Supported by CCR Office of Science and Technology Resources (OSTR)

SF Services


To Request Service from the Sequencing Facility

Prior to filling out a NAS request, you are advised to consult with Mr. Bao Tran  and/or Dr. Maggie Cam to discuss your project design and bioinformatics approach to data analysis:


Bao Tran,

Sequencing Facility Head



Maggie Cam Ph.D.,

Staff Scientist



To request services from the CCR Sequencing Facility

Submit a Sequencing Facility Request

Please visit the Protocols and Resources page for more details about the sequencing chemistry and technology utilized by each platform. We encourage you to contact us so we can provide you with the most current information and help you plan your project to meet your sequencing needs.

Short reads with Illumina Sequencing:

Illumina sequencing enables a wide variety of applications, allowing researchers to ask virtually any question related to the genome, transcriptome, or epigenome of any organism.

  • ChIP-Seq
  • Cut and Run
  • ATAC-Seq*
  • RNA-Seq (mRNA, Total RNA, and microRNA)Whole Genome Sequencing
  • Whole Exome Sequencing – For further information please contact
  • Methylated DNA sequencing (bisulfite)
  • Amplicon Sequencing

* ATAC seq is only provided as a pilot project for a maximum of 12 samples. After the pilot, or for more than 12 samples, we can transfer the protocol to you

Long Read Sequencing Technologies:

  • Whole Genome Sequencing: de novo assembly, haplotype resolution, structural variant detection, DNA epigenetic modification detection.
  • RNA Sequencing: Full-length transcript sequencing for whole-transcriptome or gene-specific targets. Full-length RNA sequencing can be performed on bulk or single cell samples. Direct RNA sequencing with Oxford Nanopore Sequencing.
  • Targeted Sequencing: Long amplicon sequencing, full-length viral sequencing, full-length vector sequencing, target enrichment, adaptive sampling and multiplexing strategies.
  • HLA Typing: Amplification of full gene for HLA class I and/or class II.
  • 16S sequencing: Amplification of full length 16S for bacterial communities.

Optical Mapping using Bionano Technology:

Imaging and analysis of extremely long, high-molecular-weight DNA facilitates identification of structural variants and creation of de novo genome assemblies

Single-Cell Sequencing:

  • Single-cell transcriptomics: 10X Genomics single-cell gene expression (3’ or 5’ gene end counting) analysis
  • Single-cell immune repertoire analysis: 10X Genomics single-cell VDJ (TCR / BCR; human/mouse) solution with or without 5’ gene expression profiling
  • 10X Genomics Gene Expression with Cell Surface Protein Expression (CITE-Seq) and/or sample multiplexing with barcoded antibody labeling (Cell hashing)
  • Single-cell epigenomic analysis: 10x Genomics single-cell ATAC-Seq solution
  • Single-cell genomics: Targeted DNA panels and Mission Bio Tapestri platform
  • Single-cell targeted DNA and protein analysis: Targeted DNA panels, barcoded antibody labeling, and Mission Bio Tapestri platform
  • Single-cell fixed RNA profiling (mouse/human): whole transcriptome analysis of PFA-fixed human or mouse samples by using 10X Chromium Fixed RNA profiling solution
  • Single-cell Iso-Seq (full length RNA-seq): Targeted or Whole Transcriptome Full-Length scRNA-Seq on PacBio and Oxford Nanopore sequencing platforms
  • Instrument free single-cell transcriptomics: Fluent Biosciences PIPSeq single-cell gene Expression (3’ gene end counting) analysis

R&D Resources:

  • R&D group works closely with investigators to provide customized support for a variety of applications, utilizing the most recent state-of-the-art NGS sequencing technologies.
  • Testing and validation of new sequencing applications/products before offering them as production services.
  • Development of new sequencing applications/protocols to assist the NCI community.
  • Training the production team members and PI labs on the newest developed NGS sequencing technologies and new instruments.

Bioinformatics Support

CCR-SF bioinformatics group provides coordinated joint consultation services for sequencing technology selection, project design, and data analysis for next generation sequencing projects. We support analysis for Whole Genome/Exome sequencing, ATAC-seq, ChIP-seq, RNA-seq, miRNA-seq and analysis for new data types from single cell sequencing, long-read sequencing, and optical mapping. We work collaboratively with the CCR Collaborative Bioinformatics Resource (CCBR) and provide a mechanism for CCR researchers to obtain many different types of bioinformatics assistance to further their research goals. Please check the details of Bioinformatics Support at the Sequencing Facility Bioinformatics Information page.