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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
914
total RNA-seq
687
ChIP-seq
211
ATAC-seq
173
single cell RNA-seq
168
DNase-seq
87
RNA microarray
27
snATAC-seq
25
pCHi-C
17
WGBS
16
Hi-C
16
small RNA-seq
8
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
Assay category
1103
Transcription
687
DNA binding
408
DNA accessibility
25
DNA methylation
16
3D chromatin structure
Target of assay
554
histone
554
histone modification
296
narrow histone mark
258
broad histone mark
120
control
15
transcription factor
13
RNA binding protein
2
nucleotide modification
Date released
545
February, 2021
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
118
July, 2018
115
May, 2019
109
August, 2017
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
47
September, 2023
May, 2022
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
19
April, 2020
16
October, 2018
15
May, 2023
8
January, 2021
6
October, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1882
bam
1751
bigWig
1076
tsv
945
bed narrowPeak
560
bigBed narrowPeak
fastq
237
tagAlign
212
bed broadPeak
204
bed bed3+
176
bigBed broadPeak
150
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2356
Homo sapiens
Biosample type
2358
tissue
545
primary cell
253
in vitro differentiated cells
234
cell line
6
stem cell
Organ
504
connective tissue
445
adipose tissue
313
heart
299
kidney
292
pancreas
253
brain
238
liver
158
bone element
133
blood vessel
133
vasculature
122
limb
78
musculature of body
73
artery
56
eye
43
nerve
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
spleen
1
stomach
1
urinary bladder
Project
2261
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1579
GRCh38
1440
hg19
Lab
2072
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Patrick T. Ellinor, Broad
28
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
91
inconsistent ontology term
8
audit script error
files.file_type!
fastq
audit.WARNING.category!
inconsistent assembly
month_released!
May, 2022
BIOSAMPLE
ASSAY
2358 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
tissue
adipose tissue
382
3
1
islet of Langerhans
195
43
48
7
4
3
1
4
kidney
49
27
75
64
13
6
1
1
1
liver
147
78
1
1
2
1
1
bone element
84
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