protected veterans, individuals with disabilities and those with varied experiences, perspectives and backgrounds to consider UMass Medical School as their employer of choice.

As an equal opportunity and affirmative action employer, UMMS recognizes the power of a diverse community and encourages applications from individuals with varied experiences, perspectives and backgrounds.

Application Materials Required:
Submit the following items online at this website to complete your application:
And anything else requested in the position description.

Further Info:
364 Plantation Street
Worcester, MA 01655

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