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Understanding HiFi Reads !
By Rahul Nayak 1005 days agopacb.com - While little public data is available for either of the new synthetic long read approaches, Illumina showed an example comparison earlier this year at the Festival of Genomics & Biodata conference (FoG 2022). In the IGV screenshot...Surrogate Variable Analysis (SVA)
By Jit 3707 days agoThe sva package contains functions for removing batch effects and other unwanted variation in high-throughput experiment.RNA-seq Analysis Workshop Course Materials
By Jit 2365 days agochagall.med.cornell.edu - RNAseq can be roughly divided into two "types": Reference genome-based - an assembled genome exists for a species for which an RNAseq experiment is performed. It allows reads to be aligned against the reference genome and significantly improves...RNA-seq workflow: gene-level exploratory analysis and differential expression
By Jit 1171 days agomaster.bioconductor.org - Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count...
Pathway Analysis
Last updated 3728 days ago by Rahul Agarwal Comments (2)Pathway Analysis is usually performed with aim to enrich the genes with their functional information and reveal the underlying biological mechanisms pursue by genes. Pathway Analysis is not only limited to what biological pathways a particular set...Integrative RNA and ChIP-Seq analysis of regulatory T-cells
By Strand 3429 days agoIntegrative RNA and ChIP-Seq analysis of regulatory T-cellsWebinar on Unique Molecular Identifier (UMI)-powered Ultra-sensitive Variant Calling using Strand...
By Strand 2603 days ago Comments (1)Webinar on Unique Molecular Identifier-powered Ultra-sensitive Variant Calling using Strand NGS - Case Study by Dr. Pandurang Kolekar, Bioinformatics Engineer, Strand Life Sciences Abstract: Unique Molecular Identifiers (UMIs) are short...RNA-Seq differential expression work flow using DESeq2
By BioStar 1218 days agowww.sthda.com - One of the aim of RNAseq data analysis is the detection of differentially expressed genes. The package DESeq2 provides methods to test for differential expression analysis.GeneSpring webinar- Uncovering mechanisms of hepatotoxicity on 14 June at 8AM PST
By Yeshodari 2771 days agoUncovering Mechanisms of Hepatotoxicity for High Affinity Antisense Oligonucleotides – 3’ end RNA-seq Profiling Using GeneSpring GX High affinity antisense oligonucleotides (ASOs) containing bicylic modifications (BNA) such as locked...Troyanskaya Lab
The goal of our research is to interpret and distill this complexity through accurate analysis and modeling of molecular pathways, particularly those in which malfunctions lead to the manifestation of disease. We are inventing integrative methods...
