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Bioinformatics Core Overview

The K-INBRE Bioinformatics Core supports the computational needs of biomedical researchers in Kansas (1) by purchasing, maintaining and providing access to the computational infrastructure necessary for data analysis and data storage; (2) by collaborating with researchers in experimental design, pipeline development for data analysis and result interpretation; and (3) by providing bioinformatics education and training opportunities to faculty, post-doctoral fellows, students and other researchers. Because recent advances in Next Generation Sequences (NGS) technology have made genomic and transcriptomic approaches affordable and accessible to a large number of Kansas researchers and educators, the K-INBRE Bioinformatics Core focuses its efforts on supplying scientists with tools, pipelines, education and expertise on NGS technologies.

Form for inquires

The K-INBRE Bioinformatics Core is committed to collaborating with Kansas researchers to perform cutting edge research in cell and developmental biology. We also provide semi-annual training workshops to introduce scientists to computational tools and NGS pipelines. If you have any questions regarding  collaboration opportunities, services provided by the Core or scheduled workshops please fill out the online form below or contact the Bioinformatics Outreach Coordinator, Dr. Sherry Miller, at sherrymiller@ksu.edu.

KSU

The K-INBRE Bioinformatics Core is led by Susan Brown, KSU University Distinguished Professor in Biology. Dr. Brown is an expert in genome sequencing, mapping and informatics. Bioinformatics specialists at the KSU Core focus on genome and transcriptome assembly, optical mapping, gene annotation, RNA-Seq analysis, and taxon identification from metagenomics samples. Members of the KSU core also serve as liaisons between the bioinformatics satellite cores at KUMC and KU-L, faculty members at Kansas’ primarily undergraduate institutions (PUIs) and the other branches of the K-INBRE network.

KUMC

The KUMC satellite core is led by Devin Koestler an Assistant Professor of Biostatistics. Dr. Koestler’s specialty is statistical genomics. He focuses on the development and application of novel bioinformatics/statistical methodologies for identifying biologically and clinically relevant patterns in high-throughput ‘omic data, with an emphasis on computationally efficient clustering methodologies for identifying molecular subtypes of human diseases. Bioinformatics specialists at the KUMC Core have extensive experience in the design and analysis of ‘omic studies using both microarray and high-throughput sequencing technologies and provide the core with expertise in statistical analysis and clinical studies.

KU-L

The KU-L satellite core is led by Stuart Macdonald, an Associate Professor of Molecular Biosciences. Dr. Macdonald is a quantitative geneticist who studies the molecular genetic basis of complex traits using genomic and analytical tools. Bioinformatics specialists at the KU-L Core have expertise in QTL analysis, genome assembly, variant calling and RNASeq, ChipSeq and RIPSeq analysis.


 

 

Bioinformatics Core Contacts


KANSAS STATE UNIVERSITY

 

Susan J. Brown, PhD

Bioinformatics Core Director

University Distinguished Professor
Kansas State University

Division of Biology
340 Ackert Hall
Manhattan, KS 66506
Phone: 785-532-3935
sjbrown@ksu.edu

 

 

Sherry Miller, PhD

Outreach Coordinator

Kansas State University
Division of Biology

340 Ackert Hall
Manhattan, KS 66506
Phone: 785-532-3935
sherrymiller@k-state.edu



UNIVERSITY OF KANSAS – LAWRENCE

 

Stuart Macdonald, PhD

Satellite Director

Associate Professor
University of Kansas
Molecular Biosciences
4043 Haworth Hall
Lawrence, KS 66047
Phone: 785-864-5362
sjmac@ku.edu

 

 

Boryana S. Koseva, MS

Bioinformatics Specialist

University of Kansas
Molecular Biosciences
3005 Haworth Hall
Lawrence, KS 66047
boryana@ku.edu

 


UNIVERSITY OF KANSAS MEDICAL CENTER

 

Devin C. Koestler, PhD

Satellite Director

Assistant Professor Biostatistics
University of Kansas Medical Center
Biostatistics
3901 Rainbow Blvd
Kansas City, KS 66160
Phone: 785-945-4788
dkoestler@kumc.edu

 

 

Farnoosh Abbas Aghababazadeh, PhD

Post-Doctoral Fellow

University of Kansas Medical Center
Biostatistics
3901 Rainbow Blvd
Kansas City, KS 66160
Phone: 913-588-4703
fabbasaghababazadeh@kumc.edu

 

 

 

Qian Li, PhD

Post-Doctoral Fellow

University of Kansas Medical Center
Biostatistics
3901 Rainbow Blvd
Kansas City, KS 66160
Phone: 913-588-4703
qli4@kumc.edu