Browse baseline experiments
These datasets show baseline gene expression for many different tissues and cell types from a wide range of species, from human and mouse to Arabidopsis and maize. In Expression Atlas, "baseline" expression is the expression level of each gene in normal, untreated conditions. All baseline experiments are either RNA-seq or proteomics data. Each experiment is manually curated to a high standard, and RNA expression levels are calculated using the iRAP pipeline.
Homo sapiens
- Age - Matson et al., 2019 (69 assays)
- Alasoo et al 2017 - Cell lines (673 assays)
- BLUEPRINT EpiVar Project - Cell Types (614 assays)
- Cell Lines - 675 Genentech (622 assays)
- Cell Lines - 7 Melanoma (7 assays)
- Cell Lines - CCLE (1019 assays)
- Cell Lines - Cancer Genome Project (462 assays)
- Cell Lines - ENCODE (166 assays)
- Cell Lines - Geuvadis consortium (462 assays)
- Cell Lines - OpenTargets - Haematopoiesis (18 assays)
- Cell Lines - OpenTargets - Lung (7 assays)
- Cell Lines - Project 6 of Open Targets - Epigenomes of Cell Lines (12 assays)
- Cell Types - BLUEPRINT common haemopoetic cells (66 assays)
- Cell Types - BLUEPRINT rare hematopoietic cells (96 assays)
- Cell Types - BLUEPRINT tonsil plasma cells (4 assays)
- Cell Types - Fetal endothelial cells - Holloway et al (128 assays)
- Cell Types - Splenic B cells - Chappert et al (12 assays)
- Cell lines - 196 HipSci (397 assays)
- Cell lines - Breast carcinoma - Jastrzebski et al (30 assays)
- Cell lines - HipSci - 106 sensory neuronal cell lines (434 assays)
- Cells - Lymph and blood endothelial cells (6 assays)
- Cortical differentiation - CORTECON (44 assays)
- DIAMONDS - Disease - MIS-C - Jackson et al. 2023 (46 assays)
- Developmental Stages - Kraiczy et al intestinal cells (30 assays)
- EDTL Diamonds project - Disease (411 assays)
- GTEX - organism part (17350 assays)
- Hallstrom et al., 2014 - Organism part (171 assays)
- Klpinen et al., 2017 HipSci - Cell Lines (389 assays)
- Lee et al., 2016 - Individual (24 assays)
- Neuroblastoma cell lines - Duffy et al (8 assays)
- Sexes - Skeletal muscle (26 assays)
- Sexes - Skeletal muscle (80 assays)
- Tissues - 19 NIH Epigenomics Roadmap (64 assays)
- Tissues - 3 Glioma subtypes (49 assays)
- Tissues - 32 Uhlen's Lab (179 assays)
- Tissues - 68 FANTOM5 project (96 assays)
- Tissues - ENCODE (M. Snyder lab) (25 assays)
- Tissues - HDBR developing brain (613 assays)
- Tissues - Illumina Body Map (16 assays)
- Tissues - Mammalian Kaessmann (12 assays)
- Tissues - Pan-Cancer Analysis of Whole Genomes (3372 assays)
- Tissues - Pan-Cancer Analysis of Whole Genomes (by individual) (1359 assays)
- Tissues, developmental stages - Human - Moreira et al (287 assays)
- Villa et al., 2020 - Cell Type (24 assays)
- Zhu et al., 2018 - Organism part (14 assays)
- iPSCs - GENESiPS (317 assays)
- van de Bunt et al 2015 - Individual (118 assays)
- Proteomics - Tissues - Human Proteome Map (30 assays)
Arabidopsis thaliana
- Adrian et al 2015 (11 assays)
- Ages - 10 Klepikova et al (30 assays)
- Arabidopsis silique development - Chua et al (4 assays)
- Arabidopsis thaliana - ARAPORT11 (116 assays)
- Ecotypes - 17 Clark et al (51 assays)
- Ecotypes - 19 Gan et al (42 assays)
- Ecotypes - 9 Kurlovs et al. (54 assays)
- Huang et al 2017 - Root sampling site (9 assays)
- Mergner et al., 2020 - Organism part (56 assays)
- Narsai et al., 2017 - Time series (30 assays)
- Romanowski et al., 2020 - Timeseries (24 assays)
- Tissues - 4 Liu et al (4 assays)
- Tissues, genotypes - Pignatta et al., 2014 (30 assays)
- Wang et al., 2015 - Ecotype (24 assays)
- Wang et al., 2015 - Ecotype (64 assays)
- Wendrich et al., 2017 - Sampling site (24 assays)
- Yang et al., 2016 - Ecotype (12 assays)
- arabidopsis2023_Tissues - Mergner J et al. 2020 (30 assays)
Bos taurus
Brachypodium distachyon
Drosophila melanogaster
Gallus gallus
Glycine max
- 4 Stages - Harada and Goldberg (273 assays)
- 8 Stages - Brown and Hudson (42 assays)
- Developmental Stages - 4 Goldberg et al (9 assays)
- Developmental Stages - 7 Goldberg et al (19 assays)
- Developmental Stages - 7 Jones and Vodkin (16 assays)
- Huang et al 2017 - Root sampling site (9 assays)
- Seed oil content - Goettel et al (9 assays)
- Seedling development - Jones et al (14 assays)
- Tissues - 9 Shen et al. (28 assays)
Hordeum vulgare subsp vulgare
Macaca mulatta
Monodelphis domestica
Mus musculus
- Cell Types - 35 FANTOM5 project (122 assays)
- Cell Types - Cerebral cortex (17 assays)
- Cell Types - Developing heart (11 assays)
- Cell Types - Regulatory T cells - Krzyzanowska et al (12 assays)
- Cell Types - Six T cell subtypes (12 assays)
- Cell type - Cabezas-Wallscheid et al (16 assays)
- Cell type - Paulson et al (15 assays)
- Cell type - Soumillon et al (4 assays)
- Cell type - Wamstad et al (8 assays)
- Cell types - 3 Lienert et al (6 assays)
- Cell types - Capucha et al (14 assays)
- Cell types - Lavin et al (26 assays)
- Cells - hematopoetic stem and multipotent progenitor cells (20 assays)
- Circadian clock - Pembroke et al (54 assays)
- Developmental Stages - 5 (11 assays)
- Developmental Stages - DMDD mouse mutant lines (2660 assays)
- Developmental Stages - pure-bred wild-type embryos (DMDD) (16 assays)
- Developmental Stages - wild-type embryos (DMDD) (125 assays)
- Developmental Stages - wild-type embryos (DMDD) with het parentage (16 assays)
- Developmental stages - 4 (4 assays)
- Developmental stages - Schmitt et al (9 assays)
- Individuals - 258 Diversity Outbred (DO) mice (514 assays)
- Mernberger et al 2019 - Organism Part (9 assays)
- Sexes - brown adipose tissue - Visser et al (8 assays)
- Strains - 4 Bonthuis et al (86 assays)
- Strains - 4 Pfeiffer (4 assays)
- Strains - 8 Zheng et al (8 assays)
- Strains - Aitken et al., 2019 (7 assays)
- Strains - Gregg et al (203 assays)
- Sun et al., 2020 - Organism part (9 assays)
- Tissues - 14 (16 assays)
- Tissues - 2 (12 assays)
- Tissues - 3 (30 assays)
- Tissues - 3 Soumillon et al (7 assays)
- Tissues - 4 (10 assays)
- Tissues - 49 FANTOM5 project (248 assays)
- Tissues - 6 (36 assays)
- Tissues - 9 (9 assays)
- Tissues - 9 in 3 strains (26 assays)
- Tissues - Developing gut (6 assays)
- Tissues - Fat and muscle (9 assays)
- Tissues - GENCODE (8 assays)
- Tissues - Mammalian Kaessmann (20 assays)
- Tissues - Vertebrates (6 assays)
- Tissues, developmental stages - Mouse - Moreira et al (317 assays)
- Linscheid et al., 2021 - tissue - heart regions (4 assays)
Oryza sativa
Oryza sativa japonica group
- Huang et al 2017 - Root sampling sites (9 assays)
- Lee et al 2017 - Time (36 assays)
- Reynoso et al, 2018 - Fraction (8 assays)
- Tissues - 4 Zhang et al (4 assays)
- Tissues - 5 Hong et al.(2022) (14 assays)
- Tissues - 7 Sakai (28 assays)
- Tissues - 9 Davidson (11 assays)
- Tissues - Anderson et al (9 assays)
- Wang et al 2015 - Organism Part (single-end seq) (8 assays)
- Wang et al 2015 - Organism Parts (8 assays)
Rattus norvegicus
- Ages - gastrocnemius muscle - Hoersch et al (57 assays)
- Ages - tibialis muscle - Hoersch et al (25 assays)
- Organism parts - tendons - Mendias et al (122 assays)
- Tissues - 11 Yu (659 assays)
- Tissues - 9 Merkin (20 assays)
- Tissues, developmental stages - Rat - Moreira et al (308 assays)
- Wisztorski et al., 2016 - spinal injury time series (80 assays)
Saccharomyces cerevisiae
Solanum lycopersicum
Sorghum bicolor
- Cui et al., 2021 - Ecotype (18 assays)
- Dhaka et al., 2020 - Developmental stage (9 assays)
- Emms et al., 2016 - Cell type (6 assays)
- Kawa et al., 2021 - Cultivar (45 assays)
- Kebrom et al 2017 - Sampling site (12 assays)
- Thurber et al., 2015 - Organism part (4 assays)
- Tissues - 3 Makita et al. (9 assays)
- Tissues - Davidson et al (10 assays)
- Tissues - Olson et al (17 assays)
- Turco et al 2017 - Organism Part (12 assays)
- Wang et al., 2018 - Organism part (165 assays)
Sus scrofa
Triticum aestivum
Vitis vinifera
- Bagnaresi et al., 2020 - Cultivar (18 assays)
- Cramer et al., 2015 - Cultivar (84 assays)
- Cultivars - 10 Potenza et al (9 assays)
- Cultivars - 5 Palumbo et al. (60 assays)
- Da Silva et al., 2013 - Organism part (11 assays)
- Dal Santo et al 2018 - Cultivar (72 assays)
- Leaf development - Pervaiz et al (4 assays)
- Massonnet et al., 2019 - Developmental stage (16 assays)
- Tissues - Venturini et al (9 assays)
- Wang et al, 2019 - Developmental stage (12 assays)
Zea mays
- Cell Type - Nelson et al 2014 (12 assays)
- Cell Types - Seed Lloyd et al (4 assays)
- Chen et al., 2017 - Cell types (18 assays)
- Cruz et al., 2020 - Individual (92 assays)
- Cultivar - 2 inbred Regulski (6 assays)
- Cultivars - eight inbred lines (3 assays)
- Frey et al, 2015 - Cultivar (51 assays)
- Huang et al 2017 - Root sampling site (9 assays)
- Koch et al, 2016 - Organism part (12 assays)
- Lemmon et al, 2014 - Cultivar (440 assays)
- Meng et al, 2017 - Age (24 assays)
- Oka et al, 2017 - Sampling site (18 assays)
- Organism Part - Chang et al 2012 (4 assays)
- Pang et al., 2018 - Cultivar (291 assays)
- Reyes et al, 2017 - Cell type (8 assays)
- Sampling Time Points - Plant Systems Biology Uni Ghent (16 assays)
- Sampling sites - Li et al 2010 (12 assays)
- Seed development - Chen et al (65 assays)
- Seifert et al., 2018 - Cultivar (25 assays)
- Shuai Wang et al, 2014 - Organism part (6 assays)
- Thatcher et al., 2014 - Cultivar (94 assays)
- Tissues - 4 Chettoor et al (11 assays)
- Tissues - 5 Xu et al (5 assays)
- Tissues - 6 Wang (36 assays)
- Tissues - Stelpflug et al (267 assays)
- Tissues - Walley et al (68 assays)
- Wang et al 2014 - Sampling site (75 assays)
- Wang et al, 2018 - Cultivar (14 assays)
- Wang et al., 2018 - Organism part (36 assays)
- Want et al., 2020 - Cultivar (40 assays)