Vol 2 - Winter 2012

 



Welcome to the second OSUCCC Shared Resources Quarterly Newsletter. Our goals are to provide you with important updates on our shared resources such as new equipment or capabilities, to highlight the excellent science resulting from each shared resource and to keep you updated on how we provide these services.  ​

 
Solid Tumor Translational Science Shared Resource (STTS)- Though still in development, this shared resource will be under the direction of Dr. Cynthia Timmers.

 
Once operational, the STTS will:  Work closely with clinical and translational scientists on the design and development of customizable portfolio validation assays that will provide the most innovative correlative science studies associated with early phase solid tumor oncology clinical trials.

Help identify and develop strategic partnerships between clinical investigators and appropriate pharma companies to gain great access to new drugs and compounds, and provide studywide corresponding correlative testing and analysis.
 

Genomics - Next Generation Sequencing is Here!
The Illumina HiSeq 2000 Sequencer and the SOLiD xl5500 Sequencers have arrived!

Illumina 
The Illumina HiSeq 2000 Sequencing System is a dual-flow cell system that produces the highest data quality, data output and data rate, in comparison to current commercial sequencing systems. This system is easy to use and highly cost-effective to operate. It uses the same primary data analysis pipeline (CASAVA version 1.8) we have in place for our previous Illumina GAIIx sequencing system. Click here to read more.

Microarray Shared Resource  
MASR The MASR has recently acquired two new SOLiD 5500xl instruments, which represents a significant update to our existing next-generation sequencing (NGS) platform. The facility now boasts 2 SOLiD 5500xl ultra high-throughput analyzers and will retain one SOLiD 4 for transition projects and help to manage current overflow. This new system represents a significant change to the older SOLiD 4 platform, both in terms of increased high-throughput output (Gb) as well as enhanced accuracy. The 5500 series utilizes the Exact Call Chemistry (ECC) Module, for industry-leading accuracy up to 99.99 percent over 30 Gb/day worth of output. The new system now employs 12 separately thermodynamic and fluidic-controlled lanes per instrument. Along with the new system, MASR has acquired the new Lifescope software, a robust and powerful suite for NGS analysis. The MASR, along with the BISR, has installed this suite at the Ohio Supercomputing Center (OSC) to further facilitate NGS analysis and enhance our users’ end-result experience.

Biomedical Informatics Shared Resource (BISR)   
BISR is participating in a three-year grant from Department of Defense for integrative genomic study on military working dogs. The PIs for this grant are Dr. Carlos Alveraz (Nationwide Children's Hospital), Dr. Kun Huang (OSUMC), and Dr. Guillermo Couto (OSU College of Veterinary Medicine). BISR will develop the database for managing the genomic and clinical data for the military working dogs.

BISR received a contract from NCI for bioinformatics data analysis for a cancer drug clinical trial on canine models in collaboration with Dr. William Kesseler in OSU College of Veterinary Medicine.

Recent publications:

Brown KN, Chen S, Han Z, Lu C-H, Tan X, Ding L, Zhang X-J, Cruz AL, Saur D, Anderson SA, Huang K, Shi S-H. Clonal production and organization of inhibitory interneurons in the neocortex, accepted to Science, 2011.

Kais Z, Barsky SH, Mathsyaraja H, Zha Alicia, Ransburgh D, He G, Pilarski R, Shapiro C, Huang K, Parvin J. KIAA0101 interacts with BRCA1 and regulates centrosome number, accepted to Molecular Cancer Research, 2011.

Li R, Ackerman WE 4th, Summerfield TL, Yu L, Gulati P, Zhang J, Huang K, Romero R, Kniss DA. Inflammatory gene regulatory networks in amnion cells following cytokine stimulation: translational systems approach to modeling human parturition, PLoS One, 6(6): e20560, 2011.

Xu C, Schmitt JM, Akasaka T, Kubo T, Huang K. Automatic detection of stent struts with thick neointimal growth in intravascular optical coherence tomography image sequences, accepted to Physics in Medicine and Biology, 2011.


Click on the name of the shared resource name to visit their respective web pages for information on services, fees and contact information.

 

Microscopy Shared Resource (MSR)

NEW EQUIPMENT: The MSR has new equipment that will enhance our services. We now have: (1) a forth detector on each of the single photon confocal microscopes. Addition of these detectors will greatly enhance users’ capability to collect four-color images. (2) We have also acquired two new super-chromatic aberration corrected 60 X objectives for the two single photon confocal microscopes. These objectives are better than the previous 60 X objectives for co-localization studies. (3) Lastly, we have received a Leica cryostat from Dr. Peter Mohler, Director of the Davis Heart and Lung Institute. This equipment will permit cutting cryostat sections, a service the MSR did not previously offer.

Comparative Pathology and Mouse Phenotyping (CPMPSR)

The CPMPSR welcomes Dr. Brad Bolon, a full-time comparative pathologist with expertise in developmental pathology, neuropathology and toxicologic pathology. Dr. Bolon shares responsibility for animal studies requiring pathology evaluations, including pre-submission consultations, macroscopic lesion interpretation, histologic tissue evaluation, clinical pathology data interpretation and final report preparation. The CPMPSR also welcomes Jody Sneddon, a medical technologist who has more than 24 years of experience in clinical pathology at Nationwide Children’s Hospital. Jody is eager to provide clinical pathology services for your animal studies, including complete blood counts, serum biochemistry assays and cytologic analyses.

Recent publications:

Saji M, Narahara K, McCarty SK, Vasko VV, La Perle KM, Porter K, Jarjoura D, Lu C, Cheng S-Y, Ringel MD. Akt1 deficiency delays tumor progression, vascular invasion, and distant metastasis in a murine model of thyroid cancer. Oncogene, 30: 4307-4315, 2011. PMID 21532616.

Mundy-Bosse BL, Lesinski GB, Jaime-Ramirez AC, Benninger K, Khan M, Kuppusamy P, Guenterberg K, Kondadasula SV, Ray Chaudhury A, La Perle KM, Kreiner M, Young GS, Guttridge DC, Carson WE. Cancer Research 71: 5101-5110, 2011, PMID 21680779.

La Perle KMD. 2011. Endocrine System. In JF Zachary & MD McGavin (Eds.), Pathologic Basis of Veterinary Disease (Pp. 660-697). St. Louis, MO: Elsevier.

Bolon B and Butt MT (Eds.). (2011). Fundamental Neuropathology for Pathologists and Toxicologists: Principles and Techniques. Hoboken, NJ: Wiley.

Behavioral Measurement Shared Resource (BMSR)

New staff:

Avrita Singh, MPH and Kara Gavin, MPH have joined our staff as program coordinators. Both have significant experience in behavioral research and in the use of Teleform and REDCap survey software.

Biorepository and Biospecimen Shared Resource (BBR)

The BBR is currently working on buildign the bank, expanding consent, and IT connections/data services.

Genetically Engineered Mouse Modeling Core (GEMMC)

New Services: 

We are now providing additional help to investigators with targeting projects (KO/KI).

  • If requested, GEMMSCR can extract DNA from plates with ES clones.
  • For Rosa26 KI projects, GEMMCSR can perform ES clone southern screening.

Pictured:  ES cell line clone to homozygous knockout mouse:

 

New staff: We’ve recently hired two new staff members: Dr. Yu-Yu Liu and Dr. Foued Amari. Exciting news: In the first year of activity, we produced 10 confirmed germline transmission knock-out/knock-in mouse lines!

Clinical Treatment Unit/Clinical Trials Processing Lab (CTU/CTPL)

New staff: Nancy Curtis is the new Clinical Laboratory Technologist. Nancy has been working in the Microbiology Lab for the past 2.5 years. Prior to joining Ohio State, she worked at Lab Corp in Dublin.


We will have connectivity between AdminWeb and the eRequest system as of March 31, 2012. At that time we will begin switching over to our online ordering system for SR services and products. We will update you with information as it is available. Please contact Veronica Rice, administrative manager of shared resources with any questions or comments.

The Ohio State University Comprehensive Cancer Center – Arthur G. James Cancer Hospital and Richard J. Solove Research Institute (OSUCCC – James) 460 W. 10th Avenue, Columbus, OH 43210 Phone: 1-800-293-5066 | Email: jamesline@osumc.edu