Datasets

Name Description Platform Platform Details Species Published Samples Version Tools
Haemopedia-Mouse-RNASeq * Mouse RNASeq Atlas created by the Hilton lab at the Walter and Eliza Hall Institute on sorted wildtype mouse haematopoietic cells. rna-seq Illumina HiSeq, RTA performs real-time base calling on the HiSeq instrument computer. Then the Illumina bcl2fastq 2.19.0.316 pipeline was used to generate the sequence data. Binf. Pipeline: Rsubjunc version; Ens84 Mouse MusMusculus pubmed no 129 1.5 download...
Haemopedia * Microarray gene expression profiles from a comprehensive range of wildtype murine blood cells, all generated by Hilton Lab (Walter and Eliza Hall Institute) over a number of years., microarray Illumina WG6 v2.0 MusMusculus pubmed no 169 2.9 download...
Haemopedia-Plus * This is a version of haemopedia with extra cells included: haematopoietic cell lines and non-haematopoietic cells. Use this version for comparing haematopoietic cells with other cells. microarray Illumina WG6 v2.0 MusMusculus pubmed no 217 2.8 download...
Immgen-ULI-RNASeq * RNASeq samples from the Immgen project at www.immgen.org Haematopoietic cell types from wild type mice. Short Read Archives at GEO in GSE109125 as at 05/06/2018 rna-seq Illumina NextSeq 500, Reads were mapped to the mouse reference genome (mm10) with STAR 2.5.3 Non-uniquely mapped reads were discarded. The uniquely mapped reads were assigned to genes using featureCounts with GENCODE annotation (vM12) Genome_build: mm10. Data on Haemosphere from the gene count table from GEO, gene symbols matched to EnsemblIds MusMusculus pubmed no 157 1.2 download...
IL5T-Eo * This dataset contains interleukin-5 trangenic eosinophils with other haematopietic lineages from Haemopedia dataset. Where no strain or genotype information is given for a cell type, it has been taken from the Haemopedia dataset and is on a C57BL/6 background. microarray Illumina MouseWG BeadArray V1.1 and V2.0 MusMusculus pubmed no 110 1.1 download...
Gene-Expression-Commons * Gene expression profiling of entire mouse hematopoiesis system (39 populations) by Gene Expression Commons system. microarray Affymetrix Mouse Genome 430 2.0 Array MusMusculus pubmed no 107 1.1 download...
Immgen * Gene-expression microarray datasets generated as part of the Immunological Genome Project (ImmGen). Primary cells from multiple immune lineages are isolated ex-vivo, primarily from young adult B6 male mice, and double-sorted to >99% purity. RNA is extracted from cells in a centralized manner, amplified and hybridized to Affymetrix 1.0 ST MuGene arrays. Protocols are standardized for all sorting and RNA preparation. microarray Affymetrix Mouse Gene 1.0 ST Array MusMusculus pubmed no 224 1.2 download...
Goodell * This is a collection of microarray expression data that covers 10 different murine haematopoietic cell populations which have been FACS sorted. It has been generated by Peggy Goodell's lab in Baylor College of Medicine. microarray Affymetrix Mouse430_2 MusMusculus pubmed no 20 1.2 download...
Haemopedia-Human-RNASeq * Human haematopoietic cell RNASeq expression data from the Hilton Laboratory at the Walter and Eliza Hall Institute. rna-seq Illumina HiSeq RNASeq. Aligned with Subjunc to GRCh38 and gene counts performed by subread featureCounts HomoSapiens pubmed no 42 1.7 download...
Linsley * This study compared whole transcriptome signatures of 6 immune cell subsets from patients with an array of immune-associated diseases. Fresh blood samples were collected from healthy subjects and subjects diagnosed type 1 diabetes, amyotrophic lateral sclerosis, and sepsis, as well as multiple sclerosis patients before and 24 hours after the first treatment with IFN-beta. rna-seq Sequencing libraries were analyzed on an Illumina HiScan, with a target read depth of ~20M reads. Reads were demultiplexed, mapped to human gene models (ENSEMBL), and tabulated using HTSeq. Read count data were normalized by the TMM procedure (edgeR package). HomoSapiens pubmed no 114 1.1 download...
DMAP * Densely interconnected transcriptional circuits control cell states in human hematopoiesis microarray Affymetrix HG_U133AAofAv2 microarray HomoSapiens pubmed no 211 1.4 download...
Rapin-BloodSpot * (This dataset comes from bloodspot.) Microarray data for a normal cells of the myeloid arm of the hematopoietic system (human). microarray Affymetrix Human Genome U133 Plus 2.0 Array HomoSapiens pubmed no 34 1.1 download...
Schultze * Transcriptome-based network analysis reveals a spectrum model of human macrophage activation microarray Illumina WG6 HomoSapiens pubmed no 384 1.2 download...
Watkins * Microarray expression data from 8 different hematopoietic cell types, from 2 different healthy human tissues. microarray Illumina HumanWG-6 v2 Expression BeadChips HomoSapiens pubmed no 50 1.2 download...
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Haemopedia-Mouse-RNASeq MusMusculus rna-seq
Haemopedia MusMusculus microarray
Haemopedia-Plus MusMusculus microarray
Immgen-ULI-RNASeq MusMusculus rna-seq
IL5T-Eo MusMusculus microarray
Gene-Expression-Commons MusMusculus microarray
Immgen MusMusculus microarray
Goodell MusMusculus microarray
Haemopedia-Human-RNASeq HomoSapiens rna-seq
Linsley HomoSapiens rna-seq
DMAP HomoSapiens microarray
Rapin-BloodSpot HomoSapiens microarray
Schultze HomoSapiens microarray
Watkins HomoSapiens microarray

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