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  3. Parse Biosciences Launches Integrated Immune Repertoire And Whole Transcriptome Workflow In Trailmaker
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  • 27 Jan 2026
  • Admin
  • News Article

Parse Biosciences Launches Integrated Immune Repertoire and Whole Transcriptome Workflow in Trailmaker

Parse Biosciences has launched a fully integrated immune repertoire and whole transcriptome analysis workflow within its Trailmaker data analysis platform.

The update enables a complete end-to-end immune profiling solution. It complements Parse’s Evercode immune product portfolio and connects experimental data with downstream analysis in a single environment.

Solving a long-standing immunology data problem

Immunologists often analyze:

  • Immune repertoire sequencing data
  • Whole transcriptome single-cell data

But these datasets usually live in separate tools.

This fragmentation creates problems:

  • Manual stitching of pipelines
  • Custom scripts and inconsistent workflows
  • Limited ability to connect clonotypes with functional cell states

Trailmaker’s new functionality unifies these layers into one purpose-built platform.

What the new Trailmaker workflow enables?

Researchers can now:

  • Combine immune repertoire and whole transcriptome data
  • Visualize clonotypes and cell types on a single integrated UMAP
  • Identify dominant clones using frequency and honeycomb plots
  • Detect conserved motifs through unique motif analysis
  • Link clonotypes directly to transcriptional states
  • Run targeted differential expression on specific clonotypes

The result is a complete view of:

  • Clonal structure
  • Diversity
  • Antigen-driven signatures
  • Functional cell programs

Why this matters?

By connecting repertoire data with transcriptome-wide expression, Trailmaker:

  • Reveals clonotype-specific gene programs
  • Adds biological context to immune repertoire findings
  • Reduces analysis complexity and time

Researchers move faster from raw data to biological insight.

Company perspective

“Our goal has always been to remove barriers for researchers,” said Charlie Roco, PhD, co-founder and CTO of Parse Biosciences.

“By making immune profiling intuitive and more fully integrated, we’re empowering immunologists to spend less time wrangling data and more time assigning biological significance.”

About Parse Biosciences

Parse Biosciences develops accessible, scalable single-cell sequencing solutions.

Its technologies support research across:

  • Cancer
  • Tissue repair
  • Stem cell therapy
  • Kidney and liver disease
  • Brain development
  • Immunology

The company’s mission is to accelerate progress in human health through high-scale single-cell biology.

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