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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1284
total RNA-seq
1186
ChIP-seq
460
ATAC-seq
314
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
40
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
1616
Transcription
1186
DNA binding
758
DNA accessibility
96
DNA methylation
26
3D chromatin structure
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
593
February, 2021
343
August, 2017
340
May, 2020
276
October, 2019
246
May, 2021
233
August, 2021
218
June, 2019
200
May, 2022
183
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
40
May, 2024
40
November, 2019
39
March, 2020
27
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 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
August, 2022
1
March, 2023
Available data
2516
bam
2385
bigWig
1344
tsv
1279
bed narrowPeak
786
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
242
bed bed3+
225
bigBed broadPeak
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
3807
Homo sapiens
Biosample type
2728
tissue
1088
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
851
pancreas
586
connective tissue
490
adipose tissue
421
epithelium
375
liver
326
heart
288
kidney
286
brain
170
vasculature
164
blood vessel
159
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
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
3237
AMP
324
HPAP
235
T1D
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2395
GRCh38
2383
hg19
Lab
2947
AMP-T2D consortium
324
Klaus Kaestner, Upenn
291
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
40
Karen Mohlke, UNC
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
145
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
organ_slims!
intestine
award.project!
KPMP
BIOSAMPLE
ASSAY
3816 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
17
13
6
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
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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