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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1387
ChIP-seq
1135
total RNA-seq
278
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
29
pCHi-C
28
WGBS
20
Hi-C
18
snATAC-seq
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
snDrop-seq
2
Capture-C
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
1387
DNA binding
1333
Transcription
480
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
662
histone modification
661
histone
455
transcription factor
339
narrow histone mark
322
broad histone mark
270
control
93
RNA binding protein
89
recombinant 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
87
November, 2018
80
April, 2019
78
February, 2023
77
July, 2019
74
October, 2018
66
May, 2022
59
May, 2021
56
November, 2019
48
December, 2017
47
September, 2023
43
March, 2020
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
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
2483
bam
2288
bigWig
1384
bed narrowPeak
1192
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
3385
Homo sapiens
Biosample type
2745
tissue
884
primary cell
653
cell line
394
in vitro differentiated cells
10
stem cell
Organ
762
liver
563
pancreas
547
connective tissue
488
adipose tissue
379
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
90
epithelium
82
musculature of body
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
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
3330
AMP
47
KPMP
T1D
19
LungMap
2
community
Genome assembly (visualization)
2317
GRCh38
2279
hg19
Lab
3031
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
25
Kyle Gaulton, 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:
179
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
award.project!
T1D
organ_slims!
small intestine
BIOSAMPLE
ASSAY
3398 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
Hi-C
snATAC-seq
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
snDrop-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
...and 2 more
tissue
islet of Langerhans
69
285
57
1
6
4
3
1
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
1
6
1
1
bone element
84
+ See 175 more…
cell line
HepG2
378
14
1
2
1
2
2
EndoC_BH1
13
31
19
1
6
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 14 more…
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