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Center for RNA Technologies and Therapeutics RNA Center
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The RNA Interactome Toolkit

From highly multiplexed binding profiles to functional RNA drug screens, we provide the cutting-edge wet-lab assays and robust data structures needed for the next frontier of RNA biology.

Enhanced CLIP-seq (eCLIP)

Map RNA-protein interactions transcriptome-wide at single-nucleotide resolution. Includes standard eCLIP, Ribo-eCLIP, and highly multiplexed OligoCLIP for limiting samples.

Explore eCLIP Core

Circular RNA (circRNA-seq)

Empower biomarker discovery and functional biology research with highly sensitive detection (50 ng input) and full-circle Nanopore long-read resolution.

Explore circRNA Core

Custom RNA Synthesis

Precision in vitro transcription (IVT) featuring custom template design, in vivo modifications, and high-throughput automated synthesis via the Telesis BioxP.

Explore Synthesis Core

Seamless Computational Integration

Our sequencing cores don't just hand over raw FASTQ files; we provide structured, high-fidelity matrices engineered for modern computational labs. All data is transferred securely via Globus.

  • Immediately interpretable results: Processed datasets are automatically integrated into our data portal, allowing users to explore, visualize, and interpret primary results without additional setup.
  • Human and machine readable outputs: Text/TSV-formatted outputs designed for immediate ingestion into standard computational workflows and office environments.
  • State-of-the-art analysis: Data is processed using scalable, reproducible workflows maintained in-house. Our pipelines are built on open-source tools, transparently versioned, and continuously updated to incorporate the latest methodological advances in computational genomics.
Example reproducible eCLIP enrichment
Example eCLIP binding site visualized on UCSC's genome browser.

Project Workflow

From experimental design to data handoff, our streamlined process ensures rigorous quality control.

1
Initiation

Discuss experimental design, custom goals, and cost estimates.

2
Preparation

Prepare cell lines/tissue. Conduct experimental validation.

3
Submission

Submit required manifest and ship/drop-off physical samples.

4
Processing

Protocol execution with primary data analysis and QC.

5
Data Handoff

Secure transfer of raw sequencing files and optional bioinformatic analysis.

  • Initiation: Discuss design and goals.
  • Preparation: Prepare samples & experimental validation.
  • Submission: Submit manifest and samples.
  • Processing: Sequencing, QC, and primary analysis.
  • Data Handoff: Transfer of data and analysis.

Researcher Toolkit

Project Interest Form Globus Data Transfer Guide Deliverables Example Sample Manifest