Article

Optimized splitting of RNA sequencing data by species

2021-06-10

Abstract excerpt

Gene expression studies using chimeric xenograft transplants or co-culture systems have proven to be valuable to uncover cellular dynamics and interactions during development or in disease models. However, the mRNA sequence similarities among species presents a challenge for accurate transcript quantification. To identify optimal strategies for analyzing mixed-species RNA sequencing data, we evaluate both alignmen...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 7dfdd138-1932-56da-ae87-aafbd1c9b2fe
DOI: 10.1101/2021.06.09.447735

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Optimized splitting of RNA sequencing data by speciesDOI 10.1101/2021.06.09.447735Read

Strategies for Integrating Single-Cell RNA Sequencing Results With Multiple SpeciesSemantic proximity Read

Expression-based species deconvolution and realignment removes misalignment error in multispecies single-cell dataSemantic proximity Read

CoSIA: an R Bioconductor package for CrOss Species Investigation and AnalysisSemantic proximity Read

Geometric inference of cross-species transcriptome correspondence using Gromov-Wasserstein optimal transportSemantic proximity Read

Disambiguate: An open-source application for disambiguating two species in next generation sequencing data from grafted samplesSemantic proximity Read

The Paipu framework enables creation of a large-scale mammalian cancer transcriptomics atlasSemantic proximity Read

Genes in Humans and Mice: Insights from Deep learning of 777K Bulk TranscriptomesSemantic proximity Read

Enabling cross-study analysis of RNA-Sequencing dataSemantic proximity Read

A Nile Grass Rat Transcriptomic Landscape Across 22 Organs By Ultra-deep Sequencing and Comparative RNA-seq pipeline (CRSP)Semantic proximity Read

RNA BaseCode: Long-Read RNA Sequences with Short-Read AccuracySemantic proximity Read

IsoAtlas: Visual interpretation of known and novel transcript isoforms using population-scale long-read evidenceSemantic proximity Read

Estimating the completeness of large-scale single-cell sequencing projectsSemantic proximity Read