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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1391
ChIP-seq
287
ATAC-seq
180
DNase-seq
106
total RNA-seq
85
RNA microarray
71
single cell RNA-seq
28
WGBS
27
snATAC-seq
20
Hi-C
11
RRBS
10
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
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
1391
DNA binding
498
DNA accessibility
179
Transcription
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
666
histone modification
665
histone
455
transcription factor
343
narrow histone mark
322
broad histone mark
270
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
397
November, 2017
260
October, 2019
195
August, 2017
163
June, 2019
157
August, 2021
115
May, 2019
111
February, 2021
97
February, 2023
87
November, 2018
80
April, 2019
74
October, 2018
66
May, 2022
50
May, 2020
48
December, 2017
47
September, 2023
40
May, 2024
36
November, 2019
35
December, 2018
30
July, 2019
25
January, 2019
23
October, 2017
19
April, 2020
19
May, 2021
15
May, 2023
14
March, 2020
10
November, 2020
8
January, 2021
6
September, 2017
5
March, 2019
4
July, 2018
3
January, 2018
2
March, 2023
August, 2022
1
December, 2019
1
October, 2022
Available data
2489
bam
2294
bigWig
1388
bed narrowPeak
tsv
916
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
2230
Homo sapiens
Biosample type
1700
tissue
818
primary cell
543
cell line
263
in vitro differentiated cells
6
stem cell
Organ
593
liver
300
kidney
287
pancreas
242
brain
216
heart
133
blood vessel
133
vasculature
115
limb
100
bone element
90
connective tissue
89
adipose tissue
83
artery
75
musculature of body
61
blood
61
bodily fluid
56
epithelium
51
eye
38
nerve
24
spleen
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
2137
AMP
47
KPMP
38
T1D
19
LungMap
2
community
Genome assembly (visualization)
1302
GRCh38
1262
hg19
Lab
1854
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
28
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
141
inconsistent ontology term
28
inconsistent control
1
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
files.file_type!
tsv
month_released!
August, 2022
BIOSAMPLE
ASSAY
2243 results
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table-tab-icon
Clear Filters
ChIP-seq
ATAC-seq
DNase-seq
total RNA-seq
RNA microarray
single cell RNA-seq
WGBS
snATAC-seq
Hi-C
RRBS
MeRIP-seq
pCHi-C
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
...and 2 more
tissue
kidney
27
75
13
49
59
6
1
1
1
liver
145
20
2
20
1
3
1
1
islet of Langerhans
71
67
1
31
6
3
1
4
4
1
bone element
84
heart left ventricle
35
2
3
4
1
1
+ See 145 more…
cell line
HepG2
378
1
1
2
1
2
GM12878
60
1
EndoC_BH1
15
18
1
6
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
+ See 9 more…
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