ExperimentSetReplicate

ExperimentSet4DNESRR9GN9U
released
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in situ Hi-C on cerebellar granule neurons with etv1 sgRNA isolated using FANS at day 14 after in vivo electroporation from dCas9-KRAB mouse postnatal day 20

   February 27th, 2024 at 5:25pm

Data Usage Guidelines  

Data Use Guidelines: This is a data set generated by the 4DN Network and made freely available to the scientific community. If you are intending to use these data for a publication, we ask that you please contact the data generating lab to discuss possible coordinated publication. In your manuscript, please cite the 4DN White Paper (doi:10.1038/nature23884) and the 4DN Data Portal paper (doi:10.1038/s41467-022-29697-4), and please acknowledge the 4DN lab which generated the data. Please direct any questions to the Data Coordination and Integration Center.

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
primary cells
Sample 
cerebellar granule neuron - 14 days old
Experiment Type(s) 
in situ Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: MboI

16 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESRR9GN9U
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIOO3YJUX
508.73m
61.554%
11.507%
26.939%
Experiment
4DNEXBMSMUF4
Bio Rep 1, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Contact List-replicate (pairs)
4DNFIFZ6FWA2
111.2m
61.679%
12.362%
25.96%
Experiment
4DNEXKVH29HG
Bio Rep 2, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Contact List-replicate (pairs)
4DNFI3IN2CWS
107.58m
63.182%
12.27%
24.547%
Experiment
4DNEXQYBG6RE
Bio Rep 3, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Contact List-replicate (pairs)
4DNFI7O1SUEP
101.43m
61.58%
11.471%
26.949%
Experiment
4DNEX65WHC9I
Bio Rep 4, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Contact List-replicate (pairs)
4DNFILD2387S
91.68m
60.514%
10.683%
28.803%
Experiment
4DNEX6WBOV7O
Bio Rep 5, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Contact List-replicate (pairs)
4DNFIQ1FLU4Y
96.83m
60.558%
10.496%
28.946%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESRR9GN9U
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIVCZ158G
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXBMSMUF4
Bio Rep 1, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Alignments (bam)
4DNFIUTSAO7W
274.53m
22.413%
24.832%
12.247%
0.0%
0.05%
Experiment
4DNEXKVH29HG
Bio Rep 2, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Alignments (bam)
4DNFIPCZ49OT
250.63m
23.361%
25.044%
8.671%
0.0%
0.05%
Experiment
4DNEXQYBG6RE
Bio Rep 3, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Alignments (bam)
4DNFIEQJJOEE
360.9m
22.518%
24.709%
24.667%
0.0%
0.033%
Experiment
4DNEX65WHC9I
Bio Rep 4, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Alignments (bam)
4DNFINKSU4QQ
342.95m
23.879%
24.674%
24.714%
0.0%
0.034%
Experiment
4DNEX6WBOV7O
Bio Rep 5, Tec Rep 1
in situ Hi-C on cerebellar granule neuron - 14 days old with MboI
File
Alignments (bam)
4DNFIGR4KPRF
321.28m
23.202%
24.396%
22.263%
0.0%
0.039%