RT Journal Article SR Electronic T1 Tradict enables accurate prediction of eukaryotic transcriptional states from 100 marker genes JF bioRxiv FD Cold Spring Harbor Laboratory SP 060111 DO 10.1101/060111 A1 Surojit Biswas A1 Konstantin Kerner A1 Paulo José Pereira Lima Teixeira A1 Jeffery L. Dangl A1 Vladimir Jojic A1 Philip A. Wigge YR 2016 UL http://biorxiv.org/content/early/2016/10/11/060111.abstract AB Transcript levels are a critical determinant of the proteome and hence cellular function. Because the transcriptome is an outcome of the interactions between genes and their products, it may be accurately represented by a subset of transcript abundances. We developed a method, Tradict (transcriptome predict), capable of learning and using the expression measurements of a small subset of 100 marker genes to predict transcriptome-wide gene abundances and the expression of a comprehensive, but interpretable list of transcriptional programs that represent the major biological processes and pathways of the cell. By analyzing over 23,000 publicly available RNA-Seq datasets, we show that Tradict is robust to noise and accurate. Coupled with targeted RNA sequencing, Tradict may therefore enable simultaneous transcriptome-wide screening and mechanistic investigation at large scales.