Tumor–Normal & Liquid Biopsy Bioinformatics — Hands-on

Master bioinformatics for oncology across tissue and plasma. This module covers tumor–normal and tumor-only study designs, low-VAF somatic calling with UMIs, ctDNA/fragmentomics and MRD tracking, CHIP filtering, and clinical reporting (TMB/MSI, actionability) with robust QC for audits.

Tumor–Normal & Liquid Biopsy Bioinformatics

Help Desk · WhatsApp

Session Index Category 5 · Clinical & Translational Bioinformatics

Session 1 — Study Designs: Tumor–Normal vs Tumor-Only Session 2 — Somatic Calling & Low-VAF/UMI Pipelines Session 3 — Liquid Biopsy (ctDNA) , MRD & Fragmentomics Session 4 — Reporting, QC & Longitudinal Tracking

Session 1

Fee: Rs 15920

Study Designs: Tumor–Normal vs Tumor-Only

Design choices & trade-offs

matched normals panel-of-normals (PoN) tumor-only caveats

Somatic vs germline disambiguation

population AF, gnomAD artifact & CHIP flags clonality cues

Tumor content & purity

purity/ploidy impacts sampling/FFPE effects QC checkpoints

Session 2

Fee: Rs 20120

Somatic Calling & Low-VAF/UMI Pipelines

Callers & error suppression

Mutect2 / Strelka2 / VarDict UMI consensus & duplex artifact blacklists

Low VAF tuning & QC

depth, LOD, filters strand bias & context PoN & orientation

TMB/MSI & signatures (overview)

coverage constraints panel calibration report thresholds

Session 3

Fee: Rs 24320

Liquid Biopsy (ctDNA) , MRD & Fragmentomics

ctDNA pipelines & metrics

UMI depth & family size limit of detection plasma QC

MRD strategies

tumor-informed vs naive track sets & thresholds time-series QC

Fragmentomics & CHIP filtering

fragment length patterns DNase footprints (overview) CHIP gene lists & normals

Session 4

Fee: Rs 29920

Reporting, QC & Longitudinal Tracking

Clinical reporting (somatic)

tiers & actionability TMB/MSI notes limitations/LOQ

QC, validation & audits

precision/accuracy LoD/MRD thresholds documentation/SOPs

Longitudinal dashboards

time-series trends alerting rules EHR integration (FHIR)

PDF

Tumor–Normal & Liquid Biopsy Bioinformatics | Low-VAF Somatic, ctDNA/MRD, Reporting

Tumor–Normal & Liquid Biopsy Bioinformatics — Hands-on