Single Cell Workshop 2015

Semester: 

Fall

Offered: 

2015

Single-Cell Genomics Workshop

Date: 

Tuesday, November 3, 2015, 8:15am to Wednesday, November 4, 2015, 5:00pm

Location: 

Harvard University (Nov. 3) and Harvard Medical School (Nov. 4) - details below

Both days of this workshop are fully subscribed and confirmation notices were emailed to registrants on Friday, Oct. 16th.

Program organizers:  Lev Silberstein and Peter Kharchenko

Program:
TUESDAY, NOVEMBER 3, 2015 
CURRENT METHODS FOR GENOME AND TRANSCRIPTOME ANALYSIS IN SINGLE CELLS
Harvard University | Sherman-Fairchild 268 | 7 Divinity Avenue | Cambridge

This workshop will provide attendees with an opportunity to gain detailed information on several current methods for single‐cell genome and transcriptome analysis and will cover the theory and key technical elements of each method. It will also include a session on quality control in single cell analysis and a round-table discussion which will focus on optimization of experimental design for single cell analysis-based experiments.

8:15-8:45              Registration and breakfast

8:45-9:00              Introduction and welcome     
                             Lev Silberstein/Peter Kharchenko                                              

9:00-9.45              Keynote - Single Cell Genome:  Amplification, Characterization and Application   
                             Xiaoliang Sunney Xie - Harvard                                          

9:45-10:15           Smart-Seq     
                            Alexandra-Chloe Villani- Broad Institute of MIT and Harvard 

10:15-10:45         BREAK                                                                  

10:45-11:15         FISSEQ     
                            Evan Daugharthy  - Wyss Institute                                 

11:15-11:45         Droplet barcoding for single cell transcriptomics   
                            Allon Klein - Harvard Medical School                                                           

11:45-12:15         Comparison of different single cell RNA-Seq methods    
                            Saiful Islam - Stanford University School of Medicine                                  

12:15-1:15           LUNCH (provided)

1:15-1:45              The C1 and beyond:  New methods for single-cells using Fluidigm technology
                             Manisha Ray,  Fluidigm

1:45-2:15              Bench secrets (practical aspects of working with single cells)            
                             Saiful Islam                                             

2:15-2:45              Quality control in single cell RNA-Seq      
                             Alexandra-Chloe Villani                                                  

2:45-3:00              BREAK 

3:00-4:30              Round table discussion 

WEDNESDAY, NOVEMBER 4, 2015 
COMPUTATIONAL ANALYSIS OF THE SINGLE-CELL RNA-seq DATA
Harvard Medical School | Countway Library | Lahey Room, 5th Floor | 10 Shattuck Street | Boston

The workshop will provide attendees with an opportunity to get an overview of the key issues involved in the analysis of single-cell RNA-seq data, and learn how to use several tools for such analysis through detailed tutorial walk-throughs.

The program will include lectures by John Marioni (EBI, UK), Guo-Cheng Yuan (DFCI) and Peter Kharchenko (HMS). The detailed tutorials will cover the entire scope of the single-cell RNA-seq analysis pipelines, from read processing and alignment, to expression magnitude normalization, differential expression and subpopulation analysis.

8:00-8:45          Registration and Breakfast

8:45-9:00          Introduction | Peter Kharchenko - HMS

9:00-10:15        Computational approaches for processing and analysing single-cell RNA-sequencing date | John Marioni – EBI  
                          UK

10:15-11:30      Mapping cellular hierarchy from single-cell gene expression data | Guo-Cheng Yuan - DFCI

11:30-12:15      Statistical challenges in scRNA-seq analysis | Peter Kharchenko - HMS

12:15-1:15        LUNCH (provided)

1:15-2:15          Sequence processing for scRNA-seq data | Radhika Khetani - HSPH

2:15-3:05          Quality checks and differential expression | Joseph Herman - HMS

3:05–3:20         BREAK

3:20–4:20         Analysis of heterogeneity and subpopulations | Jean Fan - Harvard

4:20-5:00         Weighted gene correlation networks | Assieh Saadatpour - DFCI

This program is co-sponsored by Harvard Catalyst.

Computational workshop online tutorials: http://hms-dbmi.github.io/scw/

single_cell_genomics_workshop_agenda_flyer.pdf409 KB