Curator Dashboard

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.

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• SciCrunch
• 6 years ago - submitted by Edyta Vieth

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

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• RRID-Legacy
• 6 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.

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• dkNET
• 6 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.

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• dkNET
• 6 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.

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• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Open Source software package for digital pathology image analysis. Used for whole slide image analysis and digital pathology. Provides researchers with batch processing and scripting functionality, and extensible platform with which to develop and share new algorithms to analyze complex tissue images.

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• RRID-Legacy
• 6 years ago - by Anonymous

Enables visualization, storage and sharing of large image data. Cloud based system by MBF Bioscience to help with data from 2D and 3D slide scanners, confocal Z-stacks, lightsheet whole brain images. System for data storage and management, data analysis and visualization. Data is stored in secure and permanent way. Available also is free application named Biolucida Viewer, for viewing public images or images shared by collaborators owning Biolucida.

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• RRID-Legacy
• 6 years ago - submitted by Maci Heal

Software R package for simultaneous inference in general parametric models. Offers interface to perform multiple comparisons in general context. Simultaneous tests and confidence intervals for general linear hypotheses in parametric models, including linear, generalized linear, linear mixed effects, and survival models.

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• RRID-Legacy
• 6 years ago - by Anonymous

Microvascular health measurement system that measures endothelial glycocalyx layer of vessels by MicroVascular Health Solutions. Software automatically identifies measurable micro vessels, below 30 µm thickness, during acquisition by contrast between RBC and background. After acquisition, software undergoes series of quality checks to measure vascular segments that are of good quality. Video microscope is placed under tongue, showing live movement of red blood cells as they travel through micro vessels.

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• RRID-Legacy
• 6 years ago - by Anonymous

Community portal for viral sequence data from RefSeq, GenBank and other NCBI repositories. Integrative, value added resource designed to support retrieval, display and analysis of curated collection of virus sequences and large sequence datasets. Used to increase usability of data archived in GenBank and other NCBI repositories.

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• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Software tool as interface to submit, serve, and analyze COVID19 related gene and drug sets. Collection of gene and drug sets related to COVID-19 research contributed by community.

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• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Portal to share hCoV-19 genome sequences. Collection of genome sequences and related clinical and epidemiological data associated with coronavirus hCoV-19. Global repository of SARS-CoV-2 genomes. Initiative involves public-private-partnerships between Freunde of GISAID and governments of Federal Republic of Germany, Singapore and United States of America, with support from private and corporate philanthropy.International database of hCoV-19 genome sequences and related clinical and epidemiological data. Resource for influenza and hCoV-19 data.

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• dkNET
• 6 years ago - submitted by Ko-Wei Lin

Software tool to calculate fraction of shared bound peptides between HLA proteins. Command-line tool to calculate fraction of shared bound peptides between HLA alleles from NetMHCpan binding predictions. Compares fraction shared between HLA allele and individual taking into account HLA and KIR genotypes.

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• SciCrunch
• 6 years ago - by Anonymous

Software tool for automatic generation of multiple 2D ligand-protein interaction diagrams from 3D coordinates. Diagrams portray hydrogen-bond interaction patterns and hydrophobic contacts between ligand(s) and main-chain or side-chain elements of protein. Used for drug discovery for analyzing series of small molecules binding to same protein target, single ligand binding to homologous proteins, or where both protein and ligand change.

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• RRID-Legacy
• 6 years ago - by Anonymous

Web tool for protein-protein docking. Server provides removal of unstructured protein regions, application of attraction or repulsion, accounting for pairwise distance restraints, construction of homo-multimers, consideration of small-angle X-ray scattering data, and location of heparin-binding sites. Six different energy functions can be used, depending on protein type.This protocol describes use of various options, construction of auxiliary restraints files, selection of energy parameters, and analysis of results.

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• RRID-Legacy
• 6 years ago - by Anonymous

Software tool for partition stLFR reads based on trio binning using prenatally unique markers. Haplotype resolved assembly for synthetic long reads using Trio-Binning strategy.

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• RRID-Legacy
• 6 years ago - submitted by Mengyang Xu

Software R package for species distribution modeling, calibration and evaluation, ensemble of models, ensemble forecasting and visualization.

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• RRID-Legacy
• 6 years ago - by Anonymous

Rsearch institute and university in Lausanne, Switzerland, that specializes in natural sciences and engineering. It is one of the two Swiss Federal Institutes of Technology, and it has three main missions: education, research and technology transfer at the highest international level.

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• RRID-Legacy
• 6 years ago - submitted by Edyta Vieth

Portal providing web-based visualization and analysis of multi-omic data describing cell types in the developing and adult brain, powered by gEAR and EpiViz.. Release 1 (April 2019) includes single-cell and bulk tissue RNA-seq, ATAC-seq, and ChIP-seq from the fetal human prefrontal cortex, as well as from stem cell models of neural induction. The portal will expand to include multiple regions of the developing and adult brain and additional analytical tools.

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• NIF
• 6 years ago - submitted by Maryann Martone

Software tool as Nanopore sequence read simulator based on statistical characterization. Oxford Nanopore Technology sequence simulator written in Python and R. Benefits development of scalable next generation sequencing technologies for long nanopore reads, including genome assembly, mutation detection, and metagenomic analysis software.

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• RRID-Legacy
• 6 years ago - by Anonymous