Integrated Genomics

The mission of the Integrated Genomics Shared Resource (SR) is to deliver a comprehensive spectrum of genomic and functional genomic technologies and bioinformatic services to cancer center members and the cancer research community. 

The Integrated Genomics SR is comprised of four distinct components: the Case Western Reserve University (CWRU) Genomics Core (Director Alex Miron), the CWRU Applied Functional Genomics Core (Director Mark Cameron), the Cleveland Clinic Research Genomics Core (Scientific Manager Yu-Wei Cheng), and the Cleveland Institute for Computational Biology’s Bioinformatics Core (Director Ricky Chan). The Integrated Genomics SR works with the cancer research community to design genomic and functional genomic studies, run the appropriate suite of omic assays, and analyze the resulting data via a bioinformatic and systems biology approach. Our services and collaborations are either uniquely found at a single site or obtained at multiple locations via a collaborative core system to better accommodate users.

Please contact the director and/or co-directors for more information on engagement.

Services

The CWRU Genomics Core offers a wide range of genomic and DNA/RNA services. We operate the Illumina NovaSeq X Plus, NextSeq 550, and MiSeq platforms for all Next Generation Sequencing and offer an extensive list of DNA and RNA library preps to the core community. Some of the analysis services provided include whole genome and exome, microbiome, amplicon, ChIP-seq, CUT&RUN, Total RNA, mRNA, RIP-seq, Small RNA-seq, Infinium Methylation and Genotyping arraysThe Genomics Core also offers quality assessment of most types of DNA and RNA, as well as Cell Line Authentication and Illumina BeadArray methylation and genotyping analysis. Learn more at case.edu/medicine/genomics.

The Cleveland Clinic Research Genomics Core also offers a wide range of genomics services, including Illumina microarray-based gene expression profiling, genotyping, and next-generation sequencing (NGS). Our core is equipped with the Illumina MiSeq desktop sequencer and the Illumina NovaSeq 6000, which enable rapid and effective targeted and whole-genome analyses. We prepare and normalize libraries for RNA-seq, miRNA-seq, DNA-Seq, whole genome sequencing, and single-cell RNA-seq, all with full quality control services. Please visit lerner.ccf.org/cores/genomics for more information.

The CWRU Applied Functional Genomics Core (AFGC) focuses largely on collaborative transcriptomics and multiomics and partners with the CWRU and Cleveland Clinic Genomics Cores to offer functional genomic study design and a highly standardized, top-to-bottom platform for conducting specialized RNA-Seq library generation and bioinformatics on a wide variety of clinical sample types. We provide workflows that are optimized for many difficult sample types, such as ultra-low input (biopsies, laser capture, small cell numbers), 10X Genomics single cell-multiomic sequencing (scRNA-/snRNA-/ATAC-Seq), and Spatial Profiling (including protein panels) via 10X Genomics' Visium CytAssist and Nanostring's GeoMx/nCounter platforms. Our analysis tools can integrate multiple data types, whether clinical or functional, in the bioinformatics analysis to uncover biomarkers or correlates. Our advanced bioinformatics methods include pathway, network, meta-analysis and drug discovery for researchers who require a look at biology across different studies, especially in correlation with clinical and immunophenotyping data. See cameronlab.org for more.

The Cleveland Institute for Computational Biology’s Bioinformatics Core works with cancer center members looking for bioinformatic analysis of stand-alone cancer dataset(s). This core specializes in transcriptional analysis at the gene and isoform levels, DNA sequencing for genomic variant identification, and microbiome analysis. Core charges can be done as either fee-for-service or through collaborative support on grants. Find out more at icompbio.net/bioinformatics-core.

Acknowledgment

Remember to acknowledge the valuable services provided by Case Comprehensive Cancer Center Shared Resources in your research papers and publications:
"This research was supported by the Integrated Genomics Shared Resource of the Case Comprehensive Cancer Center (P30CA043703)."

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