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All Facilities >> University of Rhode Island >> RI-INBRE Molecular Informatics Core (Data Science)
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7 Greenhouse Road, College of Pharmacy
Kingston, RI 02881
United Stateshttps://web.uri.edu/riinbre/mic/cite this facility
Christopher Hemme
Last Updated: 05/19/2025
The RI-INBRE Molecular Informatics Core provides services in sequencing (Illumina MiSeq, Sanger), bioinformatics analysis, access to molecular modeling software, and development of virtual reality applications. We are an NIH Data Sciences Core for Biomedical Research serving the Rhode Island community and are able to provide services to both biomedical and environmental researchers.
is_active:
Yesbudget_end:
04/30/2025date_added:
05/11/2024agency_code:
NIHfiscal_year:
2024project_num:
2P20GM103430-24award_amount:
$210,658.00budget_start:
05/09/2024org_name:
UNIVERSITY OF RHODE ISLANDorg_state:
RIorg_country:
UNITED STATESorg_zipcode:
028810811primary_duns:
144017188abstract_text:
RI-INBRE Data Science – Molecular Informatics Core (MIC) Project Summary The overarching goal of the Rhode Island IDeA-Network of Biomedical Research Excellence (RI-INBRE) program is to improve institutional capacity for biomedical research excellence and student experiential training in the State of Rhode Island. The RI-INBRE Data Science – Molecular Informatics Core (MIC) provides biomedical data science services to RI-INBRE and the broader research community. In this renewal application, the MIC will restructure to reflect the expanded role of data science in biomedical research. The focus areas of the MIC will extend well beyond bioinformatics and include biomedical data science, next-generation sequencing, and 3D science visualization. Our model allows for future growth into new research areas, such as cloud computing and machine learning/artificial intelligence, to meet the current and future research needs of the RI biomedical community. We will provide bioinformatics and biomedical data science expertise, consulting, analysis, and training to investigators in and out of the RI-INBRE network. Given the rapid pace of emerging data science technologies, an essential goal of the MIC is to keep investigators and students informed of current technologies and methodologies via multiple outreach and training efforts. The MIC will collaborate with the RI- INBRE Centralized Research Core Facility to streamline and unify the omics data generation and analysis pipelines to increase efficiency and improve user experience. The MIC will serve as a liaison between users and other data science cores in the state and regional partners to ensure network investigators are apprised of available services and have access to a comprehensive slate of data science tools. These MIC initiatives will provide biomedical investigators with critical data science resources and training during the renewal period. This will promote biomedical research career development and collaborations that will fuel economic growth in the biotechnology, pharmaceutical, and life sciences industries in RI.project_title:
Data Science Corecontact_pi_name:
HEMME, CHRISTOPHER LEEtotal_cost:
$210,658.00Services are offerred outside of University of Rhode Island
Consulting is offerred outside of University of Rhode Island
Computational - Bioinformatics
Data Analysis And Interpretation
Genome/Transcriptome Assembly And Annotation
Applied Biosystems 3130 Genetic Analyzer
The Applied Biosystems® 3130 (4-capillary) Genetic Analyzer is an electrophoresis device for the low to medium throughput laboratories that provides industry-leading performance and sophisticated automation capabilities. It can run a wide variety of sequencing and fragment analysis applications including microsatellite analysis, AFLP, LOH, SNP validation, and SNP screening. Maintenance time is reduced by eliminating manual syringe washing and filling with automated polymer delivery. The 3130 can increase your data quality for sequencing and fragment analysis applications – longer read length, and higher resolution with shorter run times. The 3130 can increase laboratory productivity and turnaround time by processing 96- or 384-well plates with a four-capillary array. [Product Link]
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BioAnalyzer 2100
2100 Bioanalyzer system is an established automated electrophoresis tool for the sample quality control of biomolecules. The 2100 Bioanalyzer instrument, together with the 2100 Expert Software and Bioanalyzer assays, provide highly precise analytical evaluation of various samples types in many workflows, including next generation sequencing (NGS), gene expression, biopharmaceutical, and gene editing research. Digital data is provided in a timely manner and delivers objective assessment of sizing, quantitation, integrity and purity from DNA, RNA, and proteins. Minimal sample volumes are required for an accurate result, and the data may be exported in a many different formats for ease-of-use. [Product Link]
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Illumina MiSeq System
Access focused applications such as targeted resequencing, metagenomics, small genome sequencing, targeted gene expression profiling, and more. MiSeq reagents enable up to 15 Gb of output with 25 million sequencing reads and 2 × 300 bp read lengths. [Product Link]
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We have access to the URI Bluewaves computing cluster and cloud resources for larger scale bioinformatics analyses.
We have a small lab with two PC's and 3 laptops used for molecular modeling (2 Spartan licenses, 2 Molecular Operating Environment licenses) and VR/AR app development (HTC Vive, HTC Cosmos, Looking Glass holodisplay, etc). We also have access to the College of Pharmacy 3D printer for printing of macromolecule structures.
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https://www.coremarketplace.org/?FacilityID=3Institution
Institution ROR ID: https://ror.org/013ckk937Keywords:
Analysis, interpretation, nucleotide, amino acid, sequence, protein, domain, structure, service, 3D visualization, modeling, USEDit
Resource Type:
access service resource, core facility, service resource
Citation:
Rhode Island INBRE Molecular Informatics Core Facility (RRID:SCR_017685)
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Cell Imaging
Cell Sorting
Flow Cytometric Analysis
Immunohistochemistry
Microscopy
Molecular Imaging
Nanosight Nanoparticle Analysis
Optical Imaging
Real-time qPCR
Shared Instrumentation Oversight & Maintenance
Biomolecular
Sunil Shaw
101 Dudley Street
Sunil Shaw, Kilguss -210
Providence, RI 02905 - United States of America
RRID:SCR_021348
We provide a multi-user facility, open to qualified academic scientists, fee for use.
This facility provides services outside its institution
This facility provides consulting outside its institution
07/12/2021
Mass Spectrometry
Proteomics
Proteomics
Nicholas DaSilva
Brown University
70 Ship Street, 3rd Floor
Providence, RI 02903 - United States of America
RRID:SCR_017910
The LC/MS Proteomics Core Facility‘s (PCF) mission is to provide well-maintained, state-of-the-art instrumentation and fundamental proteomics expertise to the Brown University and Rhode Island scientific communities. We aim to be a focal point of intellectual activity in proteomics by enabling nationally recognized proteomics research within Rhode Island. We welcome inquiries from scientists and teachers seeking information regarding how we may assist them in furthering their research and educational goals. The facility‘s function is catalyzed by its Administrative Directors, Faculty advisor, responsible Facility Director, and a knowledgeable advisory committee. Together their research interests are based on the pursuit and implementation of proteomics approaches to biological inquiry.
As an NSF EPSCoR-funded laboratory, the Proteomics Facility has a broadly inclusive philosophy to ensure rapid and equal access to the facility‘s services for the entire Rhode Island research community. In addition to the acquisition of new instrumentation, the Proteomics Core Facility will undertake research in emerging proteomic techniques to maintain a productive and professional level of service. The PCF has a strong commitment to be at the leading edge of current and developing technologies and provides consultative services to users.
This facility provides services outside its institution
This facility provides consulting outside its institution
10/10/2024
BioBanking
Biorepository
Garrett Sullivan
Brown University Box B-G203
Providence, RI 02912 - United States of America
https://www.brown.edu/research/facilities/rhode-island-biobank/
RRID:SCR_004289
The Rhode Island Biobank is a state of the art cryogenic facility for human tissue and fluid samples located at Brown University in Providence, RI. It is a core facility under the management of the Division of Biology & Medicine and supports biomedical research on the Brown campus and across the affiliated hospitals of the Warren Alpert Medical School.
The mission of the Rhode Island BioBank is to provide a secure, centralized biorepository and bioregistry for tissues and fluids that will be available for biomedical research by investigators at Brown University, local area hospitals and beyond.
This facility does not provide services outside its institution
This facility does not consult outside its institution
07/20/2020
Amino Acid Analysis
Cell Imaging
Data Analysis
DNA Analysis
Flow Cytometric Analysis
Genomics
Microarray
PCR Arrays
Real-time qPCR
RNA analysis
RNA Integrity
Sequencing - Capillary Sequencing
Sequencing - DNA Sequencing
Sequencing - Next Generation Sequencing (NGS)
Western Blot
Christoph Schorl
70 Ship Street, Room 109
Providence, RI 02912 - United States of America
The Genomics Core Facility, located at 70 Ship Street, Room 109, provides state-of-the-art genomics and proteomics equipment and services to researchers at Brown University, the entire Rhode Island research community and external customers.
The facility offers DNA/RNA shearing, sample QC, Affymetrix microarray, qPCR services and provides assistance with experimental design, trouble shooting, and data analysis. Please see our menu for detailed information on the services offered, instruments available and current rates.
The core is available to students, staff and faculty at Brown as well as researchers from RI-EPSCoR institutions. Training is provided for new users. We welcome investigators to contact us regarding our services.
This facility provides services outside its institution
This facility provides consulting outside its institution
04/05/2017
Cell Sorting
Flow Cytometric Analysis
Kevin Carlson
171 Meeting Street
BMC Room 602
Providence, RI 02912 - United States of America
https://www.brown.edu/research/facilities/flow-cytometry-and-sorting/home
RRID:SCR_017886
The purpose of this facility is to provide technical assistance to Brown researchers by performing flow cytometry-based analysis and sorting. The facility has a 4-laser, 19-parameter BD FACSAria III for flow and sorting applications.
This facility provides services outside its institution
This facility provides consulting outside its institution
04/04/2017
Nuclear Magnetic Resonance (NMR)
X-ray Diffraction and Scattering
Mandar Naik
70 Ship Street, Floor 1
Providence, RI 02903 - United States of America
https://www.brown.edu/research/facilities/structural-biology/
RRID:SCR_017900
The Structural Biology Core Facility at Brown University provides state-of-the art equipment for researchers at Brown University and the surrounding area. Our instruments can be used for structural modeling in crystals and in solution, using X-ray diffraction and scattering, as well as magnetic resonance.
This facility provides services outside its institution
This facility provides consulting outside its institution
04/04/2017
Confocal Microscopy
Electron Microscopy
Multiphoton Microscopy
Geoff Williams, Manager
Room 121, Sidney Frank Hall
Providence, RI 02912 - United States of America
RRID:SCR_017861
The Leduc Bioimaging Facility, open to all investigators, provides equipment and training dedicated to high-resolution imaging in the life sciences. The facility includes a Transmission Electron Microscope, a Scanning Electron Microscope, two Fluorescence Microscopes, a Fluorescence Stereomicroscope, three Confocal Laser Scanning Microscopes, a Multiphoton Microscope, and software for image analysis. The facility also maintains equipment for sample preparation, including a critical point dryer, sputter coater, and microtomes for ultrathin sectioning.
This facility provides services outside its institution
This facility provides consulting outside its institution
04/03/2017
Assays and Measurements
BioBanking
DNA Analysis
Histology
Immunohistochemistry
Laser Capture Microdissection
Microscopy
Nucleic Acid Extraction
Optical Imaging
PCR Arrays
Real-time qPCR
RNA analysis
RNA Integrity
Shared Instrumentation Oversight & Maintenance
Laura Gantt
Aldrich 611, 593 Eddy St.
Providence, RI 02903 - United States of America
http://www.rhodeislandhospital.org/RIH/Services/COBRE/Cores/MolePath/default.htm
RRID:SCR_023490
Our core provides specialty immunohistochemical services, instrumentation, training and support personnel for the research efforts of the COBRE CCRD mentors and their junior associates as well as the academic community at large. We are located on the sixth floor of the Aldrich Building within the main campus of Rhode Island Hospital. Our equipment includes an ArcturusXT laser capture microdissector, Stratagene MX3005p realtime PCR instrument, BioRad iCycler, Agilent Bioanalyzer, Olympus fluorescence-capable microscope with image analysis software, Ventana Discovery immunohistochemistry processor, microtome, cryostat, Beecher tissue arrayer and Aperio ScanScope. Our tissue bank has 40 cu ft of ultra-low freezer space and provides human tumor tissue samples to all interested investigators who have received IRB approval for academic testing and research.
This facility provides services outside its institution
This facility does not consult outside its institution
04/19/2023
Computational - Bioinformatics
Data Analysis
Genomics
Mass Spectrometry
Protein Extraction/Purification
Proteomics
SDS-PAGE
Sequencing - Capillary Sequencing
Sequencing - Protein Sequencing
Spectroscopy
Western Blot
Dennis Pantazatos
RI Hospital COBRE CCRD Proteomics
Coro Ctr., One Hoppin St., Ste. 4.206
PROVIDENCE, RI 02903 - United States of America
http://www.lifespan.org/rih/services/cobre/cores/proteomics/
The COBRE cancer research Development Proteomics Core facility by assists investigators in choosing appropriate methods and techniques for specific research objectives utilizing current state of the art methods in mass spectrometry for protein Identification, comparative proteomics, structural protemics, molecule profiling of tissues and MALDI mass spectrometry imaging.
Investigators have the opportunity to become directly involved in protein analysis at a level not possible with commercial suppliers such as mass spectrometry methods in characterizing and identifying protein structural dynamics at high resolution utilizing deuterium exchange mass spectrometry. The center provides service in label free quantitation, data interpretation, manuscript preparation and experimental design.
This facility provides services outside its institution
This facility does not consult outside its institution
05/23/2012
Assays and Measurements
Atom Probe Tomography
Biochemical Analysis
Cell Culture
Cell Imaging
DNA Analysis
Microscopy
Molecular Imaging
Multiphoton Microscopy
Optical Imaging
Phosphor Imaging
Real-time qPCR
RNA analysis
SDS-PAGE
Tissue Culture
Western Blot
Qian Chen, Ph.D.
1 Hoppin St.
Coro West, Suite 402A
Providence, RI 02903 - United States of America
The COBRE for Skeletal Health and Repair in the Rhode Island Hospital enables clinicians and basic scientists, engineers and biologists to work side-by-side on multidisciplinary research, helping us to better understand cartilage and joint health mechanisms and develop strategies for the prevention and treatment of skeletal joint diseases.
Specific Aims:
-Provide sophisticated, state-of-the-art instrumentation in microscopic imaging and molecular analysis to different projects in the COBRE.
-Provide technical support and expert consultation in tissue, cell, and molecular, analysis to multidisciplinary users including biologists, clinicians and engineers.
-Provide training of cutting edge techniques in molecular and morphological analysis to investigators for achieving specific research objectives.
-Facilitate collaborations among different laboratories and disciplines through utilizing common equipment and analyzing techniques.
This facility provides services outside its institution
This facility does not consult outside its institution
03/02/2012
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Facility Details
About This Facility
Services and Equipment
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