Additional PAGE curations for 24737865

[Snowotarski]

Planarian Anatomy Gene Expression Observations (PAGE curations)

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Curations are all for this one PMID:

24737865

Are curations for a new publication or additions or corrections for existing curations?

[ ] New Publication [x ] Additions to exiting curations from a publication [ ] Corrections to exiting curations

Curator note: These were missed on the first round of annotation as the probe list was not included in the publication. This edit we have added the Genbank IDs for commonly used markers missed on the first pass. However, this citation is still missing a piece of expression evidence for collagen as there are 19 (as per Cote et al 2019 :https://www.nature.com/articles/s41467-019-09539-6) and we cannot be sure. Thus it is currently omitted.

Your Orcid

0000-0003-2569-1939 Orcid are required. Add your Orcid here. If you don't have one, get one here.

Add your curations

Download this Excel Sheet, enter your curations, and copy and paste your resulting table below. Paste whole sheet or just the table of observations. If you only have a few curations you can just fill in values in table provided below.

If you are using the excel sheet, please save and retain for future questions we may have.

PLANA TERM ID (PLANA:0000429)	PLANA TERM LABEL (neoblast)	Published transcript ID	Specimen Type	Life Cycle Type	Experimental Evidence Type
PLANA:0000016	pharynx	DN293829	whole organism	asexual adult	colorimetric in situ hybridization evidence
PLANA:0000026	intestine	EU130791.1	whole organism	asexual adult	colorimetric in situ hybridization evidence
PLANA:0000016	pharynx	BK007036.1	whole organism	asexual adult	colorimetric in situ hybridization evidence
PLANA:0000099	neuron	JX010560.1	whole organism	asexual adult	colorimetric in situ hybridization evidence
PLANA:0000099	neuron	BK007043	whole organism	asexual adult	colorimetric in situ hybridization evidence

24737865_additions_PAGE_curation_table (5).xlsx

Select from these

Specimen Types

Label	ID
FACS sorted cell population	PLANA: 0002138
whole organism	PLANA:0000136

Life Cycle Types

Label	ID
asexual adult	PLANA:0004504
adult hermaphrodite	PLANA:0004503
stage 1	PLANA:0000001
stage 2	PLANA:0000002
stage 3	PLANA:0000003
stage 4	PLANA:0000004
stage 5	PLANA:0000005
stage 6	PLANA:0000006
stage 7	PLANA:0000007
stage 8	PLANA:0000008

Experimental Evidence Types

Label	ID
single-cell RNA-sequencing evidence	ECO:0001560
RNA-sequencing evidence	ECO:0000295
fluorescence in situ hybridization evidence	ECO:0001047
colorimetric in situ hybridization evidence	ECO:0001839
cDNA to DNA expression microarray evidence	ECO:0000097

[srobb1]

@ejrsimr In order to make adding expression observations more accessible to everyone, we added this form to create observations. I need to write a parser to get this data into an appropriate format for your pipeline.

[srobb1]

We are changing the way we accept curations. We are now using a shiny app. See #3

[srobb1]

@Snowotarski Can you check the publications search results for this pub 24737865? We have some curations associated with an obsolete term

I added the new curations, they look good.

The older ones are the ones I think we need to fix. Do we delete or do we correct the term id for the obsolete terms?

[srobb1]

added curations