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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
861
total RNA-seq
747
ChIP-seq
239
ATAC-seq
174
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
24
pCHi-C
15
Hi-C
13
small RNA-seq
7
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1048
Transcription
747
DNA binding
445
DNA accessibility
15
3D chromatin structure
9
DNA methylation
Target of assay
553
histone
553
histone modification
278
narrow histone mark
275
broad histone mark
141
control
55
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
539
February, 2021
236
October, 2019
229
August, 2021
222
August, 2017
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
73
October, 2018
55
July, 2019
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
37
March, 2020
26
May, 2022
24
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
13
November, 2018
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
1614
bam
1502
bigWig
922
tsv
866
bed narrowPeak
507
bigBed narrowPeak
289
fastq
210
bed broadPeak
199
bed bed3+
173
bigBed broadPeak
168
tagAlign
157
txt
64
xls
24
bed bedMethyl
bigBed bedMethyl
10
hic
9
bedpe bed3+
5
bed bed3
csv
1
bedpe
1
tagAlign bed3+
Organism
2373
Homo sapiens
Biosample type
2382
tissue
1058
primary cell
362
in vitro differentiated cells
261
cell line
8
stem cell
Organ
545
connective tissue
494
pancreas
486
adipose tissue
liver
306
heart
293
kidney
264
brain
158
bone element
132
blood vessel
132
vasculature
121
limb
79
musculature of body
73
artery
56
eye
43
nerve
23
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2285
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1600
GRCh38
1474
hg19
Lab
2070
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Patrick T. Ellinor, Broad
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
4
audit script error
Audit category:
26
missing controlled_by
Audit category:
inconsistent control read length
1
inconsistent assembly
audit.WARNING.category!
inconsistent control read length
files.file_type!
bigBed bedMethyl
csv
organ_slims!
liver
BIOSAMPLE
ASSAY
2382 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
292
71
68
1
6
7
4
3
1
4
adipose tissue
382
2
3
1
1
kidney
49
27
75
13
59
6
1
1
bone element
84
heart left ventricle
3
35
2
3
18
1
1
2
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