The Shared Resources of the Dan L. Duncan Comprehensive Cancer Center provide technical support services essential for basic and clinical research studies of Cancer Center members. The NCI-designated Cancer Center Support Grant provides funding support for advanced technologies, high-end instrumentation, data analysis, biostatistics and informatics services that would be difficult and too expensive for individual investigators or programs to develop and maintain on their own. Below are short descriptions of the Shared Resources with links to websites with more detailed information.

Antibody-Based Proteomics
Leader: Shixia Huang, Ph.D.

The Antibody-Based Proteomics Shared Resource provides highly customized services for targeted proteomics platforms that are valuable tools for both validation and protein biomarker discovery, particularly for low abundance regulatory proteins and activation states of proteins with phosphorylated antibodies. Services provided include reverse phase protein arrays (RPPA) with over 240 antibodies for total and phosphoproteins of major cell signaling pathways, and Luminex bead technology for multiplex quantitative analyses of intracellular and extracellular signaling proteins.For more information, please visit the Antibody-Based Proteomics website.

Biostatistics and Informatics Shared Resource
Leader: Susan Hilsenbeck, Ph.D.
Co-Leader for Multi-Omics Bioinformatics: Cristian Coarfa, Ph.D.
Co-Leader for Cancer Bioinformatics: Chad Creighton, Ph.D.
Co-Leader for General Biostatistics: Charles Minard, Ph. D.
Co-Leader for Cancer Biostatistics: Tao Wang, Ph.D.

The Biostatistics and Informatics Shared Resource (BISR) provides investigators with state-of-the-art biostatistical, bioinformatic, and high-performance computational infrastructure support for clinical, translational and basic science research. Major services include biostatistics and analytics, experimental design, assistance with design and conduct of clinical trials, and multi-omics data analysis.  For more information, please visit the BISR website.

Cell-Based Assay Screening Services (C-BASS)
Leader: Dan Liu, Ph.D.

The Cell-Based Assay Screening Services (C-BASS) Shared Resource is built upon the interconnected and complementary technology platforms of RNAi-based functional genomics and CRISPR/Cas9-mediated genome editing. The shared resource houses whole-genome RNAi libraries that enable expedient investigation of gene function either individually or in large scale. For genome editing, we have available a collection of CRISPR sgRNA and Cas9 vectors for distribution and cloning services, and assist investigators in deciding on the choice of cell line(s), optimal vectors, and types of Cas9. C-BASS is able to customize CRISPR/Cas9-mediated gene knockout (KO) and knock-in (KI) services, from target site design to generating KO/KI cell lines, based on the specific needs of individual investigators. For more information, please visit the C-BASS website.

Cell Processing and Vector Production
Leader: Adrian Gee, Ph.D.
Co-Leader: Zhuyong Mei, Ph.D.

The Cell Processing and Vector Production (CPVP) Shared Resource provides GMP manufacturing of therapeutic grade cellular products and viral and non-viral vectors for use in early phase clinical trials and to facilitate the preparation of the associated regulatory documentation.

Cytometry and Cell Sorting
Leader: Christine Beeton, Ph.D.
Co-Leader: Joel M. Sederstrom, M.B.S.

This is a state-of-the-art facility offering assisted and unassisted flow cytometric services. Instrumentation includes FACSAria cell sorters with up to 13 colors plus forward and side scatter, LSRII Analyzers with high through-put 96 well sample loading plates, VI-Cell counter, AutoMACS magnetic bead cell sorter and workstations with data analysis software. High-parameter cytometry is also available including the Fluidigm Helios Mass Cytometer with Hyperion imaging system (100+ potential channels) and a 30+ parameter BD Symphony A5 flow cytometer.The shared resource provides training on all instruments, assists with data analysis and design of experiments, and is available 24 hours-a-day, 7 days-a-week for trained users. For more information, please visit the Cytometry and Cell Sorting Core website.

Genetically Engineered Mouse (GEM)
Leader: Jianming Xu, Ph.D.
Co-Leader: Jason D. Heaney, Ph.D.

The GEM Shared Resource provides investigators with advice and services requiring the manipulation of mouse gametes to facilitate research involving genetically engineered mice. Services include DNA microinjection (traditional transgene DNA constructs, lentivirus constructs or BAC DNA into the one cell mouse embryo), ES cell microinjection into blastocysts, strain rederivation into a pathogen free stratus, colony expansion, in vitro fertilization, embryo cryopreservation and sperm cryopreservation for safe preservation of valuable mouse strains. The shared resource also provides consultation on experimental approaches and can work with the investigator to facilitate their research needs. For more information, visit the Genetically Engineered Mouse websiteor Mouse Embryonic Stem Cell Core website.

Genomic and RNA Profiling (GARP)
Leader: Lisa White, Ph.D.
Co-Leader: Daniel Kraushaar, Ph.D.

The Genomic and RNA Profiling Shared Resource provides cancer research investigators with access to state-of-the art next generation DNA and RNA sequencing technologies and instrumentation (iSeq100, NextSeq500 and NovaSeq6000) for whole genome and whole exome sequencing, whole genome bisulfite DNA sequencing, whole transcriptome, polyA selected and small RNA sequencing, ChIP sequencing for chromatin-protein interactions, targeted genomic DNA and RNA sequencing, and amplicon sequencing. Additionally, a direct digital detection system (NanoString nCounter), is available for targeted multiplex analysis of from 20-800 genes or gene loci. Also available are automated systems for library preparation (SMARTer Apollo), DNA size selection (Pippin HT) and DNA shearing on a Covaris LE220. GARP also assists with best practice experimental design and provides help with data management and analysis. For more information, please visit the Genomic Profiling website.

Human Tissue Acquisition and Pathology (HTAP)
Leader: Michael Ittmann, M.D., Ph.D.
Co-Leader: Patricia Castro, Ph.D.

The Human Tissue Acquisition and Pathology (HTAP) Shared Resource provides tissue and serum related services to researchers that includes histology and immunohistochemistry (IHC) and organization of the different tissue banks at BCM. Histology and IHC of human and experimental animal tissues are available on a fee-for-service basis. Services include tissue processing, embedding, sectioning and staining for routine histology (H&E, PAS, ORO, Trichrome, VVG, Giemsa), IHC and TUNEL assay for apoptosis. Also available are laser capture microdissection, archival tissue microarrays (TMA), image analysis by Inform and Vectra and consultation with pathologists. For more information, please visit theHuman Tissue Acquisition and Pathology website.

Integrated Microscopy
Leader: Michael Mancini, Ph.D.
Co-Leader: Fabio Stossi, Ph.D.

The Integrated Microscopy Shared Resource is designed to provide high quality microscopy and analytics services through availability of state-of-the-art imaging instrumentation, custom image analysis, one-on-one training by expert staff, plus consultation for experimental setup, data acquisition and analysis. The shared resource covers most of the investigators’ needs in the areas of light microscopy with particular emphasis on super-resolution techniques, high throughput/high content phenotypic screening (assay development/validation), live imaging, multi-dimensional spatial analysis of tissue and cell cultures, imaging of 3D culture models and custom image analysis pipelines and data analytics.  For more information, please visit the Integrated Microscopy website.

Mass Spectrometry Proteomics
Leader: Anna Malovannaya, Ph.D.
Co-Leader: Sung Yun Jung, Ph.D.

The Mass Spectrometry Proteomics Shared Resource features state-of-the-art Thermo Scientific Orbitrap and AB Sciex 5600 instrumentation and offers comprehensive services for proteome-wide label free quantitative profiling of cells and tissues, isolation and identification of protein complexes via immunoprecipitation and other affinity methods, followed by mass spectrometry, post-translational modification analysis, and routine protein identification from purified samples. Full-support services are provided that includes project evaluation and design, biochemical purification, mass spectrometry sequencing, and data analysis.For more information, please visit the Mass Spectrometry Proteomics website.

Metabolomics
Leader: Arun Sreekumar, Ph.D.
Co-Leader: Nagireddy Putluri, Ph.D

The Metabolomics Shared Resource provides various metabolomic procedures for discovery and validation of small molecular weight compound biomarkers of various diseases with state-of-the-art high mass spectrometry as the main technology platform. Services include quantitative targeted steady-state analysis of metabolites (up to 500 metabolites) for a wide range of analyte classes derived from biofluids, cell lines or tissues.  Services also include measurement of flux in cell lines and in mice through various metabolic pathways by 13C-isotopomer methods, structural identification of unknown molecules and unbiased lipidomics profiling.  For more information, please visit the Metabolomics Core website.

Patient-Derived Xenograft and Advanced In Vivo Models
Leader (Mouse PDX): Michael Lewis, Ph.D.
Co-Leader (CAM PDX): Andrew Sikora, M.D., Ph.D.

The Patient-Derived Xenograft (PDX) and Advanced In Vivo Models Shared Resource is comprised of two closely coordinated functional units.  A PDX Development unit facilitates establishment and use of PDXs with immunocompromised mice as the host species, and the Advanced In Vivo Models unit provides services for patient material grown in ovoon the chorioallantoic membrane (CAM) of the chicken egg (CAM-PDX). The CAM-PDX Unit also provides services to establish 3-D tumors from existing cancer cell lines, and the creation and optimization of custom bioassays. For more information, please visit the Patient-Derived Xenograft and Advanced In Vivo Models Core website

Population Sciences Biorepository (PSB)
Leader:  Michael Scheurer, Ph.D.
Co-Leader:  Marlisa Hardy, Dr.PH., M.P.H.

The Population Sciences Biorepository Shared Resource provides risk factor and clinical data collection and a centralized facility for biospecimen processing and storage from epidemiological and clinical studies. Services are available for individual investigators as well as for clinical centers that require prospective banking of patient specimens. Clinical coordinators can assist with consenting, phlebotomy, and data collection. The PSB also provides laboratory services including: full fractionation and aliquoting for blood samples; DNA extraction from whole blood, buffy coat, or saliva; and RNA extraction from whole blood.For more information, please visit the Population Biosciences Biorepositorywebsite.

CPRIT Cancer Proteomics and Metabolomics

Additional services are available through CPRIT Cancer Proteomics and Metabolomics - a group funded through a grant from the Cancer Prevention Research Institute of Texas.

Instructions for Acknowledgement of Cancer Center Support Grant in Publications

Be sure to cite the NCI Cancer Center Support Grant (P30CA125123) and acknowledge the support of Shared Resources on all cancer relevant publications. Please acknowledge the specific Shared Resource(s) used by its appropriate name.

This is important documentation for renewal of the Dan L Duncan Comprehensive Cancer Center grant and continued funding of Shared Resources.