Curator Dashboard

Software aplication for NGS data analysis of genomes, transcriptomes, and metagenomes. Allows researchers to easily process large and complex data sets, and streamline their analysis process. Software is structured in different modules, each with specific set of tools and functions designed to perform different types of analysis, such as de-novo genome assemblies, genetic variation analysis, differential expression analysis, and taxonomic classifications of microbiome data, including the functional interpretation and rich visualizations of results.

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• RRID
• 3 years ago - by Anonymous

Web tool to predict probability of proteins to undergo liquid-liquid phase separation.Used to perform sequence based identification of both droplet promoting regions and of aggregation promoting regions within droplets. Used to predict droplet promoting regions and proteins, which can spontaneously phase separate.

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• RRID
• 3 years ago - by Anonymous

Software pipeline for marine Genomic Observatories data analysis. Used to address challenges of analysis of European Marine Omics Biodiversity Observation Network data.

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• 3 years ago - submitted by Haris Zafeiropoulos

Facilitates microbiome studies for researchers at British Columbia Children Hospital Research Institute and University of British Columbia. Core offers processing and storing biological specimens, and sequencing and analysis of microbial communities for various research studies, including basic science, clinical, translational, and epidemiological projects.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

American biotechnology company that designs and manufactures gene sequencing technology used in scientific research.

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• RRID
• 3 years ago - by Anonymous

Software tool writen in LabVIEW is acquisition program for BioSemi ActiveTwo system. Designed to display all ActiveTwo channels on screen and save all data to network disk in .BDF format. Basic acquisition program can be expanded with modules on client specification. Used for acquisition of EEG/ECG/EMG signals, as well as for data coming from additional sensors such as AnalogInputBox (AIB), digital triggers from USB2 receiver and extra sensors connected to AD-box. Several reference selections, filtering and downsampling options are provided.

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• 3 years ago - by Anonymous

System visualizes electromagnetic hot spot of the coil at individual, anatomical data record. MR-based navigation system integrated into TMS flexible arm enables optimal alignment with camera. Used to carry out neuronavigation.

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• 3 years ago - by Anonymous

Software package to efficiently and exhaustively analyze large scale sRNA datasets for virus identification. Automated pipeline for virus discovery using deep sequencing of small RNAs.

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• 3 years ago - by Anonymous

Software tool for classification of virus sequences based on sequence pairwise identity. Virus classification tool based on pairwise sequence alignment and identity calculation. Used to enable general virologists to consistently classify newly determined virus full genome sequences according to ICTV endorsed pairwise genetic identity based genus, species and strain demarcation recommendations. Also usable as amino acid sequence classifier for characterisation of novel highly divergent viruses.

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• RRID
• 3 years ago - by Anonymous

Repository for highly controlled sound presentation in freely moving rats. Provides all necessary information for building, adjusting, and using Ratphones to reliably present auditory stimulation to freely moving rats. Used for 3D printing of headphones designed for auditory psychophysics in behaving rats.

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• RRID
• 3 years ago - submitted by Jensen Palmer

Software tool for single cell RNA sequencing analysis. Command line tool for easy and scalable single cell RNA sequencing analysis.

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• 3 years ago - submitted by Sinan U. Umu

Core focuses on exploring mRNA technology and lipid nanoparticles for various applications including tissue and cell targeting. Offers Optimization and production of in vitro transcribed mRNA, Small scale production of sequence optimized in vitro transcribed mRNA, Incorporation of modified nucleosides to modulate activity, Off the shelf in vitro transcribed mRNA encoding reporter genes or cancer antigens,Labelled mRNA for nanoparticle tracking and microscopy, Encapsulation into commercially available proprietary and non proprietary lipid nanoparticles through LNP core.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Offers tissues dissociation and single cell preparation, analysis and cell sorting under supervision of research logistician.Provides instruments BD FACSCantoII for analysis and BD FACSAriaIII for cell separation and services including Samples preparations and multiparametric panels consultancy, Acquisition and analysis of multiparametric samples, Cell Sorting, Data Analysis.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software toolbox for resting state HRF estimation and deconvolution analysis. Matlab and Python toolbox that implements HRF estimation and deconvolution from resting state BOLD signal. Used to retrieve optimal lag between events and HRF onset, as well as HRF shape. Once that HRF has been retrieved for each voxel/vertex, it can be deconvolved from time series or one can map shape parameters everywhere in brain and use it as pathophysiological indicator. Input can be 2D GIfTI, 3D or 4D NIfTI images, but also on time series matrices/vectors. Output are three HRF shape parameters for each voxel/vertex, plus deconvolved time series, and number of retrieved pseudo events. All can be written back to GIfTI or NIfTI images.

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• 3 years ago - submitted by Guorong Wu

Database of protein structure predictions by AlphaFold that are freely and openly available to global scientific community. Included are nearly all catalogued proteins known to science. Provides programmatic access to and interactive visualization of predicted atomic coordinates, per residue and pairwise model confidence estimates and predicted aligned errors.

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• dkNET
• 3 years ago - submitted by Maryann Martone

Curated catalog of worldwide biological databases to provide landscape of biological databases throughout the world and enable easy retrieval and access to specific collection of databases of interest. Catalog of worldwide biological databases as well as their curated meta information and derived statistics.

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• dkNET
• 3 years ago - submitted by Maryann Martone

MIBiG is genomic standards consortium project and biosynthetic gene cluster database used as reference dataset. Provides community standard for annotations and metadata on biosynthetic gene clusters and their molecular products. Standardised data format that describes minimally required information to uniquely characterise biosynthetic gene clusters. MIBiG 2.0 is expended repository for biosynthetic gene clusters of known function. MIBiG 3.0 is database update comprising large scale validation and re-annotation of existing entries and new entries. Community driven effort to annotate experimentally validated biosynthetic gene clusters.

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• dkNET
• 3 years ago - submitted by Maryann Martone

Database system that provides phosphorylated sites and information about which substrates are phosphorylated by specific kinase and which extracellular stimuli activate or inhibit protein phosphorylation via intracellular signaling cascades.

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• dkNET
• 3 years ago - submitted by Maryann Martone

Software tool as variant caller for both single and paired sample variant calling from BAM files. Implements amplicon bias aware variant calling from targeted sequencing experiments, rescue of long indels by realigning bwa soft clipped reads.Novel and versatile variant caller for next generation sequencing in cancer research.

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• 3 years ago - by Anonymous

Software R package as CNV detection tool for targeted NGS panel data. Extension of cn.mops package. Used for detecting copy number variations in targeted next generation sequencing panel data. Suitable to use for clinical geneticists for routine clinical diagnostics.

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• RRID
• 3 years ago - by Anonymous