Skip to main content
CCR Collaborative Bioinformatics Resource
  • Home
  • Ask For Help
  • About CCBR
    • Mission
    • Collaborative Support
    • Data Handling
  • Project Support
    • Experimental Design: Best Practices
    • Request prioritization guidelines
    • Publications
    • Heatmap Viewer
    • Project & Sample Metadata templates
  • Pipelines & Software
    • CCBR Pipeliner
  • Education & Training
    • NIH Bioinformatics Calendar
    • Scientific Software
    • Bioinformatics Workflows on NIDAPĀ 
  • Who are we
  • Contact Us

Select Page

CCR Collaborative Bioinformatics Resource

Pipelines & Software

  • Whole Exome and Genome Pipelines
  • Single Cell RNA-Seq Pipeline
  • RNA-Seq Pipelines
  • ChIP-Seq Pipeline

whole exome and genome pipeline overview

Single Cell RNA-Seq Pipeline

RNA-Seq_pipeline overview

Chip-Seq pipeline overview

Ask For Help

Reach Out
to CCBR

Upcoming Classes

  • R Introductory Course Series 2023
  • Introduction to Unix on Biowulf

Publications

  • 09/27/2022 - Immunogenetics associated with severe coccidioidomycosis
  • 06/21/2022 - Host CLIC4 expression in the tumor microenvironment is essential for breast cancer metastatic competence
  • 05/09/2022 - A phenotypic signature that identifies neoantigen-reactive T cells in fresh human lung cancers
  • 03/01/2022 - A phase 2 study of Pembrolizumab in combination with Capecitabine and Oxaliplatin with molecular profiling in advanced biliary tract carcinoma
  • 03/01/2022 - Remodeling the tumor microenvironment via blockade of LAIR-1 and TGF-? signaling enables PD-L1-mediated tumor eradication
  • 02/11/2022 - Reusable single cell for iterative epigenomic analyses
  • 02/01/2022 - Urine single-cell RNA sequencing in focal segmental glomerulosclerosis reveals inflammatory signatures
  • 02/01/2022 - H3K27ac nucleosomes facilitate HMGN localization at regulatory sites to modulate chromatin binding of transcription factors
  • 12/14/2021 - TNF plays a crucial role in inflammation by signaling via T cell TNFR2
  • 12/01/2021 - Identifying and characterizing virus-encoded circular RNAs
  • 12/01/2021 - The butyrophilin 1a1 knockout mouse revisited: Ablation of Btn1a1 leads to concurrent cell death and renewal in the mammary epithelium during lactation
  • 11/17/2021 - Protein-RNA interactome analysis reveals wide association of KSHV ORF57 with host non-coding RNAs and polysomes
  • 11/01/2021 - PERK signaling through C/EBP? contributes to ER stress-induced expression of immunomodulatory and tumor promoting chemokines by cancer cells
  • 11/01/2021 - TP53 loss initiates chromosomal instability in fallopian tube epithelial cells
  • 10/20/2021 - Ecdysoneless protein regulates viral and cellular mRNA splicing to promote cervical oncogenesis
  • 10/07/2021 - CTCF is a barrier for totipotent 2C-like reprogramming
A service of the National Cancer Institute and Frederick National Lab For Cancer Research.
  • HHS
  • NIH
  • NCI
  • CCR
  • USA.gov
  • Disclaimer Policy
  • Privacy Policy
  • Accessibility
  • HHS Vulnerability Disclosure