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Schema
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
426
ChIP-seq
108
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
426
DNA binding
110
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
328
transcription factor
77
recombinant protein
64
RNA binding protein
58
control
38
histone
38
histone modification
29
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
262
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
27
December, 2018
21
May, 2021
16
November, 2019
13
January, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
519
bam
484
bigWig
376
bed narrowPeak
363
fastq
327
bigBed narrowPeak
114
tsv
55
bed broadPeak
55
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
594
Homo sapiens
Biosample type
2720
tissue
1024
primary cell
598
cell line
376
in vitro differentiated cells
7
stem cell
Organ
342
liver
92
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
56
blood
56
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
587
AMP
9
T1D
2
community
Genome assembly (visualization)
492
hg19
431
GRCh38
Lab
551
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
92
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
24
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.read_length!
50
BIOSAMPLE
ASSAY
598 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
325
9
1
2
2
1
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
55
1
Panc1
13
1
1
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