NATIONAL CANCER INSTITUTE - CANCER.GOV

Contact Information

Primary Contact

Parthav Jailwala
Manager, CCBR

Location

37 Convent Drive
Building 37, Rm 3041
Bethesda, MD 20892

Additional Contacts

Maggie Cam, Ph.D.
Head, CCBR

Overview

The CCR Collaborative Bioinformatics Resource (CCBR) is a centrally funded resource group which provides a mechanism for CCR researchers to obtain many different types of bioinformatics assistance to further their research goals. The group has expertise in a broad range of bioinformatics topics, and as such, its goal is to provide a simplified central access point for CCR researchers. Requests for any type of Bioinformatics support should be through the CCBR Project Submission Form.
Types of Collaborative Expertise:
  • Next Generation Sequence (NGS) data analysis (RNAseq, scRNAseq, ATAC-seq, ChIP-seq, WES, WGS, CRISPR-seq, Cut & Run, etc.)
  • Data mining, statistical and mathematical analysis using multiple approaches
  • Pathway mapping and biological interpretation
  • Multi-experiment data integration and correlation
  • miRNA and array CGH analysis
  • SNP and base calling
  • Data Mining/Management/Integration
  • Immune Repertoire/VDJ/Antibody Sequencing
  • Long-read sequencing technologies
  • Metagenomics
  • Methylation Sequencing/Array
  • Proteomics
  • Spatial transcriptomics
  • Microarray analysis across multiple platforms and custom arrays
User-Friendly, Automated Bioinformatics Workflows:

The NIH Integrated Data Analysis Platform (NIDAP), is a cloud-based, collaborative data aggregation and analysis platform. The platform hosts user-friendly bioinformatics workflows and other component analysis and visualization tools that have been created and maintained by the NCI developer community based on open-source tools. These workflows and other tools can be made immediately available to biologist end-users across the Institute. Robust controls allow users to work individually or collaboratively with PII/PHI while also maintaining proper security and ownership over their datasets. Workflows are available for analysis of bulk and single cell RNAseq data and data from Nanostring's GeoMx Digital Spatial Profiling (DSP) platform.

New users can access NIDAP by registering at http://nidap.nih.gov.

User Guidelines

CCR Investigators seeking collaborative support should visit the CCBR website to access the Project Submission Form, or contact Parthav Jailwala or Maggie Cam. Collaborators are encouraged to contact CCBR for help with experimental design to reduce any possible sources of technical variation that may be added during handling or sequencing.

VIRTUAL / IN-PERSON OFFICE HOURS

Office hours for in-person consultations (including NIDAP-related questions) are: Bethesda: Bldg 37, Rm 3041: Thursdays from 3 to 5PM Frederick: Bldg 1043, Rm 13: Tuesdays from 11 to 1PM For scheduling virtual consultation meeting over MS-Teams, please e-mail us at nciccbr@mail.nih.gov.

Publications

  • https://bioinformatics.ccr.cancer.gov/ccbr/project-support/publications/

Keywords

Data miningMicroarray analysisNext Generation Sequence (NGS) data analysisPathway mappingSNParray CGH analysisbase callingbiological interpretationcorrelationBioinformatics Biostatistics and Computinggenome data analysismiRNA analysismulti-experiment data integrationnci-coreproteome data analysissingle nucleotide polymorphismbioinformatics analysis