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| Status |
Public on Aug 25, 2020 |
| Title |
Olfactory_L001 |
| Sample type |
SRA |
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| Source name |
Olfactory organ
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| Organism |
Octopus bimaculoides |
| Characteristics |
tssue: Olfactory organ
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| Extracted molecule |
total RNA |
| Extraction protocol |
Bulk tissues were manually dissected and RNA extracted with phenol chlorophorm standard protocol
libraries were built with the Kapa mRNA HyperPlus kit
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Description |
Olfactory_S1
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| Data processing |
Adaptors were trimmed using trim galore
Reads were aligned to the available genome () using Rsubread
Reads were normalized
Transcriptome was assembled using Trinity
Transcriptome was indexed and reads aligned to Transcriptome using Kallisto
Genome_build: Transcriptome was used or genome available on NCBI (GCA_001194135.1 Octopus_bimaculoides_v2_0) to align reads
Supplementary_files_format_and_content: O.bim_Counts.depth.norm.csv, normalized counts after aligning to the genome, the two lanes of the same data set were were merged for this processing
Supplementary_files_format_and_content: Trinity_obim_assembly.fa, assembled transcriptome, fasta file (used for protein sequence confirmation)
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| Submission date |
Aug 24, 2020 |
| Last update date |
Aug 25, 2020 |
| Contact name |
Lena van Giesen |
| E-mail(s) |
le.vangiesen@gmail.com
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| Organization name |
Harvard University
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| Department |
MCB
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| Lab |
Bellono
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| Street address |
16 Divinity Avenue
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| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02138 |
| Country |
USA |
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| Platform ID |
GPL29060 |
| Series (1) |
| GSE156748 |
RNA sequencing of Octopus bimaculoides bulk tissues |
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| Relations |
| BioSample |
SAMN15893595 |
| SRA |
SRX8998580 |
| 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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