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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
ChIP-seq
61
total RNA-seq
21
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
397
DNA binding
63
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA sequencing
Target of assay
300
transcription factor
78
control
73
recombinant protein
44
RNA binding protein
38
histone
38
histone modification
23
chromatin remodeller
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
other post-translational modification
Date released
305
November, 2017
November, 2018
43
August, 2021
30
February, 2021
28
December, 2018
26
October, 2019
23
January, 2019
21
May, 2021
11
March, 2020
10
November, 2019
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
435
bam
389
bigWig
356
fastq
317
bed narrowPeak
287
bigBed narrowPeak
67
tsv
50
bed broadPeak
50
bigBed broadPeak
8
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
hdf5
1
txt
1
vcf
Organism
510
Homo sapiens
Biosample type
2389
tissue
963
primary cell
514
cell line
338
in vitro differentiated cells
9
stem cell
Organ
344
liver
82
pancreas
73
epithelium
artery
66
blood vessel
66
heart
66
vasculature
46
blood
46
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
503
AMP
9
T1D
2
community
Genome assembly (visualization)
392
hg19
325
GRCh38
Lab
468
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
86
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
15
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
month_released!
November, 2018
organ_slims!
artery
target.investigated_as!
broad histone mark
other post-translational modification
BIOSAMPLE
ASSAY
514 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
322
14
1
2
2
2
1
EndoC_BH1
9
33
19
6
1
3
2
2
1
GM12878
45
1
Panc1
9
1
1
H1-hESC
8
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