imported>George W Bell at 15:59, 4 December 2020

2020-12-04T15:59:04Z

New page

{{BioMicroCenter}}

==2020-2021 academic year==

Meetings will start out as virtual (on your platform of choice, or ask [mailto:gbell@wi.mit.edu George Bell] to set up a Zoom or Meet meeting). If we return to work interactions, they will be at MIT Biology (68-156), the Whitehead Institute (7th floor larger classroom), or anywhere else as selected by the speaker. A session leader is welcome to present a project, a published work (like a journal club), share notes from a conference, or present anything else of interest to our group of applied bioinformatics scientists. The format can be a presentation and/or a discussion, and the venue need not be MIT or Whitehead. Questions? Contact George.

'''UPDATE: The BIG meeting series will be taking a hiatus during the 2020-2021 academic year. We'll start up again in the fall of 2021 -- see you then!'''

==2019-2020 academic year==
Meetings will be at MIT Biology (68-156), the Whitehead Institute (7th floor larger classroom), or anywhere else as selected by the speaker. A session leader is welcome to present a project, a published work (like a journal club), share notes from a conference, or present anything else of interest to our group of applied bioinformatics scientists. The format can be a presentation and/or a discussion, and the venue need not be MIT or Whitehead. Questions? Contact Barry Kesner or George Bell.
{| border=1
!width 150px align="center"|Date
!width 150px align="center"|Time
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|Topic, notes, etc.
|-align="center"
|Dec 5
|11 am
|George Bell (WI)
|WI
|Founders Room (2nd floor)
|Engineering and characterizing human microglia
|-align="center"
|Dec 19
|11 am
|Vincent Butty (MIT)
|MIT
|68-156
|Trajectory Inference in scRNA-Seq
|-align="center"
|Jan 9
|11 am
|Dikshant Pradhan (MIT)
|MIT
|68-156
|FAIR data management using SEEK
|-align="center"
|Jan 23
|11 am
|Troy Whitfield (WI)
|WI
|7th floor classroom
|  HIV-1 protease (fitness measurements and machine learning)  
|-align="center"
|Feb 27
|11 am
|Prat Thiru (WI)
|WI
|7th floor classroom
|Challenges of scRNA-seq [http://barc.wi.mit.edu/education/BIG_Meeting/scRNASeq_Challenges.pdf (slides)]
|-align="center"
|Mar 19
|11 am
|Stuart Levine (MIT)
|MIT
|videoconference
|AGBT / ABRF Technology review
|-align="center"
|Apr 2
|11 am
|Charlie Whittaker (MIT)
|MIT
|videoconference
|ABRF GBIRG 2020 - Ontology Analyses Study
|-align="center"
|Apr 16
|11 am
|   John Hutchinson (HSPH)  
|MIT
|videoconference
|
|-align="center"
|Apr 23
|11 am
|Duanduan Ma (MIT)
|MIT
|videoconference
|Causal inference and its potential application in RNA-seq time series data
|-align="center"
|May 14
|11 am
|Inma Barrasa (WI)
|WI
|videoconference
|Antigen receptor sequence reconstruction and clonality inference from scRNA-Seq data
|-align="center"
|June 4
|11 am
|Bingbing Yuan (WI)
|WI
|videoconference
|Identifying differentially expressed genes in scRNA-seq experiments
|-align="center"
|}

==2018-2019 academic year==
{| border=1
!width 150px align="center"|Date
!width 150px align="center"|Time
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|Notes
|-align="center"
|Oct 11
|11 am
|**NO MEETING**
|MIT
|68-156
|
|-align="center"
|   Oct 25  
|   11 am  
|   George Bell (WI)  
|   Whitehead  
|   7th floor  
|   Experimental design: Make a good one, or make the most of what you get  
|-align="center"
|Nov 15
|11 am
|Kris Richardson (WI)
|Whitehead
|7th floor
|ATAC-Seq analysis
|-align="center"
|Dec 6
|11 am
|Lorena Pantano (HSPH)
|MIT
|68-156
|miRNA Wars: the isomiR menace
|-align="center"
|Dec 20
|11 am
|Charlie Whittaker (KI, MIT)
|MIT
|68-156
|Intragenic Tandem Repeats
|-align="center"
|Jan 10
|11 am
|Prat Thiru (WI)
|Whitehead
|7th floor
|            Visualization: principles & software ([http://barc.wi.mit.edu/education/BIG_Meeting/BIG_MeetingJan2019_Viz.pdf slides]); D3 demo ([http://barc.wi.mit.edu/education/BIG_Meeting/demo_viz.zip code]), tested on Firefox         
|-align="center"
|Jan 24
|11 am
|Vincent Butty (MIT)
|MIT
|68-156
|RNA processing analysis in single-cell RNA-Seq
|-align="center"
|Feb 7
|11 am
|Ruslan Sadreyev (MGH/HMS)
|MIT
|68-156
|Causal interactions between DNA replication and chromatin remodeling
|-align="center"
|Feb 28
|11 am
|**NO MEETING**
|MIT
|68-156
|
|-align="center"
|Mar 28
|11 am
|Brad Chapman (Harvard Chan)
|MIT
|[http://whereis.mit.edu/?go=68 68-156]
|Data organization, normalization and modeling; ([https://github.com/chapmanb/bcbb/blob/master/talks/ginkgo_dataorg/ginkgo_dataorg.pdf slides])
|-align="center"
|Apr 11
|11 am
|Inma Barrasa (WI)
|Whitehead
|7th floor
|Discussion of [https://www.ncbi.nlm.nih.gov/pubmed/30827895 Li et al., 2019], highlighting the computational analysis
|-align="center"
|May 2
|11 am
|Huiming Ding (MIT)
|MIT
|68-156
|Recent trends in FAIR data management and machine learning algorithms
|-align="center"
|May 16
|11 am
|Duanduan Ma (MIT)
|MIT
|68-156
|Machine learning and its applications in genomics
|-align="center"
|May 30
|11 am
|Bingbing Yuan (WI)
|Whitehead
|7th floor
|Creating client-side interactive plots in R ([http://barc.wi.mit.edu/education/BIG_Meeting/BigMeeting_May2019.pdf slides]) ([http://barc.wi.mit.edu/education/BIG_Meeting/BigMeeting_May2019_RmarkdownFiles.zip R markdown and sample input/output])
|-align="center"
|}

==2017-2018 academic year==
{| border=1
!width 150px align="center"|Date
!width 150px align="center"|Time
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|Notes
|-align="center"
|Oct 5
|11 am
|**NO MEETING**
|MIT
|68-156
|
|-align="center"
|Oct 19
|11 am
|Vincent Butty (MIT)
|MIT
|68-156
|RNA-Seq-based alternative isoform quantification, and benchmarking with spike-ins.
|-align="center"
|Nov 2
|11 am
|Brad Chapman (HSPH)
|MIT
|[http://whereis.mit.edu/?go=68 68-156]
|[https://gist.github.com/chapmanb/8ee026fd85d07518570ac5a0cd7239f5 bcbio and Common Workflow Language interoperability progress]; [https://github.com/chapmanb/bcbb/blob/master/talks/big2017_bcbio_cwl/big2017_bcbio_cwl.pdf slides]; [https://youtu.be/nJEDS9Qol8M video]
|-align="center"
|Nov 16
|11 am
|**NO MEETING**
|MIT
|68-156
|
|-align="center"
|Dec 7
|11 am
|Lorena Pantano (HSPH)
|MIT
|68-156
|Analyzing hundreds of small RNA samples with bcbio-nextgen; miRTop
|-align="center"
|Dec 21
|11 am
|Charlie Whittaker
|MIT
|68-156
|Vignettes: Gene expression, search for diagnostic markers; logFC shrinkage methods
|-align="center"
|Jan 4
|11 am
|**NO MEETING**
|MIT
|7th floor
|
|-align="center"
|Jan 18
|11 am
|Prat Thiru (WI)
|Whitehead
|7th floor
|Reproducible research for bioinformatics: best practices [http://barc.wi.mit.edu/education/BIG_Meeting/BIG_MeetingJan2018.pdf (slides)]
|
|-align="center"
|Feb 1
|11 am
|Kris Richardson (WI)
|   Whitehead  
|   7th floor  
|Highlights from Genome Informatics (Nov. 2017)
|-align="center"
|Feb 15
|11 am
|George Bell (WI)
|Whitehead
|7th floor
|Fungal genome assembly and annotation
|-align="center"
|Mar 1
|11 am
|Stuart Levine (MIT)
|MIT
|68-156
|Review of AGBT meeting: What is that light coming down the tunnel?
|-align="center"
|Mar 15
|11 am
|     Radhika Khetani and Mary Piper (HSPH)    
|MIT
|68-156
|Adventures in Bioinformatics Training
|-align="center"
|Apr 5
|11 am
|Bingbing Yuan (WI)
|Whitehead
|7th floor
|Interactive Figures with R [http://barc.wi.mit.edu/education/BIG_Meeting/interactivePlots_Apr2018.pdf (slides)]
|-align="center"
|Apr 19
|11 am
|Huiming Ding (MIT)
|MIT
|68-156
|Application of Machine Learning In Analyzing Cancer Mutations
|-align="center"
|May 3
|2pm
|Priyanka Shivdasani, Renato Umeton, and Matthew Dukar
|DFCI
|Rm D1620, Dana building, 450 Brookline Ave, Boston
|Building tools to fight cancer: three vignettes from the DFCI Data Science and Bioinformatics group
|
|-align="center"
|May 17
|11 am
|Inma Barrasa (WI)
|Whitehead
|7th floor
|
|-align="center"
|May 30 (Wed.)
|11 am
|Duanduan Ma (MIT)
|MIT
|68-156
|Reflection of 2018 May Institute: Computation and Statistics for mass spectrometry and proteomics
|}

==2016-2017 academic year==
{| border=1
!width 150px align="center"|Date
!width 150px align="center"|Time
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|Notes
|-align="center"
|Oct 6
|11 am
|Prat Thiru (WI)
|Whitehead
|7th floor
|[http://barc.wi.mit.edu/education/BIG_Meeting/BIG_Meeting2016_Oct.pdf Highlights of ECCB 2016]
|-align="center"
|Oct 20
|11 am
|Vincent Butty (MIT)
|MIT
|68-156
|High-throughput 3' digital gene expression analysis for low input RNA samples.
|-align="center"
|Nov 3
|11 am
|Brad Chapman (HSPH)
|MIT
|[http://whereis.mit.edu/?go=68 68-156]
|[https://gist.github.com/chapmanb/f1ccdd2e2e23b0383b6e6857b59a431b bcbio and the Common Workflow Language] [https://github.com/chapmanb/bcbb/blob/master/talks/big2016_bcbio_cwl/big2016_bcbiocwl.pdf slides] [https://youtu.be/375QSYmaidk recording]
|-align="center"
|Nov 17
|11 am
|Matthew McCormack (Harvard)
|MIT
|68-156
|The human splicing code and disease ( [https://www.ncbi.nlm.nih.gov/pubmed/25525159 Xiong et al., Science])
|-align="center"
|Dec 1
|11 am
|George Bell (WI)
|Whitehead
|7th floor
|Under-replication analysis; 3D printing of biomolecules
|-align="center"
|Dec 15
|11 am
|Lorena Pantano (HSPH)
|MIT
|68-156
| [https://gist.github.com/chapmanb/87ce4db49792ed7e98081c97c011372c small RNA analysis] [https://github.com/lpantano/mypubs/blob/master/talks/BIG_Dec_15_2016.pdf slides] [https://youtu.be/l5nI8GICCPg video]
|-align="center"
|Jan 5
|11 am
|**NO MEETING**
|
|
|
|-align="center"
|Jan 19
|11 am
|Charlie Whittaker (MIT)
|MIT
|68-156
|Using SOMs for RNA-seq analysis
|-align="center"
|Feb 2
|11 am
|Ruslan Sadreyev (MGH)
|MIT
|68-156
| 5C HiC analysis [https://www.youtube.com/watch?v=8F1UZjUyK04 video]
|-align="center"
|Feb 16
|11 am
|Matt Shirley (NIBR)
|MIT
|68-156
| PISCES: alignment free RNA-seq quantiation and QC pipeline; [http://www.openwetware.org/images/6/6b/2017-02-16_BIG-meeting.pdf slides]; [https://www.youtube.com/watch?v=6uS5JENyDg0 video]
|-align="center"
|Mar 2
|11 am
|Stuart Levine (MIT)
|MIT
|68-156 (confirmed)
|Review of AGBT
|-align="center"
|Mar 16
|11 am
|**NO MEETING**
|
|
|
|-align="center"
|Apr 6
|11 am
|Huiming Ding (MIT)
|MIT
|68-156
|Running a scRNA-Seq pipeline in the Amazon cloud
|-align="center"
|Apr 20
|11 am
|Duanduan Ma (MIT)
|MIT
|68-156
|Weighted Correlation Network Analysis (WGCNA) and its application in cancer genomics study
|-align="center"
|May 4
|11 am
|Michael Steinbaugh (HSPH)
|MIT
|68-156
|R-based methods for scRNA-seq analysis
|-align="center"
|May 18
|11 am
|Inma Barrasa (WI)
|Whitehead
|7th floor
|Identifying antibody repertoires using high-throughput sequencing
|}

==2015-2016 academic year==
{| border=1
!width 150px align="center"|DATE
!width 150px align="center"|TIME
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|NOTES
|-align="center"
|OCT22
|11a
|VINCENT BUTTY (MIT)
|MIT
|68-156
|Dimensionality reduction for single cell data
|-align="center"
|NOV5
|11a
|BRAD CHAPMAN (HSPH)
|MIT
|[http://whereis.mit.edu/?go=68 68-156]
|[https://github.com/chapmanb/bcbio-nextgen bcbio development work] supporting [http://bcb.io/2015/09/17/hg38-validation/ human build 38], [https://github.com/bcbio/bcbio.github.io/blob/master/_posts/2015-10-05-vardict-filtering.md low frequency variant calling] and support for Docker and the Common Workflow Language: [https://github.com/chapmanb/bcbb/blob/master/talks/big2015_bcbio/big2015_bcbio.pdf validation slides], [https://github.com/chapmanb/bcbb/blob/master/talks/bioindocker2015_bcbio/chapman_bioindocker.pdf Docker/CWL slides]
|-align="center"
|NOV19
|11a
|Jie Wu (MIT)
|MIT
|68-156
|Finding methods for reliable detection of megabase-scale CNV in single cell sequencing data.
|-align="center"
|DEC3
|11a
|Lorena Pantano (HSPH)
|
|
|
|-align="center"
|DEC17
|11a
|Inma Barrasa (WI)
|WI
|7th floor classroom
|
|-align="center"
|JAN7
|11a
|Duanduan Ma (MIT)
|MIT
|68-156
|An easy and convenient TCGA gold miner for biologists
|-align="center"
|JAN21
|11a
|George Bell (WI)
|WI
|7th floor classroom
|Genome and gene representations: Options for expression analysis
|-align="center"
|FEB4
|11a
|George Marnellos (Harvard)
|
|
|
|-align="center"
|Feb 25
|11a
|STUART LEVINE (MIT)
|MIT
|68-156
|AGBT/ABRF Meeting Review
|-align="center"
|MAR10
|11a
|Prat Thiru (WI)
|WI
|7th floor classroom
|
|-align="center"
|MAR24
|11a
|Matt McCormack (MGH)
|
|
|
|-align="center"
|APR14
|11a
|Huiming Ding (MIT)
|MIT
|68-156
|
|-align="center"
|APR28
|11a
|Laurent Gautier (Novartis)
|
|
|
|-align="center"
|MAY12
|11a
|BARRY KESNER (MGH)
|
|
|
|-align="center"
|MAY26
|11a
|Yanmei Huang (WI)
|WI
|7th floor classroom
|
|}

==2014-2015 academic year==
{| border=1
!width 150px align="center"|DATE
!width 150px align="center"|TIME
!width 150px align="center"|Presenter
!width 150px align="center"|Location
!width 150px align="center"|Room
!width 150px align="center"|NOTES
|-align="center"
|SEP17
|noon
|JIE WU (MIT)
|MIT
|68-156
|Copy Number Variation from single mammalian cells.
|-align="center"
|OCT15
|noon
|BRAD CHAPMAN (HSPH)
|MIT
|[http://whereis.mit.edu/?go=68 68-156]
|Validation with [https://github.com/chapmanb/bcbio-nextgen bcbio-nextgen] on [http://bcbio.wordpress.com/2014/08/12/validated-whole-genome-structural-variation-detection-using-multiple-callers/ structural variation], [http://bcbio.wordpress.com/2014/10/07/joint-calling/ joint calling] and cancer tumor/normal. [https://github.com/chapmanb/bcbb/raw/master/talks/big2014_bcbio_val/chapman_bcbio.pdf slides]
|-align="center"
|OCT29
|noon
|VINCENT BUTTY (MIT)
|MIT
|68-156
|Single-molecule barcoding: applications and analytic challenges
|-align="center"
|NOV5
|noon
|GEORGE BELL (WI)
|WI
|WI-332
|Happy yeast and fast fish
|-align="center"
|NOV19
|noon
|RUSLAN SADREYEV (MGH)
|
|
|
|-align="center"
|DEC3
|noon
|CHARLIE WHITTAKER (MIT)
|MIT
|68-156
|
|-align="center"
|DEC17
|noon
|GEORGIOS MARNELLOS (HMS)
|
|
|
|-align="center"
|JAN7
|noon
|DM
|MIT
|68-156
|
|-align="center"
|JAN21
|noon
|MATTHEW MCCORMACK (MGH)
|
|
|
|-align="center"
|FEB11
|noon
|PRAT THIRU (WI)
|WI
|WI-332
|
|-align="center"
|MAR4
|noon
|STUART LEVINE (MIT)
|MIT
|68-156
|AGBT Meeting Review
|-align="center"
|MAR18
|noon
|YANQUN WANG (MGH)
|
|
|
|-align="center"
|APR1
|noon
|INMA BARRASA (WI)
|WI
|WI-332
|
|-align="center"
|APR15
|noon
|HUIMING DING
|MIT
|68-156
|
|-align="center"
|APR29
|noon
|BINGBING YUAN (WI)
|WI
|WI-332
|
|-align="center"
|MAY13
|noon
|BARRY KESNER (MGH)
|
|
|
|}

==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
| Life in Pharmaa
|-
| Nov 14
| noon
| George Marnellos (HMS)
| MIT
| 68-156
| non-reference organism RNA-seq analysis (assembly and differential expression) using tools like Trinity and edgeR/DESeq
|-
| Dec 5
| noon
| Charlie Whittaker (MIT)
| MIT
| 68-156
|
|-
| Jan 9, 2014
| noon
| Jie Wu (MIT)
| MIT
| 68-156
| [http://nar.oxfordjournals.org/content/41/10/5149 OLego] and [http://bioinformatics.oxfordjournals.org/content/27/21/3010 SpliceTrap]
|-
| Jan 23
| noon
| George Bell (WI)
| Whitehead
| 4th floor Conference Room
| Resource Sharing (code, data, web tools, methods, etc.) within our group, across Whitehead, and to the public.
|-
| Feb 6
| noon
| Lax Iyer (Tufts)
| MIT
| 68-156
| RNASeq study on Astroglia Development
|-
| Feb 27
| noon
| Rory Kirchner
| MIT
| 68-156
| bcbio.rnaseq, an automated way to compare different RNA-seq differential expression callers
|-
| Mar 13
| noon
| Huiming Ding
| MIT
| 68-156
| Transposition and cancer
|-
| 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==
{| 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
|-
| 1/26 (Thursday)
| 12p
| Brian Haas (Broad Institute)
| MIT
| [http://whereis.mit.edu/?go=76 76-558]
| [http://www.ncbi.nlm.nih.gov/pubmed/21572440 Trinity]
|-
| 2/23 (Thursday)
| 12p
| Brad Chapman
| MIT
| [http://whereis.mit.edu/?go=68 68-180]
| Extending the GATK for variant comparisons; [http://chapmanb.github.com/bcbio.variation/presentations/gatk_clojure.pdf slides] [https://github.com/chapmanb/bcbio.variation code]
|-
| 3/22 (Thursday)
| 12p
| Vincent Butty
| MIT
| [http://whereis.mit.edu/?go=68 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
| [http://whereis.mit.edu/?go=68 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
| [http://campusmaps.tufts.edu/boston/?fid=B011 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
| [http://whereis.mit.edu/?go=68 68-156]
| [[BioMicroCenter:BIG_meeting:KlemmTalk|Informatics at NCI]]
|-
| 7/12
| 12p
| Ryan Abo
| MIT
| [http://whereis.mit.edu/?go=68 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
| [http://whereis.mit.edu/?go=68 68-156]
| Replicates in Informatics: http://genome.cshlp.org/content/22/9/1813.full.pdf+html
|-
| 9/27
| 12p
| Charlie Whittaker
| KI
| [http://whereis.mit.edu/?go=68 68-156]
| Teaching Bioinformatics
|-
| 10/18
| 12p
| Brad Chapman
| MIT
| [http://whereis.mit.edu/?go=68 68-156]
| Biological resources for Amazon: CloudBioLinux, CloudMan, BioCloudCentral [http://www.slideshare.net/chapmanb/big-cloud-2012 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.
{| 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
|-
| 1/18
| 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
| [http://bcbio.wordpress.com/2011/08/19/distributed-exome-analysis-pipeline-with-cloudbiolinux-and-cloudman/ distributed exome analysis pipeline] [http://www.slideshare.net/chapmanb/developing-distributed-analysis-pipelines-with-shared-community-resources-using-cloudbiolinux-and-cloudman slides]
|-
| 10/6 (Thursday)
| 12p
| Stuart Levine
| MIT
| 68-274
| Comparison of ChIP-seq algorithms
|-
| 10/27 (Thursday)
| 12p
| [http://about.me/pablopareja Pablo Pareja]
| MIT
| [http://whereis.mit.edu/?go=76 76-258]
| [http://www.bio4j.com/ Bio4j Graph based analysis and visualization] [http://www.slideshare.net/pablo_pareja/bio4j slides]
|-
| 11/?? (Thursday)
| 12p
| Paola Favaretto
| MIT
|
| RNAseq - part I
|-
| 12/15
| 12p
| Charlie Whittaker
| MIT
|
| RNAseq - part II
|-
|}

BioMicroCenter:BIG meeting - Revision history

imported>George W Bell at 15:59, 4 December 2020