Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

NEXT-scASV: a Nextflow pipeline for allele-specific variant calling from single-cell RNA-seq data.

GigaScience - 21 Jan 2026

Shevtsov Andrey, Buyan Andrey, Nozdrin Vladimir, Akhtyamov Pavel, Stupnikov Alexey, Meshcheryakov Georgy, Kulakovskiy Ivan V, Medvedeva Yulia A

Abstract excerpt

The rapid accumulation of single-cell sequencing data presents major computational challenges in reproducibility, scaling, and handling data characteristics such as sparsity and technical variations, which complicate even basic analyses. The next level of complexity is the allele-specific analysis, focused on identifying differential gene expression or regulation between homologous chromosomes by estimating the...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to RNA-Seq
Share to Sequence Analysis, RNA

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Computational Biology

Share to High-Throughput Nucleotide Sequencing

Share to Reproducibility of Results

Share to Single-Cell Analysis

Share to Single-Cell Gene Expression Analysis

Share to Software

Source

Open in PubMed Open full text

Identifiers

PMID: 41947412
DOI: 10.1093/gigascience/giag042
PMCID: PMC13148397

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 3 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

NEXT-scASV: a Nextflow pipeline for allele-specific variant calling from single-cell RNA-seq data.PMID 41947412Read ↗

A comprehensive workflow for allele-specific immune gene quantification and expression analysis in single-cell RNA-seq dataSemantic proximity Read ↗

DAESC + : high-performance, integrated software for single-cell allele-specific expression data.Semantic proximity Read ↗

scHLAcount: Allele-specific HLA expression from single-cell gene expression dataSemantic proximity Read ↗

Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets.Semantic proximity Read ↗

scHLAcount: allele-specific HLA expression from single-cell gene expression data.Semantic proximity Read ↗

SNV identification from single-cell RNA sequencing data.Semantic proximity Read ↗

ASEQ: fast allele-specific studies from next-generation sequencing data.Semantic proximity Read ↗

A compendium of methods: Searching allele specific expression via RNA sequencing.Semantic proximity Read ↗

Decoding the human PBMC isonome: Isoform-level resolution with single-cell long-read transcriptomicsSemantic proximity Read ↗

Single Nucleotide Polymorphism (SNP) and Antibody-based Cell Sorting (SNACS): A tool for demultiplexing single-cell DNA sequencing dataSemantic proximity Read ↗

Estimating allele-specific expression of SNVs from 10x Genomics Single-Cell RNA-Sequencing DataSemantic proximity Read ↗

Estimating the Allele-Specific Expression of SNVs From 10× Genomics Single-Cell RNA-Sequencing Data.Semantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.