harvard bioinformatics lab
Thanks for visiting our lab's tools and applications page, implemented within the Galaxy web application and workflow framework. Back Course Filters. Notably, it has been used to process terabytes of data for the 4D Nucleome (4DN) Network.Copyright © 2020 The President and Fellows of Harvard College
It adopts a strategy of isolation and optimization of individual executions, combined with a serverless scheduling approach. A number of hidden Markov model (HMM)-based methods have been developed to infer chromatin state maps from genome-wide histone modification data for an individual genome. In all three data sets, gene sets related to cell cycle/division such as M phase, DNA replication and cell division were also associated with CNAs. ... D2 9:15 T1 Paul Avillach, Harvard Medical School from PMWC Intl on Vimeo.
The most interesting part may be that a gene-intergenic fusion could still generate a chimeric transcript. We show that the issues involving censored data can be circumvented by reformulating the problem as a standard Poisson regression problem. However, most such methods are based on a series of univariate statistical tests and do not properly account for the complex structure of gene interactions. The cores listed below are located at Harvard Medical School, affiliated institutions, or other Harvard Schools. The package can be applied to any project where user-friendly reports need to be created. The mission of the TRiP is to generate validated in vivo fly stocks for tissue-specific gene knockdown in whole animals. This effort builds upon the successful use of the OMERO platform by the HMS LINCS project. Bioinformatics Jason D. Buenrostro, Ph.D. Harvard Department of Stem Cell and Regenerative Biology Broad Institute of MIT and Harvard. Here, we provide a number of resources for metagenomic and functional genomic analyses, intended for research and academic use. The IMC was created in response to the growing complexity and difficulty of managing research image data.
AVAILABILITY: MOTIVATION: DNA copy number aberrations (CNAs) and gene expression (GE) changes provide valuable information for studying chromosomal instability and its consequences in cancer. For each data set, we identify differentially expressed genes compared with control.
MOTIVATION: Genome-wide mapping of chromatin states is essential for defining regulatory elements and inferring their activities in eukaryotic genomes. After a brief hiatus, Park Lab went on their annual ski trip to Pats Peak this week! Design & Creativity. HBC works together with research computing groups on all aspects of data management. The mission of the DRSC is to provide the community with RNAi reagent libraries and a screening platform for high-throughput screens in Drosophila cultured and primary cells. Thus, a visualization tool that can display the segmented profiles from a number of methods can be helpful to the biologist or the clinician to ascertain that a feature of interest did not arise as an artifact of the algorithm. To identify a set of CNAs that is coordinately associated with the expression changes of a set of genes, we used a biclustering algorithm on the correlation matrix.
Jia Liu's group at Harvard brings together researchers from Bioengineering, Electrical Engineering, Chemistry, Bioinformatics, Computer Science, and Materials Science and Mechanical Engineering to develop advanced nanoelectronic, cyborg engineering, genetic and genomic engineering, imaging and computational tools for digitizing the dynamics of biological …
Welcome to Avillach Lab at the Department of Biomedical Informatics. AVAILABILITY: The code is available upon request.MOTIVATION: Several statistical methods that combine analysis of differential gene expression with biological knowledge databases have been proposed for a more rapid interpretation of expression data. While a large number of approaches have been proposed for analyzing the large array CGH datasets, the relative merits of these methods in practice are not clear.
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