Kasper was invited by Karsten Borgwardt to visit the ETH’s Department of Biosystems Science and Engineering and to give a seminar on his groups approaches to genomic interpretation.
Title: Augmenting and interpreting genetic data using cell-type-specific networks
Place: C3-02, Sulston Building.
Time: January 9th 11-12.
We’re happy to announce that Kasper Lage joined the National Institutes of Health Accelerating Medicines Partnership in type 2 diabetes to work on cell-type-specific protein networks involved in type 2 diabetes together with Jose Florez, Chad Cowan, Mark McCarthy, Anna Gloyn and Rob Sladek.
For more information about the NIH Accelerating Medicines Partnership: click here.
For more information about Anna Gloyn: click here.
For more information about Chad Cowan: click here.
For more information about Mark McCarthy: click here.
For more information about Jose Florez: click here.
For more information about Rob Sladek: click here.
We’re delighted to announce that the Lage Lab has been awarded a three year grant from the Lundbeck Foundation to study the protein networks perturbed by genetics in psychiatric diseases. This project will enable us to strengthen our current experimental work in the Stanley Center for Psychiatric Research at the Broad Institute and is a collaboration with the Danish iPSYCH consortium. The grant will furthermore support training of Danish postdocs in the Lage Lab and at the Broad Institute.
For more information about the Stanley Center: See here.
For more information about the iPSYCH consortium: See here.
For more information about the Lundbeck Foundation: See here.
Today the Lage Lab published an article describing a quality controlled and scored human protein-protein interaction network to help functionally interpreting genomic data. Congratulations to Taibo Li, Heiko Horn and Kasper Lage.
Link to Nature Methods webpage: article.
Link to Broad Institute Snapshot on the article: Broad Institute Snapshot.
Link to press release from MGH: MGH press release.
For more information see here: InWeb_IM.
For more information see here: Broad Institute highlights from ASHG 2016 in Vancouver.
For more information click here.
Time: Wednesday, October 19, 11:00 AM–1:00 PM
Title: Augmenting and Interpreting Genomic Data Using Tissue- and Cell-type-specific Networks
Loctaion: Room 221, West Building, Convention Centre
Kasper Lage, MGH / Broad Inst / Harvard University
Olga Troyanskaya, Princeton University
11:00 AM Cell-type-specific protein interaction networks perturbed by genetics in psychiatric diseases. K. Lage. Broad Institute / Harvard U.
11:30 AM Transcriptome-wide networks for understanding diverse categories of genetic variation. A. Battle. Johns Hopkins University.
12:00 PM Tissue-specific networks for integrative disease gene identification. O. Troyanskaya. Princeton University.
12:30 PM Building multi-omic networks for type 2 diabetes and related phenotypes. M. McCarthy. Oxford University.
We are happy to welcome Anna Sappington (MIT undergraduate studying Computer Science and Molecular Biology) and Justin Lim (MIT undergraduate studying Mathematics and Computer Science) to the lab.
Anna and Justin will be working on Broadnex10 projects to map cellular network perturbed by genetics in early onset myocardial infraction and the Cancer Complex Compendium. For more information about these projects click here.
Jakob Jespersen, member of Lage Lab at MGH and the Broad Institute, presented at the Center for Mendelian Genetics Analysis meeting the Interpretation of missense variants using protein structures and features. Jakob explained that with a vast amount of exome sequencing data, it is difficult to identify the missense variants that may be implicated in diseases. While it is possible to crudely classify variants as “loss of function” based on observations such as the mutation being in a splice site, creating a stop codon or frameshift, it is much more difficult to determine whether missense mutations are deleterious or benign.
Since the Protein Data Bank (PDB) hosts information on more than 6,000 different human proteins, it is possible to add structural information to help the classification of missense mutations. Some methods are already utilizing features from 3D protein structures, so the presentation was focused on features that we can extract and calculate which are not in use yet as well as a computational tool set Jakob has developed for this purpose.
Enjoy the recording of the Jakob’s presentation in the video below (Sep 20th, 2016)
The title of his poster ‘Human brain networks perturbed by genetics and targeted by therapeutics in psychiatric disorders’