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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
358
ChIP-seq
113
total RNA-seq
29
ATAC-seq
10
pCHi-C
6
MeRIP-seq
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
358
DNA binding
117
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
recombinant protein
84
control
65
RNA binding protein
histone
40
histone modification
30
chromatin remodeller
20
broad histone mark
20
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
234
November, 2017
96
February, 2021
45
November, 2018
41
August, 2021
28
December, 2018
22
January, 2019
20
May, 2021
16
October, 2019
14
March, 2020
6
February, 2023
6
November, 2019
6
November, 2020
4
March, 2023
2
January, 2018
1
December, 2017
1
May, 2020
1
October, 2022
Available data
459
bam
398
bigWig
331
fastq
281
bed narrowPeak
254
bigBed narrowPeak
123
tsv
45
bed broadPeak
45
bigBed broadPeak
9
tagAlign
4
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
537
Homo sapiens
Biosample type
2150
tissue
851
primary cell
535
cell line
282
in vitro differentiated cells
8
stem cell
Organ
301
liver
73
pancreas
67
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
60
blood
60
bodily fluid
12
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
532
AMP
7
T1D
4
community
Genome assembly (visualization)
409
hg19
345
GRCh38
1
hg18
Lab
497
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
Audit category:
74
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
14
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
target.investigated_as!
histone
recombinant protein
BIOSAMPLE
ASSAY
543 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
GRO-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
278
14
1
2
2
2
1
1
EndoC_BH1
3
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
H1-hESC
8
+ See 14 more…
stem cell
SB Ad3.1
1
1
hESC
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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