ALERT

In observance of US Thanksgiving holiday, Agilent Cross Lab iLab Operations Software will be closed during US hours on Thursday November 23rd and Friday November 24th, 2017. EU and APAC support coverage will remain open during this time. We will resume US support hours on Monday November 27th, 2017. For urgent matters, please add "URGENT" to the ticket subject and these requests will be prioritized first.

SKCCC Next Generation Sequencing Core

 

The Next Generation Sequencing Center (NGSC) is a member of the new Experimental and Computational Genomics Core (ECGC) at SKCCC. The NGSC, Microarry Core, and Bioinformatics core have come together to provide integrated services and educational appropriates for the Johns Hopkins University and cancer center members.

 

Overview of Services

We want to make sure that your experiment is done well, from the design stage through sequencing and then analysis.

We try to support any research project. Some common applications include:

  • Human exome sequencing
  • ChIP-sequencing
  • RNA-seq
  • DNA methylation analysis
  • Eukaryotic and microbial whole genome sequencing
  • microRNA sequencing
  • Diverse array of custom projects

 

We can also handle a variety of purely computational requests on a fee-for-service basis.

Please got to our FAQ page for more detailed information.

While we prioritize projects from Cancer Center labs; we efficiently address projects from any other Johns Hopkins investigators.

More information about the core can be found on our website: http://ngsc.onc.jhmi.edu/.

 

Our Goals:
Innovation
Flexibility
Completeness

Personnel:

Vasan Yegnasubramanian, MD, PhD, Facility Director

Sarah Wheelan, MD, PhD, Bioinformatics Director

Lauren Ciotti, Communications Associate

Jennifer Meyers, Lab Manager

Michael Rongione, MS, Lab Technician

Alyza Skaist, MS, Bioinformatics Analyst

Anuj Gupta, MS, Bioinformatics Analyst

 

Location and hours of operation

Hours Location

8:30 - 5pm

Monday - Friday

Excluding Holidays

1550 Orleans St. CRB-II, Room 131

Baltimore, Maryland 21231

 

Consultation meetings are on Friday mornings from 10AM to 12Noon in CRB1, 192.

Sample drop-off times are on Tuesday and Thursday from 10AM to 11AM and 1PM to 2PM.

   

 

Contacts

Name Role Phone Email Location
Lauren Ciotti
Project Coordinator
 
443-287-7341
 
nextgenseq@jhmi.edu
 
CRB2 142
 

Service List


Search available services: View: by category alphabetically
Bioinformatics (1)
Custom Library (4)
Illumina Sequencing (10)
Service (12)


Members at Mid-Atlantic Shared Services Consortium

Core Name Primary Contact Email Phone Number/Ext
Biostatistics and Bioinformatics Shared Service

State-of-the-art statistical science, expert statistical analysis and sound statistical reporting

Susan Holt sholt@som.umaryland.edu (410) 706-8505
Confocal Microscopy Core

Equipment and expertise to assist investigators in applying advanced fluorescence microscopy techniques to their research.

Joseph Mauban, PhD jmauban@som.umaryland.edu 410-706-6170
Core for Translational Research in Imaging (CTRIM)

State-of-the-art technology for animal imaging at the molecular, cellular and systemic level. Services for in-vivo and ex-vivo cross-sectional and functional imaging using MRI, MR-g-FUS, PET, and CT.

Jiachen Zhuo jzhuo@umm.edu (410) 328-6443
Electron Microscopy Core Imaging Facility

‌‌‌‌‌Transmission Electron Microscope, Scanning Electron Microscope, SEM CryoTransfer & Chamber, High Pressure Freezer, Freeze Substitution System, Grid Plunger, CryoUltramicrotome, Gatan 626 cryo holder

Ru-Ching Hsia, PhD rhsia@umaryland.edu 410-7067992
Flow Cytometry Core

Sample acquisition on three analytical flow cytometers, expert data analysis, experimental planning and consultation and perform cell sorting on two high speed cell sorters.</p>

Karen Underwood, BS Flowcore@som.umaryland.edu 410-706-2173
Genomics Core Facility - Formerly Biopolymer Core Facility

DNA Sequencing, Cell Line Authentication, Gene Expression Microarray, Genotyping and more

Nicholas Ambulos, PhD nambulos@som.umaryland.edu 410-706-60665
Mass Spectrometry Center

Strives to accelerate discovery by providing investigators, on campus and beyond, access to cutting-edge technologies in mass spectrometry. Expetise from basic biology and medicine to technology development and translational research

Maureen A. Kane mkane@rx.umaryland.edu 410-706-5097
Pathology Biorepository Shared Service (PBSS)

Provides the collection of high quality banked patient samples while maintaining patient confidentiality. PBSS also provides pathology, histology, & histotechnology consultation services to assist principal investigators in the procurement, analyses, & clinicopathologic correlation of human tissue

Ashley Cellini, P.A. (ASCP) acellini@som.umaryland.edu 410-706-2174
Translational Laboratory Shared Service (UMGCC)

Pre-clinical and clinical experimental support to basic researchers and physicians. We work in areas across the entire spectrum: cell biology, in vitro, in vivo and human trials.

Rena Lapidus, PhD RLapidus@som.umaryland.edu 410-328-8092
Core Name Primary Contact Email Phone Number/Ext
Non-iLab, JHU SKCCC Core Facilities

Jeff Smith smithje@jhmi.edu
SKCCC IRAT Core (Image Response Assessment Team)

Michael Jacobs mjacobs8@jhmi.edu
SKCCC Immune Monitoring Core (formerly Human Immunology)

Christopher Thoburn cthoburn@jhmi.edu 410-955-8568
SKCCC Specimen Accessioning Core

Robin Stewart rstewa43@jhmi.edu 410 502-0674
SKCCC Analytical Pharmacology Core

Michelle Rudek Mrudek2@jhmi.edu 410-614-6321
SKCCC Animal Resources

Eric Davis edavisa@jhmi.edu 410-502-9544
SKCCC Cell Imaging Facility

Lillian Dasko-Vincent ldaskov1@jhmi.edu 410-614-4414
SKCCC Common Equipment Core

Eric Davis edavisa@jhmi.edu
SKCCC Cytogenetics Core Facility

Laura Morsberger lmorsber@jhmi.edu
SKCCC Experimental Irradiator Core

Esteban Velarde evelard2@jhmi.edu
SKCCC Flow Cytometry Core

Julie Nauroth jnaurot1@jhmi.edu 443-287-3952
SKCCC Microarray Core

Wayne Yu wyu8@jhmi.edu 410-502-7970
SKCCC Next Generation Sequencing Core

Lauren Ciotti nextgenseq@jhmi.edu 443-287-7341

University of Virginia

Core Name Primary Contact Email Phone Number/Ext
Advanced Microscopy Facility Stacey Criswell sjm7r@virginia.edu 434-924-2524
BioNMR Facility
Biomolecular Analysis Facility
Biorepository and Tissue Research Facility (BTRF) Craig Rumpel, MS crumpel@virginia.edu 434-982-6453
Flow Cytometry Core Facility FCCF Core Email fccf-staff2@virginia.edu
Genetically Engineered Murine Model (GEMM) Core
Merry X-Ray Leslie Yowell lfy8p@virginia.edu (434) 243-6051
Metabolomics Lipidomics Shared Resource Todd Fox tfox@virginia.edu 434-297-6516
MolMart & Tissue Culture Facility Linda Beggerly lkb7h@virginia.edu 434 924 9211
Molecular Electron Microscopy Core Kelly Dryden kdryden@virginia.edu 434.982.0525
Molecular Imaging Core Jack Roy jrr5a@virginia.edu (434) 243-9232
Office of Research Core Administration Alicia Johnson af7sb@virginia.edu 434-982-6565
SOM Clinical Research Unit (CRU)
Stem Cell Core Arazdordi Toumadje AT5KH@virginia.edu 434-297-5302
Surgical Skills Training Center Dana Davis Sikon dds4g@eservices.virginia.edu 434-924-6854