Illumina small RNA-Seq
收藏DataCite Commons2025-06-01 更新2024-07-28 收录
下载链接：
https://figshare.com/articles/dataset/Illumina_small_RNA-Seq/13852256/1
下载链接
链接失效反馈官方服务：
资源简介：
Small RNA sequenced on Illumina platform were annotated.Illumina raw reads were quality-checked with FastQC, adapters and contamination removed with Cutadapt, quality-checked again, reads mapped to the tufted duck reference genome with STAR, transcripts assembled with Cufflinks, nucleotide sequences extracted with bedtools, small RNA predicted in the reference genome and annotated with assembled small RNA using the Infernal tool cmscan, output converted to gff3 with tblout3gff3.pl.cutadapt options: ${-m 9 -q 20 -a TGGAATTCTCGGGTGCCAAGG -A GATCGTCGGACTGTAGAACTCTGAAC}STAR options: ${--outSAMtype BAM SortedByCoordinate --outSAMattributes NH HI AS NM MD --outSAMstrandField intronMotif --outSAMheaderHD @HD VN:1.4 SO:coordinate --quantMode GeneCounts --outFilterMismatchNoverLmax 0.05 --outFilterMatchNmin 16 --outFilterScoreMinOverLread 0 --outFilterMatchNminOverLread 0 --alignIntronMax 1}cmscan options (brain*): ${-Z 2.420214 --cut_ga --rfam --nohmmonly --tblout ncRNA_cmscan_brain.tblout --fmt 2 --clanin Rfam.clanin Rfam.cm}*Z-value depends on input data<br>
提供机构：
figshare
创建时间：
2021-10-21
