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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1278
total RNA-seq
761
ChIP-seq
460
ATAC-seq
358
single cell RNA-seq
209
DNase-seq
87
RNA microarray
74
WGBS
74
snATAC-seq
41
pCHi-C
26
Hi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1654
Transcription
761
DNA binding
748
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
865
histone modification
864
histone
439
narrow histone mark
broad histone mark
222
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
593
February, 2021
340
May, 2020
254
August, 2017
232
August, 2021
225
October, 2019
210
June, 2019
200
May, 2022
183
February, 2023
180
May, 2021
168
July, 2018
108
July, 2019
62
May, 2019
59
September, 2020
57
October, 2018
56
September, 2018
49
April, 2018
49
November, 2017
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
November, 2019
27
November, 2018
25
February, 2020
20
May, 2024
16
January, 2021
15
May, 2023
13
October, 2017
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
5
March, 2019
3
August, 2018
3
January, 2019
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2194
bam
2014
bigWig
1345
tsv
914
bed narrowPeak
708
fastq
445
bigBed narrowPeak
235
bed bed3+
234
bed broadPeak
217
bigBed broadPeak
211
tagAlign
157
txt
153
zippedFastqFolder
64
xls
35
bed bedMethyl
35
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3416
Homo sapiens
Biosample type
2454
tissue
966
primary cell
643
cell line
338
in vitro differentiated cells
9
stem cell
Organ
783
pancreas
562
connective tissue
470
adipose tissue
390
epithelium
349
liver
320
kidney
269
heart
216
brain
159
bone element
125
vasculature
119
blood vessel
88
limb
76
musculature of body
61
artery
61
eye
27
nerve
21
spleen
lung
18
ureter
16
skeleton
13
vein
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2857
AMP
324
HPAP
191
T1D
47
KPMP
1
ITG
Genome assembly (visualization)
2067
hg19
2057
GRCh38
Lab
2607
AMP-T2D consortium
324
Klaus Kaestner, Upenn
227
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
20
Patrick T. Ellinor, Broad
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
137
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
45
missing controlled_by
Audit category:
8
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
organ_slims!
lung
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
3420 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
292
57
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
123
20
1
2
3
1
1
1
1
kidney
49
17
75
64
13
6
1
1
1
bone element
84
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primary cell
pancreatic alpha cell
52
10
35
12
31
1
Langerhans cell
85
48
monocyte
54
41
15
1
1
pancreatic beta cell
21
10
23
12
16
1
exocrine cell
39
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