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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
1186
ChIP-seq
460
ATAC-seq
367
single cell RNA-seq
209
DNase-seq
87
RNA microarray
snATAC-seq
WGBS
42
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
1663
Transcription
1186
DNA binding
674
DNA accessibility
26
3D chromatin structure
22
DNA methylation
Target of assay
865
histone modification
864
histone
439
narrow histone mark
425
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
560
February, 2021
340
May, 2020
334
August, 2017
276
October, 2019
246
May, 2021
227
August, 2021
218
June, 2019
181
February, 2023
168
July, 2018
137
May, 2022
120
May, 2019
96
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
41
March, 2020
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
21
November, 2018
15
May, 2023
11
September, 2017
10
November, 2020
9
April, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
March, 2023
Available data
2499
bam
2369
bigWig
1340
tsv
1279
bed narrowPeak
743
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
241
bed bed3+
225
bigBed broadPeak
156
txt
91
zippedFastqFolder
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3699
Homo sapiens
Biosample type
2722
tissue
985
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
789
pancreas
580
connective tissue
484
adipose tissue
374
epithelium
371
liver
329
kidney
318
heart
286
brain
168
vasculature
162
blood vessel
159
bone element
121
limb
94
musculature of body
75
artery
61
eye
43
nerve
23
spleen
22
vein
18
ureter
16
skeleton
10
lung
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
3204
AMP
229
HPAP
217
T1D
47
KPMP
9
LungMap
1
ITG
Genome assembly (visualization)
2382
hg19
2379
GRCh38
Lab
2920
AMP-T2D consortium
273
Kyle Gaulton, UCSD
229
Klaus Kaestner, Upenn
136
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
9
Xin Sun, UCSD
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:
145
inconsistent ontology term
27
inconsistent control
11
audit script error
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
assay_title!
WGBS
snATAC-seq
BIOSAMPLE
ASSAY
3707 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
292
71
68
6
1
4
3
1
1
4
adipose tissue
382
2
3
1
liver
167
145
20
1
2
1
1
1
1
kidney
49
27
75
64
13
1
1
1
bone element
84
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primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
1
Langerhans cell
85
pancreatic beta cell
21
13
23
12
1
CD8-positive, alpha-beta T cell
4
33
2
1
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