Bioinformatics portal

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Informatics related resources can be found across the University of Minnesota.  Most relevant ones are listed in the  OneStop Portal for Computational Biology and Bioinformatics  maintained by MSI.  Suggestions of additional links or content should be addressed to compbio@msi.umn.edu.

1. MSI Managed Resources

Minnesota Supercomputing Institute (MSI)

Provides user support, software, databases, and hardware resources for all aspects of high-performance computing. In the area of computational biology, this includes bioinformatics, genomics, structural biology, proteomics, and system biology.

URL: www.msi.umn.edu

Research Informatics Support Systems (RISS)

Staffed with analyst experts RISS provides support for interdisciplinary informatics research.

URL: https://www.msi.umn.edu/services/informatics/riss

Computational Genetics Laboratory (CGL)

Located on the first floor of the Cargill Microbial and Plant Genomics Institute on the St Paul campus the CGL lab provides a local entry point to MSI resources with an emphasis on genomics and bioinformatics. The lab space is also used for tutorial events.

URL: www.msi.umn.edu/labs/cgl

Biomedical Modeling, Simulation, and Design (BMSDL)

Located in Nils Hasselmo Hall on the Minneapolis campus, the lab provides convenient access to MSI computational resources for scientific computation and visualization.

URL: www.msi.umn.edu/labs/bmsdl

Basic Sciences Computing Laboratory (BSCL)

Located at MSI on the 5th floor of the Walter Library on the Minneapolis campus, the BSCL lab provides students and researchers with convenient access to MSI computational resources.

URL: www.msi.umn.edu/labs/bscl

 

2. Email lists

Bioinformatics email listserv

Started in 2001 this is the public, moderated email list for bioinformatics at the University of Minnesota. The list is moderated by Dr. Lynda Ellis.    Join; Archives

Informatics interest group

Google group.  Purpose of the group is to spotlight resources and events relevant to informatics and computational biology

Contact:  informatics@umn.edu

Metagenomics Supergroup

Google group.  For anyone on campus interested in metagenomics

Contact : metagenomics_supergroup@umn.edu

 

3. Analytical Cores

University of Minnesota Genomics Center (UMGC)

The sequencing center at the University, UMGC provides genomics research services for UMN investigators and external companies. Data processing and analysis is supported through MSI

URL: http://www.bmgc.umn.edu/index.htm

Center for Mass Spectrometry and Proteomics (CMSP)

With state of the art equipment ,CMSP provides support, equipment, and expertise for analyzing complex protein mixtures. Data processing and analysis is supported through MSI

URL: http://ww.cbs.umn.edu/research/resources/msp/about

Chemistry Mass Spectrometry Lab

URL: http://www.chem.umn.edu/services/massspec/research.html

Mass Cytometry

The newly acquired 2014 Mass Cytometer will be managed by the Chemistry Mass Spectrometry Lab. Contact Dr. Edgar Arriaga, Chemistry Dept. for question.

Flow Cytometry

http://www.health.umn.edu/research/resources-researchers/flow-cytometry-resource

University Imaging Centers (UIC)

Equipped with state of the art resources, the UIC supports clients in the design of imaging experiments, choice of and training on suitable imaging systems, and subsequent image processing, visualization and analysis

URL: http://uic.umn.edu/

 

4. Data analysis & expertise

Biostatistics: Graduate program. School of Public Health

SPH faculty members in the division of biostatistics engaged in statistical genetics and other bioinformatics-related research

URL: www.biostat.umn.edu

Biostatistics & Bioinformatics Cancer Center Shared Resource

The primary objective of the Biostatistics and Bioinformatics shared resource of the Masonic Cancer Center is to provide centralized biostatistics and bioinformatics supports for all research projects of all members of the Masonic Cancer Center.

URL: http://www.cancer.umn.edu/research/biostatistics-bioinformatics/

Biostatistics Design and Analysis Center

Affiliated with the Clinical and Translational Institute (CTSI), BDAC provides statistical and data management support from study design to final analysis and publications of results

URL: http://www.ctsi.umn.edu/research/services-resources/biostatistical-design-analysis-center/

Bioinformatics: Research Informatics Support Systems

RISS collaboratively engages with researchers and other units of MSI or the University to assist investigators with the different aspects of interdisciplinary informatics research from experimental design and project planning to data analysis and application development.  Supported domains range from life sciences to translational biomedical research to the humanities.

URL: https://sites.google.com/a/umn.edu/riss3h/services/informatics

Health Informatics - Clinical and Translational Science Institute

BMHI is an overarching infrastructure that supports biomedical informatics at the University of Minnesota. BMHI coordinates the availability of services, synchronizes knowledge across groups, and provides education to grow biomedical informatics capabilities (2010, CTSA).

URL: http://www.ctsi.umn.edu/biomedical-informatics/

Health Informatics - Cancer Center Medical Informatics

With a focus on clinical data and clinical trial administration, these services can include needs specification, system evaluation, preparation of functional design documents, project management, and system testing

URL: http://www.cancer.umn.edu/research/oncology-medical-informatics-and-services

Center for Drug Design

The research conducted at CDD includes design, discovery and development of therapeutics for various conditions affecting human health.

URL: http://www.cdd.umn.edu/Research/

Microbial and Plant Genomics Institute (MPGI)

 

MPGI faculty share interest in the successful development and application of genomics and its societal and environmental impact.

URL: www.mpgi.umn.edu

Computer Science & Engineering faculty (CSE)

Many of the CSE faculty engage in collaborative interdisciplinary research with investigators from domains with no computing tradition 

URL: http://www.cs.umn.edu/research/research_areas.php

Biomedical Informatics and Computational Biology (BICB)

 

With an academic focus in computational biology and biomedical informatics in life and health sciences the University of Minnesota at Rochester BICB program provides a valuable pool of expertise for student project collaboration.

URL: www.r.umn.edu/19_BICB.htm

5. Funding programs

Minnesota Partnership for Biotechnology and Medical Genomics

 

The Minnesota Partnership for Biotechnology and Medical Genomics is a unique collaborative venture among the Mayo Clinic, University of Minnesota, and State of Minnesota. The Partnership seeks to position Minnesota as a world leader in biotechnology and medical genomics applications that will result in important new medical discoveries, thereby improving health care for patients and supporting the development of new businesses and jobs in Minnesota. Competition is annual (February-March) with two themes:  research and infrastructure

URL: www.minnesotapartnership.info/

University of Minnesota Interdisciplinary Informatics (UMII)

The UMII was founded on January 6, 2014 with funding from the University of Minnesota (Central Administration) and MnDRIVE to foster data-intensive research in agriculture, engineering, environment, health, humanities, and social sciences and to identify education and infrastructure needs.

URL:  https://sites.google.com/a/umn.edu/informatics-institute/home

 

6. Other resources

 

University Libraries (ULib)

 

Free and open workshops help students, faculty, and staff with the various challenges they face doing research at the University. URL: https://www.lib.umn.edu/datamanagement/tools

  Selected Resources for Bioinformatics.

Office of Information Technology (OIT)

Among other services, OIT offers researchers with hosting services for departmental applications, web sites, data storage and servers.

URL:  http://www.oit.umn.edu/hosting/index.htm

Safari Tech Book

A collection of technology-related books from several publishers, most notably O'Reilly.

URL:  https://www.lib.umn.edu/pim/Safari ; http://proquestcombo.safaribooksonline.com.ezp1.lib.umn.edu/

Informatics | RISS | RISS Services | RISS Organization | RISS Procedures | RISS Help | UMN Biolinks