|
| Status |
Public on Apr 22, 2021 |
| Title |
Case #16 sequencing sample |
| Sample type |
SRA |
| |
|
| Source name |
Case #16 RT-LAMP reaction
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: Patient Saliva
|
| Treatment protocol |
LAMP or RT-LAMP reactin products were amprified by PCR
|
| Extracted molecule |
total RNA |
| Extraction protocol |
MagMAX Viral/Pathogen Nucleic Acid Isolation Kit to isolate saliva RNA
DNA sequencing libraries were prepared by PCR amplification of LAMP or RT-LAMP products with modified universal primers for Illumina sequencing
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina MiniSeq |
| |
|
| Description |
Mini-seq read counts combined from two sequencing runs
|
| Data processing |
The adaptor sequence were removed from raw sequence reads. Then all the remaining sequence were clustered to show the most abundant sequence.
Supplementary_files_format_and_content: Tab-delimited text file containing raw read count values for individual samples if the raw read count values is equal or greater than 10.
|
| |
|
| Submission date |
Apr 22, 2021 |
| Last update date |
Apr 23, 2021 |
| Contact name |
Xiaowei Wang |
| Organization name |
University of Illinois at Chicago
|
| Street address |
909 S Wolcott Ave, Rm 5137
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60612 |
| Country |
USA |
| |
|
| Platform ID |
GPL22790 |
| Series (1) |
| GSE173086 |
Developing RT-LAMP Assays for Detection of SARS-CoV-2 in Saliva |
|
| Relations |
| BioSample |
SAMN18828689 |
| SRA |
SRX10656988 |
