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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
483
ChIP-seq
109
total RNA-seq
12
ATAC-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
483
DNA binding
111
Transcription
14
DNA accessibility
4
3D chromatin structure
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
80
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
60
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
2
March, 2023
January, 2018
1
May, 2020
1
October, 2022
Available data
577
bam
516
bigWig
427
fastq
403
bed narrowPeak
355
bigBed narrowPeak
115
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
629
Homo sapiens
Biosample type
2706
tissue
872
primary cell
633
cell line
258
in vitro differentiated cells
9
stem cell
Organ
400
liver
66
artery
66
blood vessel
66
heart
66
vasculature
65
pancreas
60
blood
60
bodily fluid
52
epithelium
19
kidney
8
embryo
1
mammary gland
Project
623
AMP
8
T1D
2
community
Genome assembly (visualization)
524
hg19
458
GRCh38
Lab
592
AMP-T2D consortium
34
Bing Ren, UCSD
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
65
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
bed bedMethyl
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
month_released!
January, 2018
May, 2021
BIOSAMPLE
ASSAY
633 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-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
378
14
1
2
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
EndoC_BH1
14
29
3
1
3
2
2
1
Panc1
13
1
1
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