Curator Dashboard

Web based analytics environment for genomic data arising from BRAIN Initiative Cell Census Network, based on AnnoJ browser. AnnoJ browser displays epigenomic data, including base resolution DNA methylation, RNA-Seq, ChIP-Seq, as well as annotations.

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• dkNET
• 7 years ago - submitted by Maryann Martone

Web tool as multiple sequence and structure alignment server. Automatically identifies homologs with known 3D structures for input sequences, derives structural constraints through structure based alignments and combines them with sequence constraints to construct consistency based multiple sequence alignments. Aligns sequences of multiple input structures, with output representing multiple structure based alignment refined in combination with sequence constraints.

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• RRID-Legacy
• 7 years ago - by Anonymous

Web tool to convert genome coordinates and genome annotation files between assemblies. Used to translate genomic coordinates from one assembly version into another and retrieves putative orthologous regions in other species using UCSC chained and netted alignments.

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• SciCrunch
• 7 years ago - by Anonymous

Web tool to show micro homology sequences striding over double strand break point created by CRISPR/Cas9 system. Used to search for CRISPR target site with micro-homology sequences. Used to predict deletion pattern.

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• RRID-Legacy
• 7 years ago - by Anonymous

Python implementation of conditional expectation maximization algorithm that estimates epigenetic landscapes and state of individuals and may be used to study nonlinear epigenetic aging. Fast conditional expectation maximization algorithm used to model epigenetic states associated with phenotype of interest. Can model non linear epigenetic trait associations directly without transformation of phenotype of interest.

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• SciCrunch
• 7 years ago - submitted by Colin Farrell

Web medaka pattern match tool for short sequence and/or pattern. Used to search database of medaka genome on target and off target sites when editing genome with CRISRP-Cas9.

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• RRID-Legacy
• 7 years ago - by Anonymous

Modular light sheet illumination system designed to image living samples with minimal photobleaching or phototoxicity by Mizar Imaging. Enables high spatial and temporal resolution light sheet imaging to be added to existing or new microscope system.

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• SciCrunch
• 7 years ago - submitted by Leah Booher

Singulator to automate tissue preparation for single cell and single nucleus analyses. Bench top Singulator System and single use cartridge enable tissue dissociations into singulated cells or nuclei suspensions.

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• SciCrunch
• 7 years ago - submitted by Leah Booher

Automated, microfluidic droplet based platform for single cell research that encapsulates up to 8 samples. Instrument has sample temperature control from 4 degrees Celsius to 40 degrees Celsius. System detects single use cartridges for specific applications.

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• SciCrunch
• 7 years ago - submitted by Leah Booher

Processor for auditory research delivers processing power, data transfer and sample rate of 200 kHz by Tucker-Davis Technologies . Can be equipped with up to 4 high-performance DSPs to support complex stimulus control, high frequency applications, and real time normalization for speakers and microphones.

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• RRID-Legacy
• 7 years ago - by Anonymous

Intracellular microinjection dispense system by Parker Hannifin. Supplies repeatable pressure pulses. Designed for rapid and reproducible ejections of picoliter and nanoliter volumes used in conjunction with intracellular or extracellular studies while avoiding inherent desensitization of nerve cells which accompanies Iontophoretic methodology. System comes complete with high speed valves and necessary tubing assemblies.

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• RRID-Legacy
• 7 years ago - by Anonymous

Database lists names of prokaryotes that have been validly published in International Journal of Systematic and Evolutionary Microbiology directly or by inclusion in Validation List, under Rules of International Code of Nomenclature of Bacteria. Has classification of prokaryotes and information on prokaryotic nomenclature and culture collections.

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• RRID-Legacy
• 7 years ago - by Anonymous

Center to improve metadata and its use throughout biomedical sciences. Develops information technologies that make authoring complete metadata more manageable. Through better interfaces, terminology, metadata practices, and analytics. Optimizes metadata pathway from provider to end user. Provides way for funders to specify what metadata they want to collect as part of research life cycle.

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

Software tool as Microsoft Excel spreadsheet calculator designed to estimate epidemiological cutoff values (ECVs, ECOFFs) for minimal inhibitory concentrations or minimal effective concentrations of wild-type bacterial or fungal populations.

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• RRID-Legacy
• 7 years ago - by Anonymous

Community software Pyton library for astronomy. Collection of software packages written in Python programming language for use in astronomy. Package contains key functionality and common tools needed for performing astronomy and astrophysics with Python. Core of Astropy Project, which aims to enable community to develop ecosystem of Affiliated Packages covering broad range of needs for astronomical research, data processing, and data analysis.

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• SciCrunch
• 7 years ago - by Anonymous

Web application that enables users to build and publish own custom manikins. Used to build three dimensional model of human body using parts registered in BodyParts3D. Server returns image of assembled 3D model as still image, rotating animation, interactive image, etc. Each part can be downloaded as polygon mesh file that can be used with 3D printer.

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

Software tool for automatic deployment of virtual Galaxy environments for life science. Can be deployed over common cloud architectures supported both by public and private e-infrastructures. User interacts with Laniakea based service through simple front end that allows general setup of Galaxy instance, then Laniakea takes care of automatic deployment of virtual hardware and software components. User gains access with full administrative privileges to private, production grade, fully customized, Galaxy virtual instance, and to underlying virtual machine.

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• SciCrunch
• 7 years ago - submitted by Federico Zambelli

Reference database for pathway mapping in KEGG Mapper. Collection of manually drawn pathway maps representing knowledge on molecular interaction, reaction and relation networks for metabolism, genetic information processing, environmental information processing, cellular processes, organisms systems, human diseases, drug development.

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• RRID-Legacy
• 7 years ago - by Anonymous

For automated high throughput screening, cell proliferation assays and cytotoxicity assays, determining the number of viable cells in culture based on the amount of ATP present

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• RRID-Legacy
• 7 years ago - submitted by Entai Hou

Software package as collection of modules implementing methods of analysis that form self-contained and empirically grounded toolbox for handling longitudinal data within person oriented paradigm.

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• RRID-Legacy
• 7 years ago - by Anonymous