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Haemopedia RNA-seq: a database of gene expression during haematopoiesis in mice and humans

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Choi, J, Baldwin, TM, Wong, M, Bolden, JE, Fairfax, KA ORCID: 0000-0002-8394-137X, Lucas, EC, Cole, R, Biben, C, Morgan, C, Ramsay, KA, Ng, AP, Kauppi, M, Corcoran, LM, Shi, W, Wilson, N, Wilson, MJ, Alexander, WS, Hilton, DJ and de Graaf, CA 2019 , 'Haemopedia RNA-seq: a database of gene expression during haematopoiesis in mice and humans' , Nucleic Acids Research, vol. 47, no. D1 , D780-D785 , doi: 10.1093/nar/gky1020.

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Abstract

During haematopoiesis, haematopoietic stem cells differentiate into restricted potential progenitors before maturing into the many lineages required for oxygen transport, wound healing and immune response. We have updated Haemopedia, a database of gene-expression profiles from a broad spectrum of haematopoietic cells, to include RNA-seq gene-expression data from both mice and humans. The Haemopedia RNA-seq data set covers a wide range of lineages and progenitors, with 57 mouse blood cell types (flow sorted populations from healthy mice) and 12 human blood cell types. This data set has been made accessible for exploration and analysis, to researchers and clinicians with limited bioinformatics experience, on our online portal Haemosphere: https://www.haemosphere.org. Haemosphere also includes nine other publicly available high-quality data sets relevant to haematopoiesis. We have added the ability to compare gene expression across data sets and species by curating data sets with shared lineage designations or to view expression gene vs gene, with all plots available for download by the user.

Item Type: Article
Authors/Creators:Choi, J and Baldwin, TM and Wong, M and Bolden, JE and Fairfax, KA and Lucas, EC and Cole, R and Biben, C and Morgan, C and Ramsay, KA and Ng, AP and Kauppi, M and Corcoran, LM and Shi, W and Wilson, N and Wilson, MJ and Alexander, WS and Hilton, DJ and de Graaf, CA
Journal or Publication Title: Nucleic Acids Research
Publisher: Oxford Univ Press
ISSN: 0305-1048
DOI / ID Number: 10.1093/nar/gky1020
Copyright Information:

Copyright The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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