Genomics


Director: Richard K. Wilson, PhD

Co-Director: Amanda Ewart Toland, PhD, FACMG
Senior Faculty Advisor: Carlo Croce, MD
Technical Director (Ohio State): Pearlly Yan, PhD

Technical Director (Nationwide Children’s Hospital): Vincent Magrini, PhD 

The Genomics Shared Resource (GSR) provides a centralized, comprehensive resource of high-throughput genom¬ics technologies to OSUCCC – James researchers and non-CCC members.

The GSR offers instrumentation and expertise for DNA and RNA analysis using sequencing, genotyping, real-time PCR, Affymetrix GeneChips, nCounter Analysis, next-generation sequencing library generation, next-generation sequencing (through Nationwide Children’s Hospital Biomedical Genomics Core) and QC for RNA/DNA/proteins.

OSUCCC member and non-member investigators have unlimited access to training, consultation, troubleshooting and assistance in experimental design.

Genomics Shared Resource Goals

  • Provide reliable, high-quality, affordable, low- and high-throughput standard user-level genomic and epigenomic support
  • Provide, optimize, develop and apply early access technologies relevant to cancer research
  • Provide and develop infrastructure and staff for progressive technologies for cancer research
  • Provide investigators with training in data analysis, data interpretation and experimental strategies, and provide assistance with investigator publication
  • Utilize sensitive molecular hybridization methods to detect and quantify RNA transcript expression levels and structures such as splicing and/or DNA copy number and variation, including digital (Nanostring) and state-of-the-art microarray (Affymetrix) platforms
  • Provide quantitative measurement of RNA and DNA integrity and quantity for use with a multitude of downstream applications.
  • Provide full service next-generation library generation for a variety of library types and input
  • Perform polymerase chain reaction (PCR)-based amplification to detect, quantify and confirm copy number variants, single nucleotide variants and small insertion/deletion polymorphisms including quantitative PCR and high throughput digital and custom PCR assay methods
  • Provide SNV and microsatellite genotyping using a variety of platforms (microsatellite genotyping, TaqMan SNP and CNV assays, Fluidigm SNPType assay, and Snapshot and needs (e.g. cell line verification, hotspot mutation analysis, case-control studies).

Expertise

Director: Richard K. Wilson, PhD
Co-Director:  Amanda Ewart Toland, PhD, FACMG

  • Technical Director, Next-generation Sequencing Libraries: Pearlly Yan, PhD
  • Laboratory Supervisor: Paolo Fadda, PharmD
  • Laboratory Services Coordinator, Xi Chen, PhD
  • Laboratory Services Coordinator: Christine Daugherty, MS
  • Laboratory Services Coordinator: Jennifer Mele, BS
  • Technical Director, NCH, Vincent Magrini, PhD
  • Laboratory Services Coordinator, Jenny Panescu, MS
  • Laboratory Services Coordinator: Huabao Wang, BS

Richard Wilson

Richard K. Wilson, PhD is the founding executive director of the Institute for Genomic Medicine (IGM) at Nationwide Children’s Hospital. He is a professor of Pediatrics at the Ohio State University College of Medicine. Dr. Wilson received his AB degree in Microbiology from Ohio University and his PhD in Chemistry and Biochemistry from the University of Oklahoma. Dr. Wilson co-founded the Genome Sequencing Center/ McDonald Genome Institute at Washington University. He is an expert in molecular genetics and large-scale genomics. His laboratories have been among the world’s leaders in genome analysis. His teams have sequenced and analyzed billions of bases of DNA from genomes of many species including sequencing of the first animal genome, C. Elegans, and the first to sequence the genome of a cancer patient and discover genetic signatures relevant to the pathogenesis of the disease. Dr. Wilson is overseeing cutting edge genomic sequencing and analysis. Dr. Wilson’s genomics team will perform the next-generation sequencing for the GSR.

Amanda Toland

Amanda Ewart Toland, PhD, FACMG, Co-Director is an associate professor with a joint appointment in the Department of Cancer Biology and Genetics and the Department of Internal Medicine, Division of Human Genetics. She has board certification through the American Board of Genetics and Genomics in PhD Medical Genetics and Clinical Molecular Genetics. Her research focuses on the genetics of cancer susceptibility and modifiers of cancer risk in the general population and in high-risk families, genetics of cutaneous squamous cell carcinomas, and the interplay between germline genetic variation and somatic events in tumors. Dr. Toland has extensive experience in different genotyping platforms and has used next-generation sequencing(including exome-sequencing, targeted sequencing and RNA-seq) and qPCR extensively for her own research. She is well-qualified to provide expert assistance for designing genomics experiments to GRS users.

Pearlly Yan

Pearlly Yan, PhD, Technical Director, is a research assistant professor at The Ohio State University College of Medicine, Division of Hematology. She has been with the GSR since 2008 and was responsible setting up the GSR – Illumina NGS services. In October 2016, Dr. Yan was awarded one of the fifteen (out of 253 applicants) NCI Research Specialist Award (R50). The key project associated with this 5-year award is to develop and optimize transcriptome profiling from limited cell numbers and from single cells derived from patient rare cell populations responsible for drug resistance. The cutting-edge approach of using limited-cell (lcRNA-seq) and single-cell (scRNA-seq) is being phased in in the GSR as a standard service. Dr. Yan works closely with Drs. Toland and Chen on developing new NGS services, interacts with new users and users starting new NGS projects as well as overseeing the day-to-day operations of the NGS services.

Paolo Fadda, PharmD, Laboratory Supervisor, earned a PharmD degree from Sassari University (Italy) and brings more than 3 years of research experience in molecular biology and more than 8 years in the shared resource. Dr. Fadda has experience in nucleic acids isolation and QC, gene expression analysis, including TaqMan gene expression assays, TaqMan Low Density Array (TLDA), TaqMan microRNA assays, SYBR Green chemistry and data analysis, Genotyping analysis (SNP and CNV), high-throughput gene expression analysis using the nCounter System from NanoString Technologies and Affymetrix Technology applications.

Xi Chen, PhD, Laboratory Services received his PhD in Biochemistry and Molecular Biology from Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences. He joined Genomics Shared Rescource in 2016 with more than 15 years successful research experience in molecular biology, cell biology and cancer biology. At the GSR, he is responsible for generation of various libraries and helps users design next generation sequencing strategies to meet their project needs. He also implements new technologies and develop new protocols in NGS. Particularly, he established single cell RNA sequencing library protocols for FACS sorted cells and Fluidigm C1 captured cells.

Christine Daugherty, MS, Laboratory Services Coordinator, earned her MS in Molecular Genetics from Ohio State. She has more than 24 years of experience in molecular biology, sequencing, and genotyping research and analysis. Her expertise includes Sanger-based DNA sequencing and genotyping on ABI PRISM 3730 DNA Analyzers as well as PCR and real-time PCR for both TaqMan and SYBR Green chemistries, and the Nanostring and Fluidigm platforms.

Vincent Magrini

Vincent Magrini, PhD, Technical Director at Nationwide Children's Hospital, graduated from the University of Idaho in 1999 (Microbiology, Molecular Biology and Biochemistry). Dr. Magrini joined Washington University School of Medicine in 1999 as a postdoctoral fellow in the Department of Molecular Microbiology.  He transitioned into genomics under the guidance of Dr. Elaine Mardis, and in 2012, he was named the director of the Technology Development group at what had become the Genome Institute at Washington University (formerly GSC), and was promoted to research assistant professor. He joined the Institute for Genomic Medicine (IGM) at Nationwide Children’s Hospital in October 2016, where he is a principal investigator II in the IGM, and is appointed as research assistant professor of Pediatrics at the Ohio State University College of Medicine. He is currently in charge of technology and applications development team within the IGM with the focus to evaluate/develop instrumentation and methodologies for the transition of NGS excellence into IGM’s Clinical and Research programs

Jennifer Mele, BS, Laboratory Services Coordinator, earned her degree from the State University of NY College at Oswego and has more than 22 years of research experience in academia, government and private industry. She was licensed to teach Life Science, grades 7-12 in Ohio. Jennifer has experience in a wide range of technologies including immunohistochemistry, laser capture microdissection, flow cytometry and cell sorting. Specifically in molecular biology, her experience includes DNA and RNA isolation and purification, PCR and real-time quantitative PCR for both TaqMan and SYBR Green chemistries, data analysis, Sanger Sequencing, genotyping, as well as Nanostring technologies.

Jenny Panescu, MS (anticipated 2018), Laboratory Services Coordinator, earned a BS in microbiology and is currently pursuing an MS in environmental science. Jenny is an Ohio State University alumna and has over 17 years of experience in Sanger and NG Sequencing and library preparation, fragment analysis, environmental microbiology and microbial enumeration, anaerobic culturing, bacterial genetic and metabolic studies, laser confocal microscopy, and laboratory management and safety.

Huabao Wang, BS, Laboratory Services Coordinator, has over 10 years of experience in preparing several forms of barcoded sequencing libraries including whole transcriptome, miRNA and targeted genomic DNA libraries. She has run multiple platforms for the Affymetrix microarray and different chips and tapes to check RNA and DNA quality in the GSR. She also has generated custom miRNA microarrays in the core laboratory. More recently, she has been trained to run high throughput PCR machine.

Contact Us

OSUCCC – Genomics Shared Resource

Biomedical Research Tower
460 W. 12th Ave.
2nd Floor BRT236, BRT240, BRT285, and BRT291
Columbus, OH 43210

Phone: 614-685-9254

Email: Amanda.Toland@osumc.edu

Email: Christine.Daugherty@osumc.edu

Availability: Monday – Friday
Hours:  8:30 a.m. – 5 p.m. or by appointment

Next-Generation Sequencing Library Preparation

Biomedical Research Tower
460 W. 12th Ave.
Rooms 285 and 291
Columbus, OH 43210

Phone: 614-685-9164

Email: Pearlly.Yan@osumc.edu

Email: Amanda.Toland@osumc.edu

Availability: Monday – Friday
Hours:  8:30 a.m. – 5 p.m. 

Quantitative Real-Time PCR/Gene Expression

Biomedical Research Tower
460 W. 12th Ave., Rooms 236 and 240
Columbus, OH 43210

Phone: 614-685-5810
614-685-2224

Email: Amanda.Toland@osumc.edu

Email: Paolo.Fadda@osumc.edu

Availability: Monday – Friday
Hours: 8:30 a.m. – 5 p.m.

Affymetrix Gene Expression/Quality Control

Biomedical Research Tower
460 W. 12th Ave., Room 240
Columbus, OH 43210

Phone: 614-688-5810
614-688-5810

Email: Amanda.Toland@osumc.edu

Email: Paolo.Fadda@osumc.edu

Availability: Monday – Friday
Hours: 8:30 am – 5 pm

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