Guan Lab

Department of Computational Medicine & Bioinformatics
Sat, 09/06/2014 - 04:10 -- gyuanfan
TitleDevelopmental transcriptome analysis of human erythropoiesis.
Publication TypeJournal Article
Year of Publication2014
AuthorsShi L, Lin Y-H, Sierant MC, Zhu F, Cui S, Guan Y, Sartor MA, Tanabe O, Lim K-C, Engel JDouglas
JournalHum Mol Genet
Volume23
Issue17
Pagination4528-42
Date Published2014 Sep 1
ISSN1460-2083
Abstract

To globally survey the changes in transcriptional landscape during terminal erythroid differentiation, we performed RNA sequencing (RNA-seq) on primary human CD34(+) cells after ex vivo differentiation from the earliest into the most mature erythroid cell stages. This analysis identified thousands of novel intergenic and intronic transcripts as well as novel alternative transcript isoforms. After rigorous data filtering, 51 (presumptive) novel protein-coding transcripts, 5326 long and 679 small non-coding RNA candidates remained. The analysis also revealed two clear transcriptional trends during terminal erythroid differentiation: first, the complexity of transcript diversity was predominantly achieved by alternative splicing, and second, splicing junctional diversity diminished during erythroid differentiation. Finally, 404 genes that were not known previously to be differentially expressed in erythroid cells were annotated. Analysis of the most extremely differentially expressed transcripts revealed that these gene products were all closely associated with hematopoietic lineage differentiation. Taken together, this study will serve as a comprehensive platform for future in-depth investigation of human erythroid development that, in turn, may reveal new insights into multiple layers of the transcriptional regulatory hierarchy that controls erythropoiesis.

DOI10.1093/hmg/ddu167
Alternate JournalHum. Mol. Genet.
PubMed ID24781209
PubMed Central IDPMC4119405
Grant ListP30 DK081943 / DK / NIDDK NIH HHS / United States