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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1350
ChIP-seq
1107
total RNA-seq
273
ATAC-seq
180
DNase-seq
174
single cell RNA-seq
87
RNA microarray
30
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1350
DNA binding
1299
Transcription
485
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
630
histone modification
629
histone
450
transcription factor
327
narrow histone mark
302
broad histone mark
270
control
89
recombinant protein
88
RNA binding protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
284
August, 2017
273
August, 2021
272
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
87
November, 2018
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2446
bam
2211
bigWig
1347
bed narrowPeak
1153
tsv
916
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3325
Homo sapiens
Biosample type
2697
tissue
882
primary cell
641
cell line
262
in vitro differentiated cells
10
stem cell
Organ
762
liver
547
connective tissue
539
pancreas
488
adipose tissue
337
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
82
musculature of body
73
epithelium
61
blood
61
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
3232
AMP
47
KPMP
38
T1D
19
LungMap
2
community
Genome assembly (visualization)
2242
hg19
2240
GRCh38
Lab
2981
AMP-T2D consortium
142
Katalin Susztak, Upenn
55
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
38
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
162
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
month_released!
May, 2021
BIOSAMPLE
ASSAY
3338 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
71
262
68
1
4
7
3
1
4
1
adipose tissue
2
382
3
1
3
liver
145
167
20
2
1
1
3
1
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 176 more…
cell line
HepG2
378
14
1
2
1
2
2
smooth muscle cell of the coronary artery
6
52
8
EndoC_BH1
14
29
3
1
6
3
2
2
1
GM12878
60
1
Panc1
13
1
1
+ See 14 more…
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