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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
726
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
726
DNA binding
445
DNA accessibility
33
DNA methylation
15
3D chromatin structure
Target of assay
550
histone
550
histone modification
276
narrow histone mark
274
broad histone mark
141
control
37
transcription factor
25
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
544
February, 2021
236
October, 2019
229
August, 2021
208
August, 2017
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
May, 2024
40
November, 2019
37
March, 2020
26
May, 2022
24
February, 2020
19
April, 2020
19
November, 2018
19
October, 2017
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
1594
bam
1482
bigWig
922
tsv
867
bed narrowPeak
509
bigBed narrowPeak
268
fastq
208
bed broadPeak
185
bed bed3+
173
bigBed broadPeak
164
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
2381
Homo sapiens
Biosample type
2390
tissue
1030
primary cell
373
in vitro differentiated cells
260
cell line
10
stem cell
Organ
535
connective tissue
495
pancreas
476
adipose tissue
liver
313
heart
299
kidney
261
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
2293
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1596
GRCh38
1462
hg19
Lab
2078
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
9
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
assay_title!
MPRA
organ_slims!
liver
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
2390 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
61
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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