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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1394
ChIP-seq
267
ATAC-seq
180
DNase-seq
86
total RNA-seq
85
RNA microarray
71
single cell RNA-seq
28
WGBS
28
snATAC-seq
20
Hi-C
11
RRBS
10
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1394
DNA binding
479
DNA accessibility
161
Transcription
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
668
histone modification
667
histone
455
transcription factor
344
narrow histone mark
323
broad histone mark
271
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
397
November, 2017
260
October, 2019
195
August, 2017
163
June, 2019
157
August, 2021
115
May, 2019
111
February, 2021
97
February, 2023
87
November, 2018
80
April, 2019
74
October, 2018
51
December, 2017
50
May, 2020
47
September, 2023
40
May, 2024
36
November, 2019
35
December, 2018
30
July, 2019
26
May, 2022
25
January, 2019
23
October, 2017
19
April, 2020
19
May, 2021
15
May, 2023
14
March, 2020
10
November, 2020
8
January, 2021
6
September, 2017
5
March, 2019
4
January, 2018
4
July, 2018
4
March, 2023
1
August, 2022
1
December, 2019
1
October, 2022
Available data
2492
bam
2277
bigWig
1370
bed narrowPeak
tsv
916
bigBed narrowPeak
808
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
211
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
2195
Homo sapiens
Biosample type
1661
tissue
primary cell
543
cell line
in vitro differentiated cells
6
stem cell
Organ
553
liver
300
kidney
288
pancreas
242
brain
216
heart
133
blood vessel
133
vasculature
115
limb
100
bone element
90
connective tissue
89
adipose tissue
83
artery
75
musculature of body
61
blood
61
bodily fluid
56
epithelium
51
eye
38
nerve
24
spleen
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
2102
AMP
47
KPMP
38
T1D
19
LungMap
4
community
Genome assembly (visualization)
1305
GRCh38
1245
hg19
1
hg18
Lab
1859
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
28
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
141
inconsistent ontology term
28
inconsistent control
2
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
34
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
lab.title!
Karen Mohlke, UNC
biosample_type!
in vitro differentiated cells
primary cell
files.file_type!
tsv
BIOSAMPLE
ASSAY
2210 results
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Clear Filters
ChIP-seq
ATAC-seq
DNase-seq
total RNA-seq
RNA microarray
single cell RNA-seq
WGBS
snATAC-seq
Hi-C
RRBS
MeRIP-seq
pCHi-C
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
...and 5 more
tissue
kidney
27
75
13
49
59
6
1
1
1
islet of Langerhans
71
67
1
31
7
3
1
4
4
1
liver
145
2
1
3
1
1
bone element
84
heart left ventricle
35
2
3
4
1
1
+ See 145 more…
cell line
HepG2
378
1
1
2
1
2
GM12878
60
1
EndoC_BH1
15
18
1
6
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
+ See 9 more…
stem cell
hESC
3
SB Ad3.1
1
1
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