Broad Workshops

BroadE workshops bring researchers in the extended Broad community together so they can learn from one another. BroadE workshops (the 'E' stands for education) offer insights and share hands-on training in breakthrough technologies, high-throughput methods, and computational tools not typically found in conventional research labs. Through this ongoing series, which is open to Broad staff and to researchers at MIT, Harvard and Harvard-affiliated hospitals, the Broad community hopes to extend the impact of its science and openly share new methods.

 

New Registration System

It’s official — BroadE is a rousing success! In fact, demand is so high that our workshops quickly reach capacity, sometimes only minutes after being posted.

To meet this overwhelming demand and promote access to all in our community, we will repeat our most popular workshops during the coming year.

In addition, we will implement a new registration system for BroadE workshops occurring in June 2013 and later. Going forward, when a BroadE workshop is announced, we will also open a one-week application period. Participants will be selected from the pool of applicants who register during this period. In selecting participants from this pool, we will consider:

  • the applicant’s home institution
  • the applicant’s lab
  • whether the applicant has participated in previous workshops

This new registration practice will help us to ensure that BroadE workshops reach a diverse, balanced group of Broadies.

 

Upcoming Workshops

2015        
         
Advances in Genome Engineering Using
CRISPR-Cas9

The rapid pace of advances in genome engineering technologies based on the CRISPR-Cas9 system is enabling a broad range of powerful and efficient methods to study biological systems. In this workshop, we describe recent advances in Cas9 technology for a variety of research or translational applications, and highlight challenges and important experimental considerations.
 
  March 11   Register

Registration closes Wedesday, March 4 at 5:00pm.
         
GATK
This workshop will focus on the core steps involved in calling variants with the Broad's Genome Analysis Toolkit, using the "Best Practices" developed by the GATK team. The GATK development team and invited guests will give talks explaining the rationale, theory and real-life applications of the Best Practices. You will learn why each step is essential to the calling process, what are the key operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset. An optional hands-on session will be available to select participants. In this session, the GATK team will help beginners work through interactive exercises and tutorials to learn how to use GATK and apply the Best Practices to real data. Workshop attendees will gain broad insight into the rationale of the GATK Best Practices for variant discovery, as well as a solid understanding of how individual GATK tools work and how to apply them in practice. Novices to the GATK will come out of the workshop knowing enough to identify which questions they can use address using GATK tools, how to get started on designing their experiment and analytical workflow, and how to run the tools on their own computer. Existing GATK users will come out with a deeper understanding of how the GATK works under the hood and how to improve their results further, especially as regards the latest innovations.  
  March 19 & 20   Registration is closed
         
Using CellProfiler for Biological Image Analysis
This workshop will instruct participants in the use of CellProfiler, an open-source, freely-downloadable software package designed for large-scale, automated phenotypic image analysis. Attendees are encouraged to contribute sample images from their assays as part of the demonstration. We will also briefly discuss the basic principles of supervised machine learning in order to score phenotypes where phenotypic differences between samples are not visible by eye.
  March 30   Registration opens Monday, March 9 at 9:00am

Registration closes Friday, March 13 at 5:00pm. 
         
Using GeNets for network-based analyses of genomic & proteomic data
The recent advances in genomics and proteomics have produced many lists of genes and proteins likely to be involved in disease processes, but the molecular networks they integrate into remain obscure in many cases. This limits our progress towards biological insight and therapeutic intervention. Computational analyses that systematically integrate such lists with biological networks (i.e., networks in which genes are connected if they are functionally associated in transcriptional, protein-protein interaction, phylogenetic or text mining data) have emerged as a powerful approach to functionally interpret gene sets emerging from many different technological platforms.

This BroadE workshop will introduce the audience to the Broad Institute web platform for Genome Networks - GeNets - a new unified and flexible web platform for analyzing, integrating, and visualizing gene sets using any biological network. Through GeNets, users can easily share interactive network analyses with collaborators and obtain publication-grade figures of the results.

  April 17   Registration opens Monday, March 23 at 9:00am

Registration closes Friday, March 27 at 5:00pm.
         
Strategies for Visualizing Data
Data visualization is becoming increasingly important in biomedical research as a means to explore data for patterns and relationships. Such exploration, driven by the graphical representation of information, is the critical first step to inform subsequent computational and machine-driven approaches to data analysis. The process requires us to further define clear objectives and improved implementation to be successful. Data for the most part have no natural form or “look” - we have to make choices about how they are displayed. Each decision can bring out certain kinds of patterns in data while hiding others. We rely heavily on our intuition, common sense, and precedent in published material when we visually depict data. This is largely an unscientific process. In this workshop we will explore systematic approaches that rely on core graphic design principles and vision science (i.e. how we decode information encoded in graphical form) to develop effective visualizations of data.
  April 15    
         
Gene-E Tool   April 28    
         
Everything you always wanted to know about Proteomics but were afraid to ask
This half-day course will present essential aspects of proteomics of general interest to biologists and clinicians. Attendees will come away with a strong understanding of the important technologies and experimental approaches used in modern mass spectrometry-based proteomics.
Topics and applications presented will include:
  • Key types of proteomics experiments and sample requirements 
  • Quantitative MS approaches for global proteome and posttranslational analyses 
  • Basics of targeted MS for precise, reproducible measurements of peptides, proteins and their modifications in biology and medicine 
  • Data analysis approaches and statistical methods for confident identification of true differential proteins/peptides
  • Useful tools for annotating the MS results and to extract knowledge and organize results into pathways presented.
  May 8    
         
Primer on Medical and Population Genetics
The Primer on Medical and Population Genetics series includes informal discussions of basic topics relevant to medical and population genetics by speakers drawn from across the Broad community. The target audience includes technicians, grad students, postdocs and established investigators just entering the field of complex trait genetics with the goal of bringing all up to speed on basic principles of human genetic variation, genotyping and sequencing methods, statistics, and analysis.

Please note: When the weekly MPG meeting is cancelled (due to weather, conflicting events, etc.) Primers are also cancelled.
  Thursdays
September - January

 
  No Registration Necessary