Question

where to find budding yeast gene annotation information when analysis scRNA-seq data

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4.8 years ago

hsu ▴ 40

Hi, I am analying yeast scRNA-seq data, I wanna add gene-annotaion information to my data, such as cell-cycle genes. Does anyone know anywhere to find these information for yeast? Thank you very much !

gene-annotation RNA-Seq single-cell yeast • 1.2k views

ADD COMMENT • link updated 13 months ago by Ram 43k • written 4.8 years ago by hsu ▴ 40

score 0 · Answer 1 · 2019-07-17

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4.8 years ago

hsu ▴ 40

Genome wide annotation for Yeast Bioconductor version: Release (3.9) Genome wide annotation for Yeast, primarily based on mapping using ORF identifiers from SGD. Author: Marc Carlson Maintainer: Bioconductor Package Maintainer <maintainer at="" bioconductor.org=""> Citation (from within R, enter citation("org.Sc.sgd.db")):

ADD COMMENT • link 4.8 years ago by hsu ▴ 40

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is that a comment or your reply to your question?

ADD REPLY • link 4.8 years ago by Carambakaracho ★ 3.2k

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A reply to my question

ADD REPLY • link 4.8 years ago by hsu ▴ 40

score 0 · Answer 2 · 2019-07-17

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4.8 years ago

Carambakaracho ★ 3.2k

you find everything you need at the Saccharomyces genome database SGD

Reference Genome FTP for reference S288c: https://downloads.yeastgenome.org/sequence/S288C_reference/genome_releases/ (latest is R64-2-1)

The most common strains are also there: https://downloads.yeastgenome.org/sequence/strains/

ADD COMMENT • link 4.8 years ago by Carambakaracho ★ 3.2k