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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
113
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
397
DNA binding
115
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
279
transcription factor
80
control
73
recombinant protein
42
RNA binding protein
38
histone
38
histone modification
21
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
November, 2018
44
August, 2021
30
October, 2019
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
494
bam
438
bigWig
338
fastq
321
bed narrowPeak
272
bigBed narrowPeak
119
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
hdf5
1
txt
1
vcf
Organism
569
Homo sapiens
Biosample type
2406
tissue
900
primary cell
573
cell line
392
in vitro differentiated cells
10
stem cell
Organ
354
liver
92
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
19
blood
19
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
562
AMP
9
T1D
2
community
Genome assembly (visualization)
449
hg19
380
GRCh38
Lab
526
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 replicate
Audit category:
10
missing controlled_by
Audit category:
21
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
assay_title!
single cell RNA-seq
month_released!
December, 2018
November, 2018
organ_slims!
bone element
BIOSAMPLE
ASSAY
573 results
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Clear Filters
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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
333
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
18
1
Panc1
13
1
1
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