Code to reproduce the analyses described in the manuscript, "Approaches for integrating heterogeneous RNA-seq data reveals cross-talk between microbes and genes in asthmatic patients," in which we describe a method we dubbed LDA-link for relating microbes to genes within heterogeneous or noisy RNA-seq data.
The manuscript has been posted on bioRxiv, here:
Spakowicz D*, Lou S*, Barron B, Gomez JL, Li T, Liu Q, Grant N, Yan X, Hoyd R, Weinstock G, Chupp GL, Gerstein M (2019) Approaches for integrating heterogeneous RNA-seq data reveals cross-talk between microbes and genes in asthmatic patients. bioRxiv, :765297. https://doi.org/10.1101/765297 (* co-first)
And is currently under review at Genome Biology.
The data are being submitted to dbGaP under BioProject SUB7102729 and are available through academic collaboration. Please contact daniel.spakowicz@osumc.edu and shaoke.lou@yale.edu with any questions.