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SUMMARY:"Comparative inference and analysis of regulatory networks: from y
 east to fly"
DTSTART:20110310T161500
DTSTAMP:20260405T204756Z
UID:a908d3f71a3211a76f70be7ccb42bc945452d55da42e5f98d2fc7c04
CATEGORIES:Conferences - Seminars
DESCRIPTION:Dr. Sushmita Roy\, Broad Institute - IC Faculty candidate\nAbs
 tract : Transcriptional networks specify the set of connections between tr
 anscription factors and target genes\, and drive cellular decisions under 
 different spatial and temporal contexts.  I will present computational met
 hods for understanding regulatory networks spanning two very different tem
 poral contexts\, a developmental context\, and an evolutionary context. I 
 will first present an integrative approach to infer the regulatory network
  for the fly\, Drosophila melanogaster. We used to network structure to pr
 edict expression and process annotation of target genes\, demonstrating th
 e functional value of the connections of the network. In the second part o
 f my talk\, I will present a novel multi-species clustering algorithm\, Ar
 boretum that can be used to infer expression clusters and their evolutiona
 ry histories of multiple organisms. We applied Arboretum to glucose starva
 tion expression data of 15 ascomycete yeast species and identified five ex
 pression patterns that are all conserved across the 15 species. Analysis o
 f cluster assignments of extant and ancestral species identified several g
 ene sets with conserved phylogenetic patterns characteristic of life-style
  specific adaptations. Finally\, we studied gene duplications using Arbore
 tum and found that although duplicates do not change the overall expressio
 n patterns\, they enable more divergence in clusters across species. Our r
 esults are consistent with known transcriptional responses under carbon li
 mitation and provide new insights into the evolutionary patterns of other 
 novel groups of genes. Arboretum is a general algorithm that is applicable
  to any hierarchically related dataset.\n\nBio : Sushmita Roy is a Computi
 ng Innovation post-doctoral fellow at the Broad Institute of Harvard and M
 IT.\nSushmita got her Bachelor in Computer Engineering from the Univ. of P
 une (pronounced as poonay)\, India\, and her PhD from the Univ of New Mexi
 co. Sushmita's research focuses on developing machine learning algorithms 
 for the inference and analysis of biological networks. 
LOCATION:INM10
STATUS:CONFIRMED
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