BioMicroCenter:BIG meeting: Difference between revisions

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Full Speaker Rotation is '''[[BioMicroCenter:BIG_Rotation||HERE]]'''.
Full Speaker Rotation is '''[[BioMicroCenter:BIG_Rotation||HERE]]'''.
==2013-2014 academic year==
{| border=1
! width 100 align="center"|DATE
! width 100 align="center"|TIME
! width 100 align="center"|Presenter
! width 100 align="center"|Location
! width 100 align="center"|Room
! width 100 align="center"|NOTES
|-
| Sept 12
| noon
| Matthew McCormack (MolBio)
| MGH
| Simches 7.240
| call 617-726-5944 to get upstairs
|-
| Sept 26
| noon
| Vincent Butty (MIT)
| MIT
| 68-156
| Reference-free sequence variation discovery
|-
| Oct 24
| noon
| Mark Borowski (Novartis)
| MIT
| 68-156
|
|-
| Nov 14
| noon
| George Marnellos
|
|
| HMS
|-
| Dec 5
| noon
| Charlie Whittaker
| MIT
| 68-156
|
|-
| Dec 19
| noon
| '''OPEN'''
|
|
|
|-
| Jan 9, 2014
| noon
| Jie Wu
| MIT
| 68-156
|
|-
| Jan 23
| noon
| George Bell
|
|
| Whitehead
|-
| Feb 6
| noon
| Stuart Levine
| MIT
| 68-156
|
|-
| Feb 27
| noon
| Rory Kirchner
|
|
| bcbio.rnaseq, an automated way to compare different RNA-seq differential expression callers
|-
| Mar 13
| noon
| Huiming Ding
| MIT
| 68-156
|
|-
| Mar 27
| noon
| Yanqun Wang
|
|
| Novartis
|-
| Apr 10
| noon
| Jingzhi Zhu
| MIT
| 68-156
|
|-
| May 1
| noon
| Penny Wang
|
|
| MGH
|-
| May 15
| noon
| Duan Ma
| MIT
| 68-156
|
|-
| May 29
| noon
| '''OPEN'''
|
|
|
|}
==2013==
{| border=1
! width 100 align="center"|DATE
! width 100 align="center"|TIME
! width 100 align="center"|Presenter
! width 100 align="center"|Location
! width 100 align="center"|Room
! width 100 align="center"|NOTES
|-
| 1/10 (Thursday)
| 12p
| Vincent Butty
| MIT
| 68-156
| Proteomics application of Next-Gen sequencing technologies
|-
| 2/14
| 12p
| Huiming Ding
| MIT
| 68-156
| Evaluation of Cuffdiff2 for RNA-seq Differential Analysis and CaBlast for Compressive Genomics
|-
| 3/14
| 12p
| Lakshmanan Iyer
| MIT
| 68-156
| Communicating ENCODE data and using it to analyze rare diseases
|-
| 3/28
| 12p
| Stuart Levine / George Bell / Mark Borowski
| MIT
| 68-156
| AGBT & ABRF Meeting Reviews
|-
|}
==2012==
==2012==
{| border=1  
{| border=1  
Line 100: Line 261:
  | 12p  
  | 12p  
  | Brad Chapman
  | Brad Chapman
  | HSPH
  | MIT
  | TBA
  | [http://whereis.mit.edu/?go=68 68-156]
  | TBA
  | Biological resources for Amazon: CloudBioLinux, CloudMan, BioCloudCentral [http://www.slideshare.net/chapmanb/big-cloud-2012 slides]
  |-
  |-
  | 11/1
  | 11/8
  | 12p  
  | 12p  
  | Ruslan Sadreyev
  | Ruslan Sadreyev
  | MGH
  | MGH
  | TBA
  | Darwin Room
  | TBA
  | Methods for analyzing allelic expression of RNA.
  |-
  |-
  | 11/15
  | 11/29
  | 12p  
  | 12p  
  | George Bell
  | George Bell
  | WI
  | WI
  | TBA
  | 4th floor conference room
  | TBA
  | TargetScan
|-
| 12/13
| 12p
| Rory Kirchner
| MIT
| 68-156
| iPython and iPython Notebook
  |-
  |-
|}
|}

Revision as of 17:38, 9 October 2013

HOME -- SEQUENCING -- LIBRARY PREP -- HIGH-THROUGHPUT -- COMPUTING -- OTHER TECHNOLOGY

Full Speaker Rotation is |HERE.

2013-2014 academic year

DATE TIME Presenter Location Room NOTES
Sept 12 noon Matthew McCormack (MolBio) MGH Simches 7.240 call 617-726-5944 to get upstairs
Sept 26 noon Vincent Butty (MIT) MIT 68-156 Reference-free sequence variation discovery
Oct 24 noon Mark Borowski (Novartis) MIT 68-156
Nov 14 noon George Marnellos HMS
Dec 5 noon Charlie Whittaker MIT 68-156
Dec 19 noon OPEN
Jan 9, 2014 noon Jie Wu MIT 68-156
Jan 23 noon George Bell Whitehead
Feb 6 noon Stuart Levine MIT 68-156
Feb 27 noon Rory Kirchner bcbio.rnaseq, an automated way to compare different RNA-seq differential expression callers
Mar 13 noon Huiming Ding MIT 68-156
Mar 27 noon Yanqun Wang Novartis
Apr 10 noon Jingzhi Zhu MIT 68-156
May 1 noon Penny Wang MGH
May 15 noon Duan Ma MIT 68-156
May 29 noon OPEN

2013

DATE TIME Presenter Location Room NOTES
1/10 (Thursday) 12p Vincent Butty MIT 68-156 Proteomics application of Next-Gen sequencing technologies
2/14 12p Huiming Ding MIT 68-156 Evaluation of Cuffdiff2 for RNA-seq Differential Analysis and CaBlast for Compressive Genomics
3/14 12p Lakshmanan Iyer MIT 68-156 Communicating ENCODE data and using it to analyze rare diseases
3/28 12p Stuart Levine / George Bell / Mark Borowski MIT 68-156 AGBT & ABRF Meeting Reviews

2012

DATE TIME Presenter Location Room NOTES
1/26 (Thursday) 12p Brian Haas (Broad Institute) MIT 76-558 Trinity
2/23 (Thursday) 12p Brad Chapman MIT 68-180 Extending the GATK for variant comparisons; slides code
3/22 (Thursday) 12p Vincent Butty MIT 68-181 RNA-Seq quality control and quantitation of alternative RNA processing
4/12 (Thursday) 12p Kip Bodi Tufts Medical Journal Club
5/3 12p Huiming Ding MIT 68-180 "High-throughput generation, optimization and analysis of genome-scale metabolic models." by Henry, C. S. et al.
5/24 12p Joshua Ainsley (Tufts) - Hosted by Lakshmanan Iyer Tufts Sackler 851 Characterizing dendritic translation with RNA-Seq
6/7 12p Toshi Ohsumi MGH Sinches 5 - Darwin Room MolBioLib: a C++11 Bioinformatics Framework
6/21 12p Juli Klemm (NIH/NCI) MIT 68-156 Informatics at NCI
7/12 12p Ryan Abo MIT 68-274 discovery of active enhancers using GRO-seq data.

Core, LJ, Waterfall, JJ, Lis, JT (2008). Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science, 322, 5909:1845-8.
Melgar, MF, Collins, FS, Sethupathy, P (2011). Discovery of active enhancers through bidirectional expression of short transcripts. Genome Biol., 12, 11:R113.

7/26 12p Yanqun Wang MGH TBA TBA
9/13 12p Stuart Levine MIT 68-156 Replicates in Informatics: http://genome.cshlp.org/content/22/9/1813.full.pdf+html
9/27 12p Charlie Whittaker KI 68-156 Teaching Bioinformatics
10/18 12p Brad Chapman MIT 68-156 Biological resources for Amazon: CloudBioLinux, CloudMan, BioCloudCentral slides
11/8 12p Ruslan Sadreyev MGH Darwin Room Methods for analyzing allelic expression of RNA.
11/29 12p George Bell WI 4th floor conference room TargetScan
12/13 12p Rory Kirchner MIT 68-156 iPython and iPython Notebook

2011

Schedule for 2011.

DATE TIME Presenter Location Room NOTES
1/18 12p Toshiro Ohsumi MGH Simches 5290
2/1 12p Stuart Levine MIT 68-329 Illumina Quality Control Modules
2/15 12p Paola Favaretto MIT 76-358 Matlab
3/8 12p Fugen Li MIT 68-329 Enhancer Analysis
3/22 12p Charlie Whittaker MIT 76-247 Commercial versus public GO tools
4/12 12p Laurent Gautier
Center for Biological Sequence Analysis, Denmark 		MIT 76-259 R-Python Interface
http://www.cbs.dtu.dk/index.shtml
4/26 12p Michael Reich
Broad Institute 		MIT 68-151 GenePattern Enhancements
5/17 12p Mark Borowsky MGH Simches 5 / Darwin Schneeberger et al., 2009 NatureMethods
6/7 12p Brad Chapman MIT 68-151 BioPython
6/28 12p Ruslan Sadreyev MIT 76-659 Teaching Statistics
7/12 12p Kip Bodi MIT 68-121 Data analysis for DSRG / ABRF
7/26 12p Toshiro Ohsumi MGH TBA
8/23 12p Lakshmanan Iyer Tufts Medical RNAseq Analysis
9/15 (Thursday) 12p Brad Chapman MIT 76-558 distributed exome analysis pipeline slides
10/6 (Thursday) 12p Stuart Levine MIT 68-274 Comparison of ChIP-seq algorithms
10/27 (Thursday) 12p Pablo Pareja MIT 76-258 Bio4j Graph based analysis and visualization slides
11/?? (Thursday) 12p Paola Favaretto MIT RNAseq - part I
12/15 12p Charlie Whittaker MIT RNAseq - part II


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