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BCM - Baylor College of Medicine

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Advanced Technology Core Labs

Advanced Technology Core Laboratories

Cytometry and Cell Sorting

The Cytometry and Cell Sorting Core at Baylor College of Medicine provides training, instrumentation, technical expertise, and software for flow cytometric analyses and cell sorting. Go to the Cytometry and Cell Sorting Core website.

Directors: Joel M. Sederstrom, M.B.S. / Christine Beeton, Ph.D.
Phone: (713) 798-3868

Bioinformatics Research Lab

The Bioinformatics Research Laboratory Core provides data hosting and bioinformatics support for applications of massively parallel sequencing, including: transcriptomics, cistromics, epigenomics and metagenomics. The services are provided through Genboree. Go to the Bioinformatics Research Laboratory Core website.

Director: Aleksandar Milosavljevic, Ph.D.
Phone: (713) 798-8719

DNA Sequencing

This core provides automated sequencing on Applied Biosystems Model 3130XL Genetic Analyzer. The core provides sequence data from single-stranded DNA, double-stranded DNA, BAC, PCR product. More than 1,000 bp can be read from each sequence run. Quality of sequencing is directly proportional to the quality of the DNA template. Go to the DNA Sequencing website.

Director: Lawrence Chan, M.B., D.Sc.
Phone: (713) 798-8577

Genetically Engineered Mouse

The GEM Core provides Baylor investigators with advice and services requiring the manipulation of mouse gametes to facilitate research involving genetically engineered mice. The GEM Core provides the following services and all can be scheduled and tracked using Mouse Embryo Manipulation Services, MEMS: DNA microinjection (traditional transgene DNA constructs or BAC DNA into the one cell mouse embryo), ES cell microinjection into blastocysts, strain rederivation into a pathogen free strain, and embryo cryopreservation for safe preservation of valuable mouse strains. Go to the Genetically Engineered Mouse website.

Director: Franco DeMayo, Ph.D.
Phone: (713) 798-6241

Genome-wide shRNA Screening (GRSA/C-BASS)

The C-BASS core makes available to the Baylor community the human and mouse shRNA library collections, through the Open Access Program from Open Biosystems. C-BASS can provide individual shRNA plasmids for use in any Baylor laboratory, or carry out an entire screening experiment using the libraries. C-BASS personnel are available to facilitate the use of these reagents and perform RNAi screens with a level of involvement that is appropriate for the specific experiment. Downstream analyses of the RNAi screen can include, in-house, high-throughput image analysis and flow cytometry. In addition, DNA oligo chip hybridization for the identification of the barcoded shRNA plasmids can be carried out at the BCM Microarray Core Facility. Go to the Genome-wide shRNA Screening (GRSA/C-BASS) website.

Directors: Dan Liu, Ph.D. / Trey Westbrook, Ph.D.
Phone: (713) 798-8032

Genomic and RNA Profiling

The Genomic and RNA Profiling Core or GARP (formerly the Microarray Core Facility) provides researchers access to state-of-the-art molecular profiling technology and services. These services include microarray technology platforms (Affymetrix, Agilent, Taqman Low Density Arrays and SuperArray), Next Gen Sequencing (MiSeq Benchtop Sequencer, HiSeq 2500 and HiSeq 2000), NanoString Technology, and Luminex and Panomics bead-based multiplexing technology. This facility also serves as a source for sample quality control, experimental design and comprehensive data analysis. Go to the Genomic Profiling website.

Director: Lisa White, Ph.D.
Phone: (713) 798-7699

Human Tissue Acquisition and Pathology

The Human Tissue Acquisition and Pathology Core provides tissue and serum related services to researchers that includes histology and immunohistochemistry and organization of the different tissue banks at BCM. Histology and IHC of human and experimental animal tissues are available to all BCM faculty 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. Go to the Human Tissue Acquisition and Pathology website.

Director: Michael Ittmann, M.D., Ph.D.
Phone: (713) 798-3705
Email: mittmann@bcm.edu

Integrated Microscopy

Fluorescence, confocal, deconvolution and electron microscopy services are available. Instrumentation, available in the Department of Molecular and Cellular Biology, includes a Beckman-Coulter IC-100 (high throughput microscopy and analysis system); Zeiss AxioPlan2 Microscope with CoolSnap HQ CCD MetaView, MetaMorph; Zeiss LSM 510 META Confocal/Spectral Imaging Microscope; Applied Precision SoftWoRx Image Restoration Microscope (deconvolution); Hitachi H-7500 Transmission Electron Microscope with Gatan 2Kx2K CCD; Silicon Graphics and PC Workstations; RMC Ultramicrotome. Go to the Integrated Microscopy website.

Director: Michael Mancini, Ph.D.
Phone: (713) 798-8952

Mass Spectrometry Proteomics

The Mass Spectrometry-Proteomics Core Laboratory (MS-PCL) provides services for high sensitivity high throughput triple Time-Of-Flight mass spectrometer and full-fledged proteomics technologies for discovery and validation of biomarkers of various diseases. The services include (i) rapid mass determination of proteins and peptides, (ii) identification of proteins/peptides in complex biological samples, (iii) subproteome isolation and characterization, and (iv) detailed analysis of post-translational modification of proteins/peptides. The MS-PCL is also planning to meet the Good Laboratory Practice. Go to the Mass Spectrometry Proteomics website.

Director: Hon-Chiu Eastwood Leung, Ph.D.
Phone: (713) 798-6360
Email: hleung@bcm.edu

Metabolomics Core

This Core provides metabolomics technologies for discovery and validation of biomarkers of various diseases with state-of-the-art high mass spectrometry as the main platform. Core competencies include both targeted assays (up to 500 metabolites) for many analyte classes as well as untargeted assays to evaluate the entire metabolome in biofluids, cell lines and tissues. Services also includes measurement of flux through various pathways using 13C-isotopomer analyses, and structural identification of isolated unknowns. The Biolog Phenotype Microarray system is also available to test for thousands of cellular phenotypes in a multiplex platform. COMING THIS SPRING!

Directors: Arun Sreekumar, Ph.D / Nagireddy Putluri, Ph.D / Vivekananda Shetty, Ph.D

Email: MetabolomicsCore@bcm.edu

MHC Tetramer

The tetramer production core provides customized MHC/peptide tetramers for identification of antigen-specific T lymphocytes by flow cytometry. Tetramers and/or their derivatives are provided for research purposes only; their use for commercial purposes is prohibited. Go to the MHC Tetramer website.

Director: Xiaochi Lily Wang, M.S.
Phone: (713) 798-3918
E-mail: lxwang@bcm.edu

Monoclonal Antibody/Protein Expression

This core provides custom services for construction of monoclonal antibody producing B-cell hybridomas and recombinant baculoviruses for expression of proteins in insect cells. After construction of hybridomas, the core mass produces and purifies MAbs from large-scale hybridoma cultures grown either in conventional spinner vessels (up to 5.0 liters) or in hollow-fiber bioreactors. Baculovirus recombinant proteins are expressed in either conventional spinner cultures or oxygenated bioreactors. Key core equipment includes 27°C BOD incubators and Applikon 5 liter oxygenated bioreactors for large scale growth of Sf9 insect cells, hollow-fiber bioreactors (FiberCell Systems) for large scale production of hybridomas, and MAbs in vitro and FPLC systems for MAb purification. Go to the Monoclonal Antibody/Protein Expression website.

Lab Manager: Kurt Christensen
Phone: (713) 798-2325
Email: krchrist@bcm.edu

Mouse Embryonic Stem Cells

The Mouse ES Cell Core generates genetically engineered mice needed by researchers across the United States who are in pursuit of answers and cures for human disease. Core personnel assist investigators with projects that involve generating mutations in the germ line and somatic tissues of mice by performing homologous recombination in ES cells. ES services include electroporation, ROSA targeting, Close Expansion, the generation of primary mouse ES cell lines and Murine Virus Testing. Go to the Mouse Embryonic Stem Cells website.

The International Knockout Mouse Consortium, which includes the NIH-funded Knockout Mouse Project, aims to generate functional information for every mammalian gene to inform human genome disease studies while generating mouse models for human diseases. The BaSH consortium is one of three NIH-funded KOMP2 awardees. The purpose of KOMP2 is to generate mouse strains from previously targeted ES cells (EUCOMM, KOMP) and to characterize these in a high throughput phenotyping pipeline. All phenotyping data are made publically available. ES Cells, frozen sperm and some mouse strains are also available from repositories. Go the International Knockout Mouse Consortium website.

Director: Jason Heaney, Ph.D. 
Email: MouseEScore@bcm.edu

Mouse Metabolic Research Unit (Children's Nutrition Research Center)

The Mouse Metabolic Research Unit at the Children's Nutrition Research Center has extensive facilities for automating feeding studies and for measuring numerous metabolic parameters related to understanding energy expenditure and its various determinants (substrate oxidation, activity, body composition, etc.) in mice (as well as in pigs, although more limited). The number of mouse metabolic units available enables concurrent measurements on a relatively large number of mice. Dedicated engineer and faculty members also available to help investigators design their experiments and interpret their data. Go to the Mouse Metabolic Research Unit website.

Director: Marta Fiorotto, Ph.D.
Phone: (713) 798-7146

Mouse Phenotyping

The Mouse Phenotyping Core facility contains a multitude of testing capabilities for the assessment of mouse models from embryo to adult. Access to the MPC is open to all Baylor and non-affiliated Baylor investigators. Current equipment includes: MRI, CT, ultrasound, body composition/densitometry, indirect calorimetry, telemetry, and indirect blood pressure. Workstations for image reconstruction and data analysis are also available within the core. Go to the Mouse Phenotyping Core website.

Lab Manager: Corey Reynolds, Ph.D.
Phone: (713) 798-5040

Optical Imaging and Vital Microscopy

The Optical Imaging and Vital Microscopy core offers equipment, training and support for vital and intravital imaging studies in cells, tissues, embryos and live mice. Available technologies include confocal microscopy, line scanning confocal microscopy, multispectral microscopy and two-photon microscopy using microscopes designed for live cell and live animal imaging. Go to the Optical Imaging and Vital Microscopy website.

Core Director: Dr. Mary Dickinson
Lab Manager: Dr. Tegy Vadakkan
E-mail: vadakkan@bcm.edu

Pathway Discovery Proteomics

This is a unique proteomic service that provides antibody affinity purification of endogenous protein complexes and MS-based identification and analysis of the associated proteins. Suitable antibodies for immunoprecipitation of the desired protein complex and optimization of the cell line, culture conditions, and methods for cell lysis and antibody affinity purification are provided as services. The complexes are isolated under conditions of cellular activation by appropriate signals as requested by the cancer center investigator. Go to the Pathway Discovery Proteomics website.

Director: Jun Qin, Ph.D.

Population Biosciences Biorepository

The Dan L. Duncan Cancer Center Population Sciences Biorepository was created to support a high-quality molecular epidemiology program in the Dan L. Duncan Cancer Center and to serve as a scientific resource for investigators on biospecimen collection and storage methods in their efforts to discover etiologic risk factors and deliver personalized cancer medicine. Our goal is to provide necessary risk factor and clinical data collection and a centralized, cost-effective facility for biospecimen processing and storage of biospecimens from large epidemiological and clinical studies. The PSB provides services for individually funded investigators as well as for clinical centers wishing to bank specimens prospectively from their patients for future research projects. The PSB clinical coordinators can assist you with consenting, phlebotomy, and data collection, if needed. The PSB Laboratory provides full fractionation and aliquoting for blood samples, as well as DNA extraction from whole blood, buffy coat, or saliva. Our team can consult with you to plan the data and specimen collection and storage needs for your projects. Go to the Population Biosciences Biorepository.

Director: Michael Scheurer, Ph.D.
Email: scheurer@bcm.edu

Antibody-Based Proteomics

The proteomics core provides highly customized services to BCM and the Texas Medical Center community for protein profiling and affinity based proteomic platforms. Services include Luminex bead technology for multiplex quantitative analyses of intracellular and extracellular proteins and various signaling pathways; protein fractionation and protein profiling by two-dimensional liquid chromatograph (PF2D) and 2D gels, antibody and protein-protein interaction arrays as discovery tools for protein biomarkers, and preparation of serum subproteomes including depletion of abundant serum proteins. Go to the Protein and Antibody Array Proteomics website.

Director: Shixia Huang, Ph.D.
Phone: (713) 798-8722

RNA In Situ Hybridization

The RNA In Situ Hybridization core provides services and equipment to determine gene expression patterns in rodent and human tissues. We can process and section tissue (frozen or paraffin), prepare labeled RNA probes, perform high-throughput in situ hybridization, image and quantify the gene expression levels. Go to the RNA In Situ Hybridization website.

Director: Cecilia Ljungberg, Ph.D.
Phone: (832) 824-8873
Email: cecilial@bcm.edu

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