The University of Texas Southwestern Medical Center (UT Southwestern Medical Center)

Bioinformatics postdoctoral position

The University of Texas Southwestern Medical Center (UT Southwestern Medical Center)

Dallas, TX, United States

Postdoctoral positions in the Kim Lab at the University of Texas Southwestern Medical Center, Dallas

 

The Kim Lab (https://kim-lab.org) is a highly interactive team consisting of computer scientists, AI scientists, statisticians, and molecular biologists. We are developing computational and statistical methods for analyzing sequencing data from a variety of next generation sequencing experiments to better understand the causes of diseases. Bioinformatics software developed by Dr. Daehwan Kim and other team members includes widely used programs such as TopHat2, HISAT, HISAT2, HISAT-genotype, TopHat-Fusion, and Centrifuge. The papers on TopHat2 and HISAT have been cited over 7,400 and 3,000 times, respectively. Recent efforts have achieved developing a novel indexing scheme using a graph approach that captures a wide representation of genetic variants and that has low memory requirements. Dr. Kim is the lead developer of HISAT2, a new alignment system that enables fast search through the index, for which the lab makes continuous improvements. HISAT2 is the first and perhaps the only practical method available for aligning sequencing reads to a graph at the human genome scale while only requiring a small amount of memory typically available on a conventional desktop. Building off of HISAT2, we plan to research practical algorithms that enable the accurate analysis of an individual’s genome, transcriptome, and epigenome within a few hours on a desktop computer. 


In the pursuit of this research, two postdoctoral positions are available in the computational genomics laboratory of Dr. Kim at the University of Texas Southwestern Medical Center (UTSW). Applications are invited for a 2 to 3-year computational postdoctoral research position. The researchers will develop novel methods for analyzing large-scale DNA-seq, RNA-seq, and other human genomics data. Potential projects include developing state-of-the-art methods for discovering and cataloguing germline and somatic mutations related to cancer, or for analyzing and assembling human genes and genomes. 


Ideal applicants will have:

  • A Ph.D. degree in Computer Science, Computational Biology, Biostatistics, Genetics or a related field with a solid computational background. 
  • Strong programming and analytical skills, including experience with next-generation sequencing data, and strong theoretical background in method development. 
  • At least two first author papers published and demonstrated written communication skills in English.


Please apply by email to Dr. Kim [Daehwan.Kim@UTSouthwestern.edu] and include your CV, statement of research accomplishments, and arrange to have two or three letters of recommendation sent to the same email address.


The Kim Lab is located in the Bioinformatics Department on UT Southwestern’s South Campus. We will also work closely with other research groups in the Department of Cell Biology, Immunology, and Pathology. Kim Lab members also have access to considerable computational resources, including the >28,000-core cluster with >12 Petabyte of storage available through UT Southwestern’s high-performance infrastructure (BioHPC – https://portal.biohpc.swmed.edu). The candidate will have the opportunity to work on a broad range of computational and experimental aspects of computational biology on a highly interdisciplinary team, and participate in all aspects of method development, software implementation, data analysis, and experimental validation in collaboration with other biologists.


UT Southwestern Medical Center is an Affirmative Action/Equal Opportunity Employer. Women, minorities, veterans and individuals with disabilities are encouraged to apply.


Daehwan Kim, Ph.D.

Michael L. Rosenberg Assistant Professor in the Lyda Hill Department of Bioinformatics

UT Southwestern Medical Center

5323 Harry Hines Blvd.

Dallas, TX 75390-8579

Daehwan.Kim@UTSouthwestern.edu

http://kim-lab.org

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Bioinformatics postdoctoral position