UCSC Genome Browser Workshop

El Nodo Nacional de Bioinformática (NNB-UNAM) y la Sociedad Iberoamericana de Bioinformática (SoIBio) organizan el “UCSC Genome Browser Workshop”; que se llevará a cabo el 6 de octubre de 2017, en las instalaciones del Centro de Ciencias Genómicas-UNAM (CCG-UNAM), en Cuernavaca Morelos, México.

El taller será impartido por el Dr. Robert Kuhn, de la Universidad de California en Santa Cruz.

Costo
El costo del taller será de $ 350.00 MXN. No habrá evaluación de participantes; quien se registre y pague tendrá su lugar. El cupo es limitado.

Requerimientos
Los asistentes deberán traer su propia laptop con un navegador instalado.
El taller será impartido en inglés.

Programa

HoraTema
09:00-11:00Taller
11:00-11:20Coffee break
11:20-13:30Taller
13:30-15:00Comida
15:00-18:00Taller

Recursos web

NombreURL
UCSC Homepagehttp://genome.ucsc.edu
UCSC Genome Browser Helphttp://genome.ucsc.edu/training

Descripción

The UCSC Genome Browser is a widely used visualization tool for accessing genomic data of many kinds. Continuing development and new datasets make the Browser more useful each year, and these new features are the focus of this workshop. For example, participants will learn how to load their own RNA-seq, whole-exome, and whole-genome data into the Browser. Other new features include the Variant Annotation Integrator, which predicts biochemical consequences of variants, and support of HGVS nomenclature for navigation. New data sets display pre-computed evaluations of the optimal locations to use CRISPR technology to modify the genome, and GTEx tissue-specific gene expression data are now visible in the Browser graphic. Finally, multi-region display mode offers visualization of discontinuous sections of the genome, including multiple regions on any chromosome side-by-side, making the display of RNA-seq and all other annotation data across a pathway much more intuitive in a single view. Facility with the Browser to access an integrated view of genomic data will enable researchers and clinicians alike to make the most of a wide range of whole-genome annotations available all in one place.

Agenda

Intro to the UCSC Genome Browser

A guided tour of the basic elements of the UCSC Genome Browser:

  • General overview of the Browser, what it is, history
  • Configuring the display
  • Track settings
  • Exporting Browser images for publication
  • Searches: for regions/positions, gene names, motifs, other keywords
  • Saving and sharing sessions
  • NGS sequencing data — paired ends, BAM files, variant calling/display

Uploading and displaying your data

  • Custom tracks – multiple formats

Break

A short tour of our data

  • Gene sets and details pages
  • Interesting datasets – comparative genomics, epigenetics, variation
  • Finding more info about a track or track item
  • Downloading data
    • How to get DNA for the region you are viewing
    • Intro to the Table Browser
    • Getting gene sequences using the Table Browser
    • Getting track information using the Table Browser e.g., gene and SNP names and phenotypes for a duplicated/deleted region
  • Variant Annotation Integrator
  • Exon-only display

Lunch

  • Table Browser basic examples
  • Working through problem set

Sede

Auditorio del CCG

El taller se llevará a cabo en el Auditorio “Dr. Guillermo Soberón” del CCG, de la UNAM Campus Morelos, en Cuernavaca, Morelos, México.

Pueden consultar la ubicación del CCG en Google Maps.

Es importante mencionar que el Campus Morelos de la UNAM está dentro de la Universidad Autónoma del Estado de Morelos.

Organizadores

  • Julio Collado Vides
  • Heladia Salgado Osorio
  • Romualdo Zayas Lagunas
  • Shirley Alquicira Hernández
  • Irma Martínez Flores
  • Alfredo Hernández Álvarez

Contacto

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