Presentation is loading. Please wait.

Presentation is loading. Please wait.

BioInformatics at FSU - whose job is it and why it needs to be done. Steve Thompson Steve Thompson Florida State University School of Computational Science.

Published byMoses Davis Modified over 9 years ago

Similar presentations

Presentation on theme: "BioInformatics at FSU - whose job is it and why it needs to be done. Steve Thompson Steve Thompson Florida State University School of Computational Science."— Presentation transcript:

1 BioInformatics at FSU - whose job is it and why it needs to be done. Steve Thompson Steve Thompson Florida State University School of Computational Science and Information Technology (CSIT) / BioInfo 4U CSIT

2 Overview What is bioinformatics, genomics, sequence analysis, computational molecular biology... Reverse Biochemistry & Evolution. Database growthDatabase growth & cpu power. Database growth Show and tell, very brief survey. NCBI’s BLASTNCBI’s BLAST & Entrez, GCG’s SeqLab, phylogenetics... EntrezGCG’sSeqLab phylogenetics NCBI’s BLASTEntrezGCG’sSeqLab phylogenetics High quality training is essential! Why: our graduates need to be competitive on the world biotechnology market. CSIT’s role in all of this; out-reach.

3 Florida State University’s ad hoc BioInformatics Planning Committee: Lawrence DennisPhysics/CSITdennisl@csit.fsu.edu Ross EllingtonIMB/Biologyelling@bio.fsu.edu Lei LiStatisticslilei@stat.fsu.edu Narayanan PerumalInformation Management Sciences nperumal@cob.fsu.edu Jack QuineIMB/Mathematics quine@math.fsu.edu Q.X. Amy SangBiochemistry/Chemistry sang@chem.fsu.edu Bruce SmithBiology/Information Studies bsmith@bio.fsu.edu DeWitt SumnersMathematicssumners@math.fsu.edu Trisha SpearsBiologyspears@bio.fsu.edu Scott SteppanBiologysteppan@bio.fsu.edu David SwoffordSmithsonian Institute soon to be Biology/CSIT swofford@lms.si.edu Steve ThompsonCSIT/Biologystevet@bio.fsu.edu Joseph TravisBiology/CSITtravis@neuro.fsu.edu James WilgenbuschSmithsonian Institute soon to be Biology/CSIT jim@lms.si.edu

4 Objectives The university tripartite mission: Education, Research, and Service. Research: CSIT is hiring 20-30 new faculty overall, of this 6-8 will be in comp’ bio’. David Swofford (PAUP*) is the first! Service: CSIT assistance in consultation, systems administration, and hardware access. Contact CSIT (http://www.csit.fsu.edu/) for general questions; me (stevet@bio.fsu.edu) for specific bioinformatics assistance and/or collaboration.http://www.csit.fsu.edu/stevet@bio.fsu.edu FOR MORE INFO...

5 Education Six Major Proposal Foci: Workshops — continue and expand GCG SeqLab series; each session offered twice per semester. Modules — incorporate across the curricula within existing courses, interdisciplinary by nature. Graduate Course — practical, project-oriented approach. Collaborate with proposed Math course. Undergraduate Genomics Course — survey, practical WWW techniques, implications, & ethics. Computational Molecular Biology Program — in association and cooperation with students’ present major department. Pros and Cons... Summer Short Course — long-range. Participants from world-wide disparate disciplines learning bioinformatics techniques and theory.

6 GCG SeqLab Workshop Series Presently four different sessions: Intro to SeqLab & Multiple Sequence Analysis and its supplement Intro to SeqLab & Multiple Sequence Analysis and its supplement Rational Primer Design Rational Primer Design Database Searching & Pairwise Comparisons — Significance Database Searching & Pairwise Comparisons — Significance Molecular Evolutionary Phylogenetics Molecular Evolutionary Phylogenetics http://bio.fsu.edu/~stevet/workshop.html FOR MORE INFO...

7 Modules in Existing Courses Cooperate with extant programs to incorporate bioinformatics into their existing curricula. Key is cooperation & necessity. Many different courses across many different departments, even across different colleges. Identify potential courses from the General Catalog and approach individual instructors and chairs.

8 Graduate Course team-taught; lecture + lab; pragmatic, real-world approach. Theory + practical applications Potential collaboration with proposed course in Mathematics Computational Biology Program Washington State University’s Biochemistry 578Washington State University’s Biochemistry 578 model. Washington State University’s Biochemistry 578

9 Undergraduate Course Genomics team-taught; lecture + lab also, but... Survey course. Emphasis on basics of theory, Web based resources, implications/ramifications, & ethics of genomics research.

10 Computational Biology Program Coordinated by CSIT in association with student’s major department. Undergraduate and/or Graduate? Pros and Cons... Avoid duplication of effort. Candidate department collaborations.

11 Summer Short Course Long-range plan — May 2002? Broad spectrum — both instructors and students from many different disciplines and world-wide distribution. One or two weeks? On-campus room & board support. To be undertaken this course will need the potential to achieve an exceptional world-wide reputation!

12 Comparable Programs Washington State University had one of the first; still rare, but more all the time. Biocomputing education URL’s: http://iscb.org/univ.html http://linkage.rockefeller.edu/wli/bioinfocourse/ http://linkage.rockefeller.edu/wli/bioinfocourse/http://linkage.rockefeller.edu/wli/bioinfocourse/ http://bozeman.genome.washington.edu/compbio http://www.csc.liv.ac.uk/~martyn/biosystems http://www.techfak.uni- bielefeld.de/bcd/Curric/syllabi.html http://www.techfak.uni- bielefeld.de/bcd/Curric/syllabi.html http://130.88.90.2:8900 http://www.snarkware.org/bioedusoft/

Download ppt "BioInformatics at FSU - whose job is it and why it needs to be done. Steve Thompson Steve Thompson Florida State University School of Computational Science."

Similar presentations

Department of Statistics R.W. Doerge West Lafayette, IN www.stat.purdue.edu/~doerge Developing statistics programs for majors outside of statistics and.

Department of Statistics R.W. Doerge West Lafayette, IN Developing statistics programs for majors outside of statistics and.
Abstract : Bioinformatics and Bio-Math represent new and exciting ways to teach students about the practical applications within science. Currently, with.

Abstract : Bioinformatics and Bio-Math represent new and exciting ways to teach students about the practical applications within science. Currently, with.
Strategic Planning College Division Biology Department.

Strategic Planning College Division Biology Department.
Practical and Workable Ideas for Learning Communities Julie Phelps, Achieving the Dream (AtD) Project Director & Professor, Mathematics Christy Cheney,

Practical and Workable Ideas for Learning Communities Julie Phelps, Achieving the Dream (AtD) Project Director & Professor, Mathematics Christy Cheney,
Presentation to Educational Policy Committee Department of Biology Revised March, 2013 Biology Department: Position Requests.

Presentation to Educational Policy Committee Department of Biology Revised March, 2013 Biology Department: Position Requests.
ActionWebs : Education and Outreach ActionWebs Kickoff Meeting December 17, 2009 │Berkeley, California Education Overview Kristen Gates, Ed.D University.

ActionWebs : Education and Outreach ActionWebs Kickoff Meeting December 17, 2009 │Berkeley, California Education Overview Kristen Gates, Ed.D University.
Virology Education: Small Colleges with Unique Opportunities Dave Kushner.

Virology Education: Small Colleges with Unique Opportunities Dave Kushner.
Educational Programs in Bioinformatics at UNO Hesham H. Ali Department of Computer Science College of Info Science and Technology University of Nebraska.

Educational Programs in Bioinformatics at UNO Hesham H. Ali Department of Computer Science College of Info Science and Technology University of Nebraska.
Bioinformatics and the Engineering Library ASEE 2008 Amy Stout.

Bioinformatics and the Engineering Library ASEE 2008 Amy Stout.
Integrating Mathematical Concepts Across the Biology Curriculum— Remediation Efforts, Introductory Biology Sequence, Biostatistics, and Bioinformatics.

Integrating Mathematical Concepts Across the Biology Curriculum— Remediation Efforts, Introductory Biology Sequence, Biostatistics, and Bioinformatics.
Goran Šuković, University of Montenegro 1/18 Faculty of Sciences Podgorica University of Montenegro 7 th Workshop on “Software Engineering Education and.

Goran Šuković, University of Montenegro 1/18 Faculty of Sciences Podgorica University of Montenegro 7 th Workshop on “Software Engineering Education and.
Pathways Bioinformatics & Biomolecular Center at the City College of New York Marshak Science Building, Room 1102 Tel: 212/650-8870 Fax: 212/650-8339 Email:

Pathways Bioinformatics & Biomolecular Center at the City College of New York Marshak Science Building, Room 1102 Tel: 212/ Fax: 212/
Southern California Bioinformatics Summer Institute Wendie Johnston, Beverly Krilowicz, Jamil Momand, Sandra Sharp, Nancy Warter- Perez.

Southern California Bioinformatics Summer Institute Wendie Johnston, Beverly Krilowicz, Jamil Momand, Sandra Sharp, Nancy Warter- Perez.
Bioinformatics “half a year in the lab can easily save you an afternoon in front of the computer….” (unknown)

Bioinformatics “half a year in the lab can easily save you an afternoon in front of the computer….” (unknown)
PROPOSAL TO ESTABLISH THE UNIVERSITY OF HAWAI‘I HOSPITALITY AND TOURISM INSTITUTE Submitted by University of Hawai‘i Hospitality and Tourism Consortium.

PROPOSAL TO ESTABLISH THE UNIVERSITY OF HAWAI‘I HOSPITALITY AND TOURISM INSTITUTE Submitted by University of Hawai‘i Hospitality and Tourism Consortium.
Bioinformatics and Phylogenetic Analysis

Bioinformatics and Phylogenetic Analysis
NICLS: Development of Biomedical Computing and Information Technology Infrastructure Presented by Simon Sherman August 15, 2005.

NICLS: Development of Biomedical Computing and Information Technology Infrastructure Presented by Simon Sherman August 15, 2005.
Using Peer Tutors to Support Learning Focus on Teaching and Technology Conference November 1-2, 2007 Co-presenters: Keith Stine, Department of Chemistry.

Using Peer Tutors to Support Learning Focus on Teaching and Technology Conference November 1-2, 2007 Co-presenters: Keith Stine, Department of Chemistry.
Strategic Plan for CIS Department. Vision Have an international reputation, apart from the main campus, for innovative research and excellent educational.

Strategic Plan for CIS Department. Vision Have an international reputation, apart from the main campus, for innovative research and excellent educational.
Quality Enhancement Plan “Making Critical Connections” Bobbi Owen, Senior Associate Dean Undergraduate Education, College of Arts & Sciences Board of Trustees,

Quality Enhancement Plan “Making Critical Connections” Bobbi Owen, Senior Associate Dean Undergraduate Education, College of Arts & Sciences Board of Trustees,

Similar presentations

Ads by Google