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Cell-type-specific profiling of gene expression and chromatin binding without cell isolation: assaying RNA Pol II occupancy in neural stem cells

journal contribution
posted on 2023-05-18, 19:27 authored by Southall, TD, Gold, KS, Egger, B, Davidson, CM, Caygill, EE, Owen MarshallOwen Marshall, Brand, AH
Cell-type-specific transcriptional profiling often requires the isolation of specific cell types from complex tissues. We have developed "TaDa," a technique that enables cell-specific profiling without cell isolation. TaDa permits genome-wide profiling of DNA- or chromatin-binding proteins without cell sorting, fixation, or affinity purification. The method is simple, sensitive, highly reproducible, and transferable to any model system. We show that TaDa can be used to identify transcribed genes in a cell-type-specific manner with considerable temporal precision, enabling the identification of differential gene expression between neuroblasts and the neuroepithelial cells from which they derive. We profile the genome-wide binding of RNA polymerase II in these adjacent, clonally related stem cells within intact Drosophila brains. Our data reveal expression of specific metabolic genes in neuroepithelial cells, but not in neuroblasts, and highlight gene regulatory networks that may pattern neural stem cell fates.

History

Publication title

Developmental Cell

Volume

26

Pagination

101-112

ISSN

1534-5807

Department/School

Menzies Institute for Medical Research

Publisher

Cell Press

Place of publication

1100 Massachusetts Ave, Cambridge, USA, Ma, 02138

Repository Status

  • Restricted

Socio-economic Objectives

Expanding knowledge in the health sciences

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