Joshi, Anagha and Pooley, Christopher and Freeman, Tom C. and Lennartsson, Andreas and Babina, Magda and Schmidl, Christian and Geijtenbeek, Teunis and Michoel, Tom and Severin, Jessica and Itoh, Masayoshi and Lassmann, Timo and Kawaji, Hideya and Hayashizaki, Yoshihide and Carninci, Piero and Forrest, Alistair R. R. and Rehli, Michael and Hume, David A. (2015) Technical Advance: Transcription factor, promoter, and enhancer utilization in human myeloid cells. JOURNAL OF LEUKOCYTE BIOLOGY, 97 (5). pp. 985-995. ISSN 0741-5400, 1938-3673
Full text not available from this repository. (Request a copy)Abstract
The generation of myeloid cells from their progenitors is regulated at the level of transcription by combinatorial control of key transcription factors influencing cell-fate choice. To unravel the global dynamics of this process at the transcript level, we generated transcription profiles for 91 human cell types of myeloid origin by use of CAGE profiling. The CAGE sequencing of these samples has allowed us to investigate diverse aspects of transcription control during myelopoiesis, such as identification of novel transcription factors, miRNAs, and noncoding RNAs specific to the myeloid lineage. We further reconstructed a transcription regulatory network by clustering coexpressed transcripts and associating them with enriched cis-regulatory motifs. With the use of the bidirectional expression as a proxy for enhancers, we predicted over 2000 novel enhancers, including an enhancer 38 kb downstream of IRF8 and an intronic enhancer in the KIT gene locus. Finally, we highlighted relevance of these data to dissect transcription dynamics during progressive maturation of granulocyte precursors. A multifaceted analysis of the myeloid transcriptome ismade available (www.myeloidome.roslin.ed.ac.uk). This high-quality dataset provides a powerful resource to study transcriptional regulation during myelopoiesis and to infer the likely functions of unannotated genes in human innate immunity.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | GENE-EXPRESSION; MESSENGER-RNA; IN-VITRO; DIFFERENTIATION; LEUKEMIA; RECEPTOR; MACROPHAGE; PROGENITOR; CHROMATIN; LINEAGE; transcriptome; CAGE; hematopoiesis |
| Subjects: | 600 Technology > 610 Medical sciences Medicine |
| Divisions: | Medicine > Lehrstuhl für Innere Medizin III (Hämatologie und Internistische Onkologie) |
| Depositing User: | Dr. Gernot Deinzer |
| Date Deposited: | 19 Jul 2019 13:07 |
| Last Modified: | 19 Jul 2019 13:08 |
| URI: | https://pred.uni-regensburg.de/id/eprint/5576 |
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