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access to a local PostgreSQL version of GeneHancer
scripts I use for making genome-scale transcriptional regulatory networks
Gina Huynh: A Characterization of Tissue-Specific Gene Bias in Gene Set Collections Used for Pathway Enrichment Analysis
webapps for the longevity consortium
This is a space for developing the MotifDb Package. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/MotifDb.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=MotifDb.
N-of-1 analyzer: an exploration
Data and methods for building gene regulatory models of mouse brain
transcriptional control during erythropoiesis
webapp for creating and exploring trena models
The Dataset Overview, Comparison and Knowledge Extraction Tool
a microservice for queries to biomedical knowledge graphs in Neo4J
create and explore TFBS/targetGene data assembled from many sources
A package for building trena single gene models
cory's deconvolved rna model building
data and functions with which to build (roughly) tissue-specific trena models
abstract base class for all TrenaProjects
Aging Microbiome paper Wilmanski et. al.
This is the API for the translator biqquery project
a utility package providing easy access to the shared HG38 data and capabilities, no tissue specificity required
evaluate the SPOKE graph database
cory funk's methods for normalizing RNA-seq counts, in preparation for building trena models
Assess motif match in ChIP-seq bam file
Genome track visualization in your web browser, from R - a Bioconductor package
AD regulatory networks using protein data
to determine the how TF motifs do and do not match ChIP-seq assays
can trena reproduce known (or "known") TF/targetGene relations?
The meme suite's fimo (find motif) as a microservice, written in python, with R and python clients