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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1126
ChIP-seq
287
ATAC-seq
180
DNase-seq
106
total RNA-seq
85
RNA microarray
71
single cell RNA-seq
28
WGBS
28
snATAC-seq
20
Hi-C
11
RRBS
6
pCHi-C
5
MeRIP-seq
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
1126
DNA binding
499
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
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
329
November, 2017
224
October, 2019
166
August, 2017
163
June, 2019
153
August, 2021
108
February, 2021
97
February, 2023
93
May, 2019
81
November, 2018
66
April, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
May, 2024
36
December, 2017
34
November, 2019
31
December, 2018
30
July, 2019
27
May, 2020
21
January, 2019
20
October, 2017
19
April, 2020
19
May, 2021
15
May, 2023
14
March, 2020
8
January, 2021
5
March, 2019
5
November, 2020
4
July, 2018
3
January, 2018
2
March, 2023
1
August, 2022
1
December, 2019
1
October, 2022
Available data
2281
bigWig
2246
bam
1388
bed narrowPeak
tsv
916
bigBed narrowPeak
675
fastq
272
bed broadPeak
235
bigBed broadPeak
205
bed bed3+
202
tagAlign
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
1962
Homo sapiens
Biosample type
1514
tissue
786
primary cell
460
cell line
226
in vitro differentiated cells
5
stem cell
Organ
487
liver
291
kidney
248
pancreas
217
brain
198
heart
115
blood vessel
115
vasculature
100
bone element
98
limb
74
artery
71
musculature of body
66
connective tissue
65
adipose tissue
55
blood
55
bodily fluid
51
epithelium
51
eye
27
nerve
19
lung
18
ureter
16
skeleton
16
spleen
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
1868
AMP
47
KPMP
38
T1D
19
LungMap
2
community
Genome assembly (visualization)
1299
GRCh38
1246
hg19
Lab
1594
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
24
Bing Ren, UCSD
19
Xin Sun, UCSD
5
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:
133
inconsistent ontology term
28
inconsistent control
2
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
target.investigated_as!
control
BIOSAMPLE
ASSAY
1974 results
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Clear Filters
ChIP-seq
ATAC-seq
DNase-seq
total RNA-seq
RNA microarray
single cell RNA-seq
WGBS
snATAC-seq
Hi-C
RRBS
pCHi-C
MeRIP-seq
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
21
75
13
49
59
6
1
1
1
islet of Langerhans
58
67
1
31
7
3
1
4
2
1
liver
102
20
2
20
1
3
1
1
bone element
84
coronary artery
3
36
2
+ See 145 more…
cell line
HepG2
318
1
1
2
1
2
GM12878
54
1
EndoC_BH1
13
18
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
8
Panc1
7
1
1
+ See 9 more…
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