Article

IntegrateALL: an end-to-end RNA-seq analysis pipeline for multilevel data extraction and interpretable subtype classification in B-precursor ALL

2025-09-27

Abstract excerpt

Transcriptome sequencing (RNA-seq) is emerging as a diagnostic standard for B-cell precursor acute lymphoblastic leukemia (B-ALL). Expression-based classifiers reach ∼95% accuracy, but reproducible end-to-end solutions that also integrate transcript-derived genomic drivers and quantitative virtual karyotyping are lacking. We developed IntegrateALL, a Snakemake pipeline that standardizes RNA-seq analysis from FASTQ...

Topics

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

Identifiers and source

Literature Corpus work: 2e4cf2e3-d972-5a83-9255-7d646046b659
DOI: 10.1101/2025.09.25.673987

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

IntegrateALL: an end-to-end RNA-seq analysis pipeline for multilevel data extraction and interpretable subtype classification in B-precursor ALLDOI 10.1101/2025.09.25.673987Read

MD-ALL: an integrative platform for molecular diagnosis of B-acute lymphoblastic leukemia.Semantic proximity Read

Multi-cohort transcriptomic subtyping of B-cell acute lymphoblastic leukemiaSemantic proximity Read

The gene expression classifier ALLCatchR identifies B-precursor ALL subtypes and underlying developmental trajectories across ageSemantic proximity Read

The machine-learning classifier ALLCatchR2 identifies 20 T-ALL subtypes across cohorts and age groupsSemantic proximity Read

Multi-Cohort Transcriptomic Subtyping of B-Cell Acute Lymphoblastic LeukemiaSemantic proximity Read

The Gene Expression Classifier ALLCatchR Identifies B-cell Precursor ALL Subtypes and Underlying Developmental Trajectories Across AgeSemantic proximity Read

The application of RNA sequencing for the diagnosis and genomic classification of pediatric acute lymphoblastic leukemiaSemantic proximity Read

ALLSorts: a RNA-Seq classifier for B-Cell Acute Lymphoblastic LeukemiaSemantic proximity Read

T-cell acute lymphoblastic leukaemia: subtype prevalence, clinical outcome, and emerging targeted treatmentsSemantic proximity Read

Advances in the diagnosis and classification of B-ALL: comparative insights from updated guidelines.Semantic proximity Read

RaScALL: Rapid (Ra) screening (Sc) of RNA-seq data for prognostically significant genomic alterations in acute lymphoblastic leukaemia (ALL)Semantic proximity Read

Whole genome sequencing provides comprehensive genetic testing in childhood B-cell acute lymphoblastic leukaemiaSemantic proximity Read