Difference between revisions of "Bioinformatics and Research Computing (BaRC), Whitehead Institute"

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Name/Title:  
 
Name/Title:  
−
     Fran Lewitter, Ph.D., Director of BaRC, (lastname AT wi.mit.edu)  
+
     George W. Bell, Ph.D., Director of BaRC, (lastname AT wi.mit.edu)  
  
 
Group size:  
 
Group size:  
 
     - total staff is 6
 
     - total staff is 6
−
     - 1 Ph.D. director, 1 Ph.D. Senior Bioinformatics Scientist, 2 Bioinformatics Scientists,  
+
     - 1 Ph.D. director, 3 Bioinformatics Scientists,  
−
       1 M.S. Bioinformatics Analysts, and 1 Senior Graphics specialist.  
+
       1 M.S. Senior Bioinformatics Analyst, and 1 Senior Graphics specialist.  
−
     - We have a full IT department that manages our systems and network.  
+
     - We have a full IT department that manages our systems, Linux software, and network.  
  
 
Environment:  
 
Environment:  
 
     The Whitehead Institute is a private research institute affiliated with MIT. All PIs at  
 
     The Whitehead Institute is a private research institute affiliated with MIT. All PIs at  
−
     Whitehead hold faculty appointments at MIT. There are 18 labs - 16 Faculty and 2
+
     Whitehead hold faculty appointments at MIT. There are 21 labs - 17 Faculty and 4
 
     Whitehead Fellows - with undergrads, graduate students, postdocs and technicians.  
 
     Whitehead Fellows - with undergrads, graduate students, postdocs and technicians.  
 
     Labs range in size from 6 to low 40s.  
 
     Labs range in size from 6 to low 40s.  
  
 
Tools:  
 
Tools:  
−
   We support software on Macs, PCs and Unix. For desktop software we currently  
+
   We support software on Mac, Windows and Linux. For desktop software we currently  
 
   support LaserGene, MacVector, Sequencher, Gene Construction Kit. Vector NTI,
 
   support LaserGene, MacVector, Sequencher, Gene Construction Kit. Vector NTI,
−
   DNAStrider, lots of graphics software. On the Unix side we have EMBOSS,  
+
   DNAStrider, the Adobe Creative Suite, and web tools like GeneGo and Oncomine.
−
   University of Washington Genome Center Software, NCBI-Blast,
+
   For Linux software we have a huge selection.
−
  Matlab, R, BioConductor, Patscan, Primer3, HMMER, clustalX, etc.  
 
  
 
Pertinent hardware info:  
 
Pertinent hardware info:  
Line 30: Line 29:
 
Training:  
 
Training:  
 
   - Hands on mini-courses. See [http://jura.wi.mit.edu/bio/education BaRC Education Pages].
 
   - Hands on mini-courses. See [http://jura.wi.mit.edu/bio/education BaRC Education Pages].
−
   - Our "Hot Topics" series is held monthly and includes less than an hour talk about some  
+
   - Our "Hot Topics" series is held monthly and includes an hour talk plus hands-on session about some  
−
       specific tool or topic. 
+
       specific computational or bioinformatics topic.   
−
  - REACH (Roundtable Exchange: Advancing Computational Horizons) is a series for more
 
−
      in-depth presentations of computational biology applications and is primarily for scientists
 
−
      engaged in heavily computational projects.   
 
 
   - We also do lots of one-on-one training.  
 
   - We also do lots of one-on-one training.  
  
 
Bioinformatics support model:  
 
Bioinformatics support model:  
−
   basic model is training, education, consultation and collaboration in the areas  
+
   basic model is consultation, collaboration, training and education in the areas  
 
   of bioinformatics and graphics.  
 
   of bioinformatics and graphics.  
  
 
Funding model:  
 
Funding model:  
 
   Institutional funds.
 
   Institutional funds.

Revision as of 05:37, 2 September 2015

Whitehead Institute for Biomedical Research, Cambridge, MA 

    Bioinformatics & Research Computing (BaRC) Department

Name/Title: 

   George W. Bell, Ph.D., Director of BaRC, (lastname AT wi.mit.edu)

Group size: 

   - total staff is 6
   - 1 Ph.D. director, 3 Bioinformatics Scientists, 
      1 M.S. Senior Bioinformatics Analyst, and 1 Senior Graphics specialist. 
   - We have a full IT department that manages our systems, Linux software, and network.

Environment: 

   The Whitehead Institute is a private research institute affiliated with MIT. All PIs at 
   Whitehead hold faculty appointments at MIT. There are 21 labs - 17 Faculty and 4 
   Whitehead Fellows - with undergrads, graduate students, postdocs and technicians. 
   Labs range in size from 6 to low 40s.

Tools: 

  We support software on Mac, Windows and Linux. For desktop software we currently 
  support LaserGene, MacVector, Sequencher, Gene Construction Kit. Vector NTI,
  DNAStrider, the Adobe Creative Suite, and web tools like GeneGo and Oncomine.
  For Linux software we have a huge selection.

Pertinent hardware info: 

  The IT department supports a large cluster of machines and provides ample storage 
  to support the scientific work at the Institute.

Training: 

  - Hands on mini-courses. See BaRC Education Pages.
  - Our "Hot Topics" series is held monthly and includes an hour talk plus hands-on session about some 
     specific computational or bioinformatics topic.  
  - We also do lots of one-on-one training.

Bioinformatics support model: 

  basic model is consultation, collaboration, training and education in the areas 
  of bioinformatics and graphics.

Funding model: 

  Institutional funds.
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