Curator Dashboard

Portal to discover COVID-19 open research data on Figshare. Figshare collection of COVID-19 related research data.

• Resource
• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

All Dimensions publications, datasets, and clinical trials related to COVID-19, updated daily.

• Resource
• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

Dataset of scholarly articles, including full text, on COVID-19, SARS-CoV-2, and related coronaviruses. Machine readable resource provided to enable application of natural language processing and other AI techniques. Open resource for global research community. Updated weekly as new research is published in peer-reviewed publications and archival services like bioRxiv, medRxiv, and others.

• Resource
• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

COVID-19 open access data and computational resources provided by federal agencies, including NIH, public consortia, and private entities. Continuously updated as more information becomes available. These resources are being shared for scientific and public health interests, and content is responsibility of resource organizers.

• Resource
• RRID-Legacy
• 7 years ago - submitted by Edyta Vieth

Portal to make cancer related proteomic datasets easily accessible to public. Facilitates multiomic integration in support of precision medicine through interoperability with other resources. Developed to advance our understanding of how proteins help to shape risk, diagnosis, development, progression, and treatment of cancer. One of several repositories within NCI Cancer Research Data Commons which enables researchers to link proteomic data with other data sets (e.g., genomic and imaging data) and to submit, collect, analyze, store, and share data throughout cancer data ecosystem. PDC provides access to highly curated and standardized biospecimen, clinical, and proteomic data, intuitive interface to filter, query, search, visualize and download data and metadata. Provides common data harmonization pipeline to uniformly analyze all PDC data and provides advanced visualization of quantitative information. Cloud based (Amazon Web Services) infrastructure facilitates interoperability with AWS based data analysis tools and platforms natively. Application programming interface (API) provides cloud-agnostic data access and allows third parties to extend functionality beyond PDC. Structured workspace that serves as private user data store and also data submission portal. Distributes controlled access data, such as patient-specific protein fasta sequence databases, with dbGaP authorization and eRA Commons authentication.

• Resource
• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Provides development and support of genomics-based research, serving investigators in Nevada and beyond. Staff can be contracted for select services including ABI 3130 DNA sequencing, BD FACSCalibur flow cytometry, Affymetrix microarray processing, Agilent 2100 Bioanalyzer analysis and Qubit analysis. Facility also provides equipment and training for real-time PCR, Western blot/gel/microarray scanning, and analysis of DNA, RNA and protein samples.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Contract Research Org. specializing in custom protein analysis. Services Provided include SDS PAGE analysis, Western Blotting, Mass Spectrometry, protein staining ( silver,coomassie) for academia, federal institutions and industry.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Core provides scientific consultation, training and access to shared biophysical equipment for characterization and analysis of macromolecules and their complexes. Facility includes instruments measuring molecular interactions and assessing protein quality by Isothermal Titration Calorimetry (ITC), Surface Plasmon Resonance (SPR), Biolayer Interferometry (BLI), MicroScale Thermophoresis (MST), Differential Scanning Fluorimetry (DSF), Circular Dichroism (CD), Analytical Size Exclusion Chromatography with Multi-Angle Light Scattering (SEC-MALS), and Dynamic Light Scattering (DLS).

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Shared use and training facility. Servies include Confocal Laser Scanning Microscopy, DIC (Differential Interference Contrast Microscopy), FCS (Fluorescence Correlation Spectroscopy), FLIP (Fluorescence-Loss-In-Photobleaching), FRAP (Fluorescence Recovery After Photobleaching),FRET (Fluorescence/ Forster Resonance Energy Transfer),Live-cell Imaging,Phase Contrast Microscopy,Widefield Fluorescence Microscopy,Image Processing and Analysis. Services include poster printing, and specimen preparation. Provides training for most instruments. Instruments include Leica DM6B Fluorescent Microscope (Hogan 5-112), Leica TCS SP8 Confocal Microscope (Hogan 5-128),Leica SP5 II Confocal Microscope (Hogan 5-114),Leica Spinning Disk Confocal Microscope (Hogan 5-113),DeltaVision Deconvolution Microscope (Hogan 5-111),Olympus IX83 Inverted Fluorescent Microscope (Silverman Hall 1-567),Olympus IX53 Inverted Color Microscope (Silverman Hall 1-567), LionHeart Automated Microscope BioTeck (Hogan 5-110).

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Facility offers Next-Generation Sequencing services, Sanger sequencing, Fragment Analysis, qPCR, data analysis. Provided services include DNA sequencing, fragment analysis, RNA, DNA, protein and cell cytometry through various equipment.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Provides services and instrumentation for characterization of biological macromolecules with technical and methodological expertise. Provides characterization of macromolecules including shape, folding, stability auto-association,and they interactions including stoichiometry,thermodynamic and kinetic parameters.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Core designed for immune monitoring services for clinical and translational studies. Goals include providing standardized, state-of-the art immune monitoring assays at RNA, protein, and cellular level, testing and developing new technologies for immune monitoring, archive, report, and mine data from immune monitoring studies. HIMC uses online database for integration of data from standard HIMC assays, along with de-identified clinical and demographic data.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

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.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Core offers services for genomic next-generation sequencing library preparation, sequencing and analysis applications including RNAseq, ChIPseq, ATACseq, CRISPR screening, whole genome methylation profiling, targeted resequencing, single-cell RNAseq, exome sequencing, and more. Performs bioinformatics analysis such as integration of multi-omics datasets or specialized analyses. Genomics core technology platforms include Illumina NovaSeq6000, NextSeq500s, MiSeqs, MiniSeq. High throughput sample preparation is performed on Beckman Coulter Biomek FX and i7 systems. Low throughput samples are prepared by technical staff.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Core services including UMass Oligo Discount Program which provides discounted oligos to researchers, Reagent Program offers discounted pricing on TAQMAN, qPCR reagents, enzymes, etc. from ThermoFisher (Life Technologies/Ambion), and Empirical Biosciences, Fragment Analyzer Service, Sequencing Library Preparation, Sanger Sequencing and GeneMapper/ARISA. Provides DNA fragment analysis, Genotyping, and SPR services on an ABI capillary sequencer, and DNA/RNA fragment analysis on the Advanced Analytical (Agilent) Fragment Analyzer.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

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.

• Resource
• SciCrunch
• 7 years ago - submitted by Edyta Vieth

Web service for prediction of SUMOylation sites and SUMO-interaction motifs in proteins by CUCKOO Workgroup.

• Resource
• RRID-Legacy
• 7 years ago - by Anonymous

Web provides tools for modeling 3D structures of molecules and complexes containing carbohydrates including oligosaccharide conformation modeling and glycoprotein 3D structure modeling. Used to simplify prediction of three dimensional structures of carbohydrates and macromolecular structures involving carbohydrates.

• Resource
• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Database of Immune Cell Expression, Expression quantitative trait loci (eQTLs) and Epigenomics. Collection of identified cis-eQTLs for 12,254 unique genes, which represent 61% of all protein-coding genes expressed in human cell types. Datasets to help reveal effects of disease risk associated genetic polymorphisms on specific immune cell types, providing mechanistic insights into how they might influence pathogenesis.

• Resource
• dkNET
• 7 years ago - submitted by Ko-Wei Lin

Consortium to unite efforts and resources from experts across globe to advance effective, antibody based therapies against novel coronavirus, SARS-CoV-2. Represents multidisciplinary convergence of structural biology, virologists, immunologists, clinicians and bioinformaticians from academic and industry settings. Collects antibodies for testing as part of CoVICS. Contributed antibodies are blinded and will only be known as code name. Antibody contributors will be able to see performance of their own molecules and take part in analysis. Contributors retain ownership of their antibodies and may continue to publish on them using original antibody names. Goal is to determine relative in vitro potency and in vivo efficacy using centralized standardized assays to identify best individual mAbs and rational combinations of mAbs. Consortium will recommend ideal therapeutic molecules for human use to protect vulnerable populations from COVID-19 disease. CoVIC database (CoVIC-DB) will serve as clearinghouse for monoclonal antibodies against SARS-CoV-2. Database will catalog contributed antibodies in searchable resource and provide interactive analysis tools for comparisons among them.

• Resource
• dkNET
• 7 years ago - submitted by Ko-Wei Lin