From 9724041c375347d435c39a4d1df67070ddc6c1cc Mon Sep 17 00:00:00 2001 From: Kai Wang Date: Tue, 8 Oct 2024 22:38:47 -0400 Subject: [PATCH 1/2] Update download.md --- docs/user-guide/download.md | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/docs/user-guide/download.md b/docs/user-guide/download.md index e132ed7..aa99866 100644 --- a/docs/user-guide/download.md +++ b/docs/user-guide/download.md @@ -28,8 +28,10 @@ NOTE: several whole-genome databases (cadd, cadd13, fathmm, dann, eigen, gerp++, | hg19 | knownGene | same as above (last update was 2013-06-30 at UCSC) | 20211019 | | hg38 | knownGene | same as above (last update was 2022-05-15 at UCSC) | 20211019 | | hg18 | ensGene | FASTA sequences for all annotated transcripts in wgEncodeGencodeManualV3 collection (last update was 2010-02-28 at UCSC) | 20211019 | -| hg19 | ensGene | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection lifted up to hg19 (last update was 2023-02-15 at UCSC) | 20230315 | -| hg38 | ensGene | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection (last update was 2023-02-15 at UCSC) | 20230315 | +| hg19 | ensGene | FASTA sequences for all annotated transcripts in Gencode v46 Basic collection lifted over to hg19 (last update was 2024-05-13 at UCSC) | 20241008 | +| hg38 | ensGene | FASTA sequences for all annotated transcripts in Gencode v46 Basic collection (last update was 2024-05-13 at UCSC) | 20241008 | +| hg19 | ensGene43 | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection lifted over to hg19 (last update was 2023-02-15 at UCSC) | 20230315 | +| hg38 | ensGene43 | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection (last update was 2023-02-15 at UCSC) | 20230315 | | hg19 | ensGene40 | FASTA sequences for all annotated transcripts in Gencode v40 Basic collection lifted up to hg19 (last update was 2022-04-28 at UCSC) | 20220802 | | hg38 | ensGene40 | FASTA sequences for all annotated transcripts in Gencode v40 Basic collection (last update was 2022-04-21 at UCSC) | 20220802 | | hg19 | ensGene41 | FASTA sequences for all annotated transcripts in Gencode v41 Basic collection lifted up to hg19 (last update was 2022-07-12 at UCSC) | 20221005 | From d779e992746de9f951d3115c9cc045fe1c362807 Mon Sep 17 00:00:00 2001 From: Kai Wang Date: Tue, 8 Oct 2024 23:07:53 -0400 Subject: [PATCH 2/2] Update download.md --- docs/user-guide/download.md | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/docs/user-guide/download.md b/docs/user-guide/download.md index aa99866..67336f6 100644 --- a/docs/user-guide/download.md +++ b/docs/user-guide/download.md @@ -30,6 +30,10 @@ NOTE: several whole-genome databases (cadd, cadd13, fathmm, dann, eigen, gerp++, | hg18 | ensGene | FASTA sequences for all annotated transcripts in wgEncodeGencodeManualV3 collection (last update was 2010-02-28 at UCSC) | 20211019 | | hg19 | ensGene | FASTA sequences for all annotated transcripts in Gencode v46 Basic collection lifted over to hg19 (last update was 2024-05-13 at UCSC) | 20241008 | | hg38 | ensGene | FASTA sequences for all annotated transcripts in Gencode v46 Basic collection (last update was 2024-05-13 at UCSC) | 20241008 | +| hg19 | ensGene45 | FASTA sequences for all annotated transcripts in Gencode v45 Basic collection lifted over to hg19 (last update was 2024-01-11 at UCSC) | 20241008 | +| hg38 | ensGene45 | FASTA sequences for all annotated transcripts in Gencode v45 Basic collection (last update was 2024-01-11 at UCSC) | 20241008 | +| hg19 | ensGene44 | FASTA sequences for all annotated transcripts in Gencode v44 Basic collection lifted over to hg19 (last update was 2023-08-07 at UCSC) | 20241008 | +| hg38 | ensGene44 | FASTA sequences for all annotated transcripts in Gencode v44 Basic collection (last update was 2023-07-18 at UCSC) | 20241008 | | hg19 | ensGene43 | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection lifted over to hg19 (last update was 2023-02-15 at UCSC) | 20230315 | | hg38 | ensGene43 | FASTA sequences for all annotated transcripts in Gencode v43 Basic collection (last update was 2023-02-15 at UCSC) | 20230315 | | hg19 | ensGene40 | FASTA sequences for all annotated transcripts in Gencode v40 Basic collection lifted up to hg19 (last update was 2022-04-28 at UCSC) | 20220802 |