Journal article
PAT-seq: A method to study the integration of 3′-UTR dynamics with gene expression in the eukaryotic transcriptome
PF Harrison, DR Powell, JL Clancy, T Preiss, PR Boag, A Traven, T Seemann, TH Beilharz
RNA | Published : 2015
Abstract
A major objective of systems biology is to quantitatively integrate multiple parameters from genome-wide measurements. To integrate gene expression with dynamics in poly(A) tail length and adenylation site, we developed a targeted next-generation sequencing approach, Poly(A)-Test RNA-sequencing. PAT-seq returns (i) digital gene expression, (ii) polyadenylation site/s, and (iii) the polyadenylation-state within and between eukaryotic transcriptomes. PAT-seq differs from previous 3′ focused RNAseq methods in that it depends strictly on 3′ adenylation within total RNA samples and that the full-native poly(A) tail is included in the sequencing libraries. Here, total RNA samples from budding yeas..
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Awarded by Australian Research Council
Funding Acknowledgements
Dr. Stuart Archer and the Beilharz laboratory are acknowledged for fruitful discussions and their insightful critique of the manuscript. T.H.B. was supported by an Australia Research Fellowship from the Australian Research Council (DP0878224), and grants from the Australian National Health and Medical Research Council (APP1042851, APP1042848). T.P. acknowledges funding through an ARC Discovery Grant (DP1300101928) and a NHMRC Senior Research Fellowship (SRF514904). P.F.H., D.R.P., and T.S. were supported by the VLSCI's Life Sciences Computation Centre, a collaboration between Melbourne, Monash, and La Trobe Universities and an initiative of the Victorian Government, Australia.