WebFor FGFR2 fusion gene expression analysis, RNA-sequencing data was first aligned to the hg38 reference genome using STAR aligner.26 Next, soft-clipped and properly-paired reads aligned to the exons harboring the fusion breakpoints were extracted into two separate BAM files using the Samtools/1.15.1.27 Then, the average read depth per base position for the … WebThe primers provided in the TruSeq Dual Index Sequencing Primer Box are required for sequencing the following libraries on the HiSeq 2500, HiSeq 2000, HiSeq 1500, HiSeq …
HTG DNA Sequencing - University of Utah Health
WebApr 11, 2024 · 1 Department of Biotechnology and Bioinformatics, ... 2.4 Illumina Truseq total RNA library preparation and sequencing. ... Bengaluru, Karnataka, India, to obtain 150-bp paired-end reads. 2.5 Transcriptome analysis of acute leukemia samples. Raw reads obtained after sequencing were quality-checked using FastQC (https: ... WebTruSeq stranded mRNA library prep kit: Illumina: Cat# 20020594: TruSeq RNA UD Indexes: Illumina: Cat# 20022371: Deposited data; RNA-seq and ChIPseq data: ... Reads were extracted and adapter trimmed using Illumina Generate FASTQ BaseSpace pipeline (version 1.1.0.64). An average of 14.4 million read pairs were obtained per library after filtering. fits project
Illumina sequencing - GitHub Pages
Webthe material prior to this. The Read 1 primer is essentially the sequence of the TruSeq Universal Adapter, excluding of course the portion which binds to the flow cell. The read … WebWhilst most aligners and the kmer quantification methods can copy with adapter contamination without trimming the reads. It can also be helpful to trim reads in order to get a better idea of the quality of the remaining sequence. There are a number of tools that can be used for read trimming e.g.: Cutadapt; Trimmomatic; fastp WebPlease read the entire protocol below and the 10x Genomics user guide and CG000317 for v3.1 reagents, before starting your experiments. Commonly used abbreviations and … fit spring schedule