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http://www.genetics.pitt.edu

Offers high throughput genomics services, technical expertise and support with experimental design and protocol development. Includes Nucleic Acid Services, genetic and genomic DNA analysis with sequencing available in standard, high-throughput and next-generation formats, Genome-wide MicroArray or RNA-seq and targeted RNA analysis, Next Generation Sequencing,Drop Seq.

Proper citation: Pittsburgh University HSCRF Genomics Research Core Facility (RRID:SCR_018301) Copy   

•   Source: SciCrunch Registry

https://www.zmb.uzh.ch/en.html

Advanced imaging facility providing various imaging techniques in microscopy. Focus is on techniques, instrumentation and know-how in electron and light microscopy including preparation.

Proper citation: University of Zurich Center for Microscopy and Image Analysis Core Facility (RRID:SCR_019115) Copy   

•   Source: SciCrunch Registry

http://pan.stanford.edu

Offers instrumentation and technical capabilities and plays significant consultative role in application of these technologies to basic science projects.Genomic Services include Oligo Synthesis,Gene Expression,Real-Time PCR,PyroSequencing,Next-Generation Sequencing (NGS),DNA Sequencing (Sanger)/Fragment AnalysisSingle Cell Genomics,RNA-DNA QC - Bioanalyzer and Fragment Analyzer QC.Protein Services include Peptide Synthesis,Mass Spectrometry,Protein Analytics - Mass Mapping/Edman Sequencing,Surface Plasmon Resonance (Biacore).

Proper citation: Stanford University School of Medicine Protein and Nucleic Acid Core Facility (RRID:SCR_018668) Copy   

•   Source: SciCrunch Registry

http://www.med.uvm.edu/mic

Core provides imaging equipment including JEOL 1400 transmission electron microscope with AMT 11 megapixel digital camera,JEOL JSM 6060 scanning electron microscope with attached Oxford INCA energy dispersive spectroscopy detector for element analysis,Nikon Air HD confocal scanning laser microscope, Nikon C2 confocal scanning laser microscope, Andor Spinning Disk confocal microscope, Zeiss LSM 7 Multiphoton confocal microscope, Nikon STORM super-resolution light microscope, Olympus BX50 research microscope for transmitted light, phase contrast, and epi-fluorescence microscopy, Asylum Research MFP-3D BIO atomic force microscope, Asylum Research Cypher Environmental atomic force microscope,Arcturus XT-Ti Laser Capture Microdissector system, Olympus IX70 inverted microscope with associated Applied BioPhysics Electri Cell-Substrate Impedance Sensing (ECIS Ztheta) system, Leica VERSA 8 whole slide imager, Dell workstations containing Molecular Devices MetaMorph image analysis software for complex quantitative image analysis, Indica Labs HALO software, Improvision Volocity, MBR StereoInvestigator.

Proper citation: Vermont University Larner College of Medicine Microscopy Imaging Center Core Facility (RRID:SCR_018821) Copy   

•   Source: SciCrunch Registry

https://www.albany.edu/genomics/microarray-ngs.html

Provides services for DNA microarrays for large scale analysis of gene expression,gene regulation, exon splicing, epigenetics. Provides instrumentation for scanning of protein arrays.Offers services in RNA sequencing, ChIP-seq, ChIRP-seq, metagenomics and miRNA sequencing.Provides bioinformatics tools for analysis of results of microarray and sequencing experiments. Houses Illumina Nextseq500 and Ion PGM platforms for next generation sequencing. Provides instruments for Next gen sequencing including Illumina, MinIon, Wafergen-Takara, 10x genomics and for DNA microarrays including Affymetrix, Agilent.

Proper citation: University at Albany SUNY Center for Functional Genomics Microarray and Next Gen Sequencing Core Facility (RRID:SCR_018262) Copy   

•   Source: SciCrunch Registry

http://nemoursresearch.org/cores/bcl/

Develops research projects in pediatric genetics and provides essential services in molecular biology and genetics to Nemours clinicians and research staff and to affiliates researchers of University of Delaware and Thomas Jefferson University. Resource for staff of Alfred I. duPont Hospital for Children, Nemours affiliates, COBRE / INBRE investigators and outside customers. Offers expertise in molecular genetics and genomics. Operates according to policies set forth by federal CLIA standards.Services provided include Ion Torrent PGM Next Generation Sequencing, QuantStudio (QS) 3D Digital PCR, Cell Line Authentication, Nucleic Acid Quality Number (AATI Fragment Analyzer),Genotyping including Allelic Discrimination Probes (SNP Real-Time PCR), Affymetrix Microarray (CNV CytoScan, SNP arrays), Fragment Analysis (Capillary Electrophoresis up to 1200 bp), DNA Sequencing (Sanger Sequencing), Expression Analysis including Affymetrix Microarray (global gene expression, transcriptome assays), Pathway-focused Real-Time qPCR (mRNA and miRNA). Shared Instrumentation including Beckman Biomek 3000 Liquid Handler, NanoDrop 2000c, ABI7900 384-well Real-Time Genetic Analyzer, PCR Tamer, Thermocyclers.

Proper citation: Nemours Biomolecular Core Facility (RRID:SCR_018265) Copy   

•   Source: SciCrunch Registry

https://www.colorado.edu/center/stemtech/

Shared facility provides space for culturing human induced plurupotent stem cells on second floor of Porter Biosciences. Provides biosafety cabinets,CO2 and variable oxygen control incubators, inverted phase contrast microscopes, and sterile dissection hood equipped with dissecting microscope and heated stage,inverted fluorescence microscopes with live-cell time-lapse capabilities, centrifuges, liquid nitrogen cryostorage space, refrigerators, freezers, water baths, dedicated bioengineering space, and viral expression core. Routine mycoplasma testing is performed in-house and karyotyping services are carried out via contract.

Proper citation: Colorado University at Boulder Stem Cell Research and Technology Resource Center Core Facility (RRID:SCR_018994) Copy   

•   Source: SciCrunch Registry

http://www.bioinformatics.org/go2msig/

THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 24, 2020. Software tool as automated Gene Ontology based multi species gene set generator for gene set enrichment analysis. Used to generate gene sets required for Gene Set Enrichment Analysis for almost any organism for which GO term association data exists.
Gene set collections can be automatically created for wide variety of species.

Proper citation: GO2MSIG (RRID:SCR_018359) Copy   

•   Source: SciCrunch Registry

https://jcesom.marshall.edu/research/office-of-research-and-graduate-education/core-facilities/genomics/

Core provides services including high throughput next generation sequencing (NGS) to support whole genome, whole exome, RNA-Seq, single cell RNA-Seq, microbiome and global chromatin and methylation studies, biostatistical and bioinformatic support for NGS projects, access to DNA/RNA sequence analysis software, automated Sanger DNA sequencing, genotyping and RNA/DNA quality assessment, access to shared instrumentation such as plate readers, real time thermal cyclers, Agilent Bioanalyzers, fluorimeters, and spectrophotometers.

Proper citation: Marshall University School of Medicine Genomics Core Facility (RRID:SCR_018885) Copy   

•   Source: SciCrunch Registry

https://bioconductor.org/packages/FlowSorted.Blood.450k/

Illumina HumanMethylation data on sorted blood cell populations.

Proper citation: FlowSorted.Blood.450k R package (RRID:SCR_018003) Copy   

•   Source: SciCrunch Registry

https://med.virginia.edu/gatc/

Core offers instrumentation and expertise in all areas of bulk and single cell NGS genomics and transcriptomics, as well as training to access core shared instrumentations. Services include RNA Seq, CHIP Seq, ATAC Seq, Amplicon DNA Seq, 16S ribosomal gene sequencing, shot gun sequencing for small genomes and whole exome sequencing.10X Genomics resources include single cell CNV, VDJ, and 3 or 5 RNA seq as well as linked reads.Core provides real time and droplet digital PCR services most suitable for targeted gene expression, SNP genotyping and CNV discovery.

Proper citation: Virginia University School of Medicine Genome Analysis and Technology Core Facility (RRID:SCR_018883) Copy   

•   Source: SciCrunch Registry

https://education.musc.edu/colleges/medicine/departments/pharmacology/redox-center/cores/bioenergetics-profiling-core

Core provides several technologies that enable researchers to quantify fluxes of these metabolic reactions in cells, tissues, organoids and small animal models such as zebrafish embryos and nematodes.Technologies include high resolution respirometry using XF technology from Seahorse Biosciences/Agilent. Instrumentation utilizes 96-well microplates to provide sufficient sample numbers to provide flux profiles of glycolysis, mitochondrial respiration, fatty acid oxidation, glutamine utilization and other related metabolic processes. Rapid, high-throughput imaging optimized to XF plate architecture provides normalization of cell/tissue numbers, health, and other.Provides training, data analyses support and aid in experimental design.

Proper citation: South Carolina Medical University Bioenergetics Profiling Core Facility (RRID:SCR_017953) Copy   

•   Source: SciCrunch Registry

https://biomedicalsciences.unimelb.edu.au/departments/department-of-biochemistry-and-pharmacology/research/services/bomp

Core provides access to fluorescence microscopy equipment including Deltavision OMX Blaze Super Resolution (3D-SIM/SMLM), Leica SP8 inverted confocal, La Vision Ultramicroscope II Lightsheet Microscope,Nikon Andor WD spinning disk, Nikon A1R inverted confocal x2, Olympus FV-MPERS Multi Photon,Olympus FV3000 inverted confocal (live cell) ISS Fast-FLIM, Perkin Elmer Operetta High Content Imaging, Zeiss LSM800 upright Airyscan, Zeiss LSM880 upright Airyscan fast, Zeiss Elyra/LSM880 inverted (live cell), super resolution (Airyscan/SMLM). Staff can help with image analysis, super resolution microscopy, fluorescence lifetime imaging microscopy, high content imaging and light sheet microscopy techniques.

Proper citation: University of Melbourne Biological Optical Microscopy Platform (BOMP) Core Facility (RRID:SCR_018888) Copy   

•   Source: SciCrunch Registry

https://www.colorado.edu/facility/biokem/

Provides single particle cryo EM and cryo tomography of plunge frozen samples. Using Titan Krios G3i for high resolution data collection on Gatan K3 Direct Detection Camera facility is able to offer data collection at atomic level resolution.Facility uses Serial EM for SPA and cryo-ET data acquisition.

Proper citation: Colorado University at Boulder BioChemistry Krios Electron Microscopy Core Facility (RRID:SCR_019057) Copy   

•   Source: SciCrunch Registry

http://www.genepi.org.au/jlin

Software application designed for customizable, intuitive visualisation of LD analysis across all common computing platforms. Customisation allows the researcher to choose particular visualisation, statistical measures and measurement ranges. JLIN also allows the researcher to export images of the LD visualisation in several common document formats. As there appears to be no single best measure of LD under all possible circumstances, JLIN allows the researcher to visually compare and contrast the results of a range of statistical measures on the input data set(s). These measures include the commonly used D'' and R2 statistics and empirical p-values. New additions include calculation of HWE, a completely revamped interface, and a numer of minor bug fixes. We have added a display measure to show marker distances visually, embedded fonts to improve image clarity and additional LD measures including d,OR,Pexcess and Q. (entry from Genetic Analysis Software)

Proper citation: JLIN (RRID:SCR_009247) Copy   

•   Source: SciCrunch Registry

http://www.joinmap.nl/

Software application for construction of genetic linkage maps for several types of mapping populations: BC1, F2, RILs, (doubled) haploids, outbreeders full-sib family. Can combine (''join'') data derived from several sources into an integrated map. Further: linkage group determination, automatic phase determination for outbreeders full-sib family, several diagnostics, and map charts. Everything available in an intuitive MS-Windows user interface. (entry from Genetic Analysis Software)

Proper citation: JOINMAP (RRID:SCR_009248) Copy   

•   Source: SciCrunch Registry

https://mathgen.stats.ox.ac.uk/impute/impute.html

Software application for estimating (imputing) unobserved genotypes in SNP association studies. The program is designed to work seamlessly with the output of the genotype calling program CHIAMO and the population genetic simulator HAPGEN, and it produces output that can be analyzed using the program SNPTEST. (entry from Genetic Analysis Software)

Proper citation: IMPUTE (RRID:SCR_009245) Copy   

•   Source: SciCrunch Registry

http://chgr.mc.vanderbilt.edu/ritchielab/method.php?method=mdrpdt

Software application (entry from Genetic Analysis Software)

Proper citation: MDR-PDT (RRID:SCR_009243) Copy   

•   Source: SciCrunch Registry

http://intersnp.meb.uni-bonn.de/

Software application for genome-wide interaction analysis (GWIA) of case-control SNP data. SNPs are selected for joint analysis using a priori information. Sources of information to define meaningful strategies can be statistical evidence (single marker association at a moderate level, computed from the own data) and genetic/biologic relevance (genomic location, function class or pathway information). (entry from Genetic Analysis Software)

Proper citation: INTERSNP (RRID:SCR_009244) Copy   

•   Source: SciCrunch Registry

http://www.chgb.org.cn/htSNPer/htSNPer.html

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 4, 2023.Java program for characterizing the haplotype block structure and selecting haplotype tagging SNP (entry from Genetic Analysis Software)

Proper citation: HTSNPER (RRID:SCR_009242) Copy   

•   Source: SciCrunch Registry