We have a naming convention!

Thank you for your message! The files refer to single-cell RNA sequencing data .

The conditions for the samples are as follows:

unpoll28: Unpollinated pistil at 28°C
unpoll37: Unpollinated pistil at 37°C
poll28: Pollinated pistil at 28°C
poll37: Pollinated pistil at 37°C
All samples are from the Heinz tomato cultivar. Based on this, we can rename the files to something more descriptive like:

Heinz_unpoll28_I1.fastq.gz
Heinz_unpoll28_I2.fastq.gz
Heinz_unpoll28_R1.fastq.gz
Heinz_unpoll28_R2.fastq.gz
Heinz_unpoll37_I1.fastq.gz
Heinz_unpoll37_I2.fastq.gz
Heinz_unpoll37_R1.fastq.gz
Heinz_unpoll37_R2.fastq.gz

Now to implement it.

test

Pasting from other sources is baffling in JIRA.

FTP uploaded. However, I can't see the folder within the SRA to choose it. I will give it 4 hours and then I will repeat the upload process.

Sequence Read Archive (SRA) submission: SUB14729969
Single cell RNA-Seq of "Heinz" Solanum Lycopersicum pistils under acute heat stress, Sep 16 '24
Submitted

Awaiting processing.

Summary
View and manage your data here. You may also email us to request changes to your submission.

See all your submissions.

This Sequence Read Archive (SRA) submission will be released following processing.

BioSample attributes file
Plant-Biosample-Rasha-Singlecell-Heinz.xlsx (17.3 KB)
Metadata file
SRA_metadata-rasha-singleCell.xlsx (55.0 KB)
Sample name Files
Heinz_pollinated_pistil_28_I1
Heinz_pollinated_pistil_28_I1.fastq.gz (fastq)
Heinz_pollinated_pistil_28_I2.fastq.gz (fastq)
Heinz_pollinated_pistil_28_R1
Heinz_pollinated_pistil_28_R1.fastq.gz (fastq)
Heinz_pollinated_pistil_28_R2.fastq.gz (fastq)
Heinz_pollinated_pistil_37_I1
Heinz_pollinated_pistil_37_I1.fastq.gz (fastq)
Heinz_pollinated_pistil_37_I2.fastq.gz (fastq)
Heinz_pollinated_pistil_37_R1
Heinz_pollinated_pistil_37_R1.fastq.gz (fastq)
Heinz_pollinated_pistil_37_R2.fastq.gz (fastq)
Heinz_unpollinated_pistil_28_I1
Heinz_unpollinated_pistil_28_I1.fastq.gz (fastq)
Heinz_unpollinated_pistil_28_I2.fastq.gz (fastq)
Heinz_unpollinated_pistil_28_R1
Heinz_unpollinated_pistil_28_R1.fastq.gz (fastq)
Heinz_unpollinated_pistil_28_R2.fastq.gz (fastq)
Heinz_unpollinated_pistil_37_I1
Heinz_unpollinated_pistil_37_I1.fastq.gz (fastq)
Heinz_unpollinated_pistil_37_I2.fastq.gz (fastq)
Heinz_unpollinated_pistil_37_R1
Heinz_unpollinated_pistil_37_R1.fastq.gz (fastq)
Heinz_unpollinated_pistil_37_R2.fastq.gz (fastq)

Submitted. Now we wait and see if we survive the curation step.

Meanwhile, I will assign to Brandon for review.

BioSamples:

Dear Robert Reid,

This is an automatic acknowledgment that your recent submission to the BioSample database has been successfully processed and will be released on the date specified.

BioSample accessions: SAMN44275435, SAMN44275436, SAMN44275437, SAMN44275438, SAMN44275439, SAMN44275440, SAMN44275441, SAMN44275442
Temporary SubmissionID: SUB14729969
Release date: as soon as processing is complete

A submission summary and the links by which your BioSample records will be accessible are appended and attached.

Please reference BioSample accessions SAMN44275435, SAMN44275436, SAMN44275437, SAMN44275438, SAMN44275439, SAMN44275440, SAMN44275441, SAMN44275442 when making corresponding sequence data submissions.

Dear Robert Reid,

This is an automatic acknowledgment that your recent submission to the SRA database has been successfully processed and will be released on the date specified.

Please reference PRJNA1172608 in your publication. This BioProject accession number is provided instead of SRP and should be used in your publication as it will allow better searching in Entrez.

Accession to cite for these SRA data: PRJNA1172608
Temporary Submission ID: SUB14729969
Release date: 2024-10-15

Your SRA records will be accessible with the following link after the indicated release date:
https://www.ncbi.nlm.nih.gov/sra/PRJNA1172608