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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
867
total RNA-seq
712
ChIP-seq
239
ATAC-seq
174
DNase-seq
173
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
24
pCHi-C
23
WGBS
15
Hi-C
13
small RNA-seq
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1053
Transcription
712
DNA binding
445
DNA accessibility
33
DNA methylation
15
3D chromatin structure
Target of assay
523
histone
523
histone modification
265
narrow histone mark
258
broad histone mark
141
control
50
transcription factor
21
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
544
February, 2021
236
October, 2019
230
August, 2017
229
August, 2021
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
69
July, 2019
47
September, 2023
40
May, 2021
40
November, 2019
37
March, 2020
26
May, 2022
24
February, 2020
23
October, 2017
19
April, 2020
19
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1619
bam
1467
bigWig
922
tsv
831
bed narrowPeak
512
bigBed narrowPeak
294
fastq
210
bed broadPeak
199
bed bed3+
173
bigBed broadPeak
168
tagAlign
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
5
bed bed3
5
csv
1
bedpe
1
tagAlign bed3+
Organism
2367
Homo sapiens
Biosample type
2376
tissue
1074
primary cell
379
in vitro differentiated cells
258
cell line
10
stem cell
Organ
547
connective tissue
505
pancreas
488
adipose tissue
liver
299
kidney
273
heart
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2279
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1581
GRCh38
1487
hg19
Lab
2104
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
assay_title!
CRISPR genome editing followed by DNA sequencing
organ_slims!
liver
BIOSAMPLE
ASSAY
2376 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
3
kidney
49
27
75
13
64
6
1
1
1
bone element
84
heart left ventricle
3
35
2
3
18
1
4
1
1
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