ADB Biophysical Browser can now infer in vivo transcription factor (TF) and RNA-binding protein (RBP) concentrations from transcriptome or proteome data. The ADB is now unique in its ability to model the biophysical in vivo context of transcriptional and translational gene regulation from RNA-seq data. Specifically, the Biophysical Browser can load transcript or gene-level FPKM, RPKM, or TPM data from GFF2/GTF files, and convert them to maximum occupancies to their highest affinity binding sites.  Protein concentrations are then calculated from these inferred maximum occupancies.


Dr. Todd Riley
Assistant Professor of Biology
University of Massachusetts Boston
100 Morrissey Blvd. | ISC Building Room 4730
Boston, Massachusetts 02125
Phone: (617) 287-3236