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| Status |
Public on Sep 30, 2020 |
| Title |
Crown_root2 |
| Sample type |
SRA |
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| Source name |
crown root
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| Organism |
Zea mays |
| Characteristics |
genotype: B73
treatment: Fresh
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| Extracted molecule |
nuclear RNA |
| Extraction protocol |
16,000 nuclei per library were extracted via FANS
10x Genomics scATAC-seq v1
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| Library strategy |
ATAC-seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
BWA alignment
5',3' coordinate adjustment
MACS2 peak calling
Tn5 integration site intersection with ACRs
binarization
Genome_build: B73 v4
Supplementary_files_format_and_content: binary triplet matrix format of ACRs (column 1), nuclei ID (column 2), and 1/0 binarized counts of Tn5 intregation sites
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| Submission date |
Jul 27, 2020 |
| Last update date |
May 27, 2021 |
| Contact name |
Robert J Schmitz |
| E-mail(s) |
[email protected]
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| Organization name |
University of Georgia
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| Department |
Genetics
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| Street address |
B416 Davison Life Sciences
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| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
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| Platform ID |
GPL25410 |
| Series (1) |
| GSE155178 |
A cis-regulatory atlas of maize single cells |
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| Relations |
| BioSample |
SAMN15650939 |
| SRA |
SRX8831550 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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