The Translational Core Laboratory consists of the Specimen Collection, Processing and Point of Care, Biochemistry, Cell Culture/DNA Isolation, and Molecular Biology core laboratories. Laboratory testing is integrated across Penn and CHOP, and TCL services are provided at multiple physical locations at both Penn and CHOP.
Penn location: first floor Smilow Center for Translational Research
CHOP location: 804 Abramson Research Center (ARC)
Mifflin, Theodore, Ph.D. | Penn
Role: Technical Director (Adult), Translational Core Laboratories
Ren, Xiangdong (Sean), M.D., Ph.D. | CHOP
Role: CTRC Translational Core Lab Supervisor - Pediatric (CHOP)
"The 7900HT System is a high-throughput real-time PCR system that detects and quantitates nucleic acid sequences. An Automation Accessory combined with 384-well plate capability make the 7900HT system ideally suited to meet the high-throughput requirements of today's drug discovery process. Key applications include gene expression quantitation and the detection of single nucleotide polymorphisms (SNPs) using the fluorogenic 5' nuclease assay."
• continuous wavelength detection from 500-660 nm
• 96- or 384-well plate compatibility
• compatibility with the TaqMan® Low Density Array
This is an automated analyzer capable of executing high throughput analysis on a variety of samples from humans and non humans. Sample types accepted include serum, plasma, urine, CSF and others. More than 80 different biomarkers can be analyzed using a wide spectrum of biochemical assays. Assays are all validated as FDA in vitro diagnostic category.
The COBAS e411 is capable of full automated operation and offers a menu of nearly 30 assays that are all FDA certified for use as in-vitro diagnostic procedures. This instrument automates the 2-site 'sandwich' immunoassay by using combination of magnetic beads and electrochemiluminescent detection to quantify a variety of ligands including hormones, tumor markers, and other proteins and antigens.
This stand alone instrument completely automates the traditional 2-site immunoassay and incorporates a fluorescent tag whose signal is digitized and correlated with concentration of immunoassay target. This combination yields detection limits that are nearly 2 two orders of magnitude lower than traditional sandwich ELISAs. The SIMOA offers an established menu of analytes that includes cytokines and growth factors. In addition, user-defined methods may be created and performed on the SIMOA.
SOMAscan is an aptamer-based high throughput screening protocol that simultaneously screens for 1129 biomarker candidates. From every sample in a group of 24 unknown samples, the SOMAscan process consumes just 65 uL of serum or EDTA plasma. The SOMAscan process is completed within 48 hours from start and yields an output file that contains concentration-related signals for all 1129 targets as quantified within each sample in the group of 24. Completed output files can then be submitted for further bioinformatic data analysis.
"Hundreds of distinct ELISA, RIA, enzymatic and HPLC assays are provided. For many commercially available ELISA’s, the TCL may already provide this service. If not, the TCL is capable of developing a commercial ELISA for study applications within weeks of the request assuming a sufficient demand for the service."
"DNA isolation from:
• whole blood
• frozen whole blood
• cultured cells
• spit kits (saliva swabs for infants)
• buccal swabs
• blood collection cards
• solid tissue (umbilical cords, paraffin blocks)"
"Lymphocyte transformation, culture, and cryopreservation:
• lymphocyte collection and freezing
• transformation of cryopreserved lymphocytes"
"Specialized Cell Isolation:
• Peripheral Blood Mononuclear Cells (PBMCs)
• Urinary Leukocytes
• Primary cell culture from tissue
"The CTRC TCL has recently acquired the Sysmex XT-2000iV Automated Hematology Analyzer to further support our clinical and animal research work. This toxicology and veterinary hematology analyzer provides a reliable, customizable solution for multi-species analysis. The analyzer utilizes the same patented fluorescent flow cytometry based cell counting technology proven in the Sysmex(r) X-Series instruments. The Sysmex XT-2000iV is also capable of analyzing human samples for research purposes."
CBC + Diff
CBC + Diff + Retic
CBC + Retic
"The CTRC TCL has substantial experience in running various immunoassays for quantitative detection of blood and urine protein/peptide biomarkers, certain hormones, and antibodies.
We are equipped with advanced instruments such as Molecular Devices M5 Microplate Reader for the classical single-analyte enzyme linked immunosorbent assays (ELISA) and other colorimetric assays; Immulite 1000 for solid phase immuno-chemiluminescent assays capable of IVD qualified high throughput analysis; and Meso Scale Discovery Sector 6000 Imager for MSD immunoelectrochemiluminescence assays best known for its high signal-to-noise ratio and the array-based multiplex analysis."
Loss of heterozygosity
• DNA re-sequencing
• heteroduplex analysis
Primers are designed using MacVector.
• Total RNA isolation
• Preparation of cDNA by Reverse-Transcription PCR
• Gene expression analysis (Quantitative or Relative) by Real Time PCR (7900HT)
SNP genotyping by real time PCR.
"Bedside tests by Bayer Rapid Point 400:
• available on request (blood gases, electrolytes, calcium etc)"
"Collection, processing and storage of specimens:
"GeneMapper® Software is a flexible genotyping software package that provides DNA sizing and quality allele calls for all Applied Biosystems electrophoresis-based genotyping systems. This software specializes in multiapplication functionality, including amplified fragment length polymorphism (AFLP®), loss of heterozygosity (LOH), microsatellite, and SNP genotyping analysis. GeneMapper® Software can help users increase data processing efficiency with remote auto-analysis and command line operation, and allows for multiuser, client-server deployment. The software uses Process Quality Values (PQVs) for automated identification that reduces data review time for high throughput genotyping. In addition, the security and audit features help users meet 21 CFR 11 requirements."
"MacVector is a comprehensive Macintosh application that provides sequence editing, primer design, internet database searching, protein analysis, sequence confirmation, multiple sequence alignment, phylogenetic reconstruction, coding region analysis, and a variety of other functions. MacVector is widely regarded as the most intuitive, easy to use program available for sequence analysis.
• graphical sequence editing
• gateway and topo cloning
• auto annotation
• primer design
• DNA analysis
• protein analysis
• database searching
• multiple sequence alignment
• sequence assembly"
"With its built-in instrument integration Nautilus offers productivity gains right from the outset. Full functionality for plate handling and manipulation can be used to track plate movement and genealogy, while standard integration functionality allows data to be easily imported without coding from a variety of analytical instruments. Nautilus includes patented workflows technology with a flexible and intuitive interface for graphically designing a workflow of the sample life cycle.
The flexible and intuitive interface of Nautilus graphically maps laboratory workflows to meet the needs of even the most dynamic environments. Nautilus ofers full functionality for plate handling and manipulation can be used to track plate movement and genealogy, while standard integration functionality allows data to be easily imported without coding from a variety of analytical instruments.
Nautilus LIMS has an intuitive web interface that aids integration and interaction with systems throughout the organization as well as other facilities, including regulatory agencies. This enables rapid access toup-to-the-minute data and information that impacts every phase of laboratory processes."