Curator Dashboard

A development environment for engineers and scientists to visualize, create, and code engineering systems. The system design software is integrated with all measurement hardware and contains signal processing IP. Other features include multithreaded execution, software deployment to hardware, and program integration into a single environment.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A nanoparticle research collaborative which engineers nanoparticle products in order to find cures for cancer and other diseases. The gold labels produced are uncharged molecules which are cross-linked to specific sites on biomolecules. Labels can be attached to any molecule with a reactive group (proteins, peptides, oligonucleotides, small molecules and lipids) for detection and localization. New probes can be engineered based on any fragment of a naturally occurring biomolecule, and the label can be positioned away from the binding site so it does not interfere with binding.

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• SciCrunch
• 11 years ago - submitted by Kristen Jensen

A software package and server used to identify and characterize proteins from primary sequence databases using mass spectrometry data. Mascot integrates peptide mass fingerprinting, sequence querying, and MS/MS ion searching in order to search for proteins in databases like SwissProt, NCBInr, EMBL EST divisions, contaminants, and cRAP. If a license is purchased, users may: search data sets that exceed the 1200 spectrum limit of the free version; set up automated, high throughput work; add and edit proteins and quantification methods; and search a preferred collection of sequence databases. The software package works with instruments from AB Sciex, Agilent, Bruker, Jeol, Shimadzu, Thermo Scientific, and Waters.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 1,2023. Visualize and validate complex MS/MS proteomics experiments

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software used to design, clone, and validate genetic sequences de novo. Users can remove or add sequence motifs, recode open reading frames, design oligonucleotides for sequencing primers, and more. Once the gene is designed, users can order the synthetic DNA fragments with Gene Designer files. Sequences can be imported and exported in GeneDesigner, Genbank, and FASTA formats. Demos and support are available on the main site.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software used to analyze cellular image data obtained from BD Pathway bioimaging systems. Its features include object splitting for small spots or objects, band segmentation outputs, image preprocessing, and segmentation filters.

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• SciCrunch
• 11 years ago - submitted by Gabrielle Pine

A dataset of brain region connectivity statements mined from neuroscientific literature. Users can search for brain regions and explore region connectivity.

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• SciCrunch
• 11 years ago - submitted by Tom Gillespie

Image capture software which creates publication quality images. SPOT allows users to view the live image and a preview of the captured image side by side, enabling image editing before capture. Enhancements such as calibration marks and measurements can be applied after image capture. An advanced version is also available.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Slide image modification software that allows the user to adjust the magnification, compare slides, pan and zoom, annotate specific areas, and perform image analysis of digital slides. Users can create macros and algorithms to automate analysis and create plots, respectively., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 11 years ago - submitted by Gabrielle Pine

A general stastical software for Windows which can perform basic statistical analysis, statistical modeling, multivariate analysis, and produce of graphs. InfoStat also has facilities that could be useful in teaching statistics. It can connect to R through the interpreter, which can run R scripts without leaving the InfoStat working environment, and through the implemented menu-driven procedures, which make use of the R calculation engine.

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• SciCrunch
• 11 years ago - submitted by Gabrielle Pine

Point and click program used to quickly analyse circadian activity data using algorithms and embedded controls to make every graph interactive and useful for data analysis. The analysis program has been used for a variety of species including mice, hamsters, rats, sheep, Drosophila, and humans. This program has three separate applications: one for data collection, one for analysis, and a chamber control program.

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• SciCrunch
• 11 years ago - submitted by Gabrielle Pine

An ImageJ plugin for the automatic alignment of a source image (or a stack) to a target image. Manual, automatic, and batch alignment modes are available. Users may specify some landmarks to establish the initial correspondence between images. In automatic and batch modes, the landmarks are automatically refined to match the landmarks of the target image. After registration, the plugin creates a warped image using the final position of the source image and the target landmarks. The plugin can be called by a macro or by another plugin. Technical guidance is available on the website.

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• SciCrunch
• 11 years ago - by Anonymous

Open source software application for laser scanning microscopy, electrophysiology, laser scanning photostimulation, and other physiological methods focused on neurobiology. Used to control laser scanning microscopes without need for custom data acquisition hardware. Standard data acquisition boards are used to acquire data and control laser scanning. The tasks of signal integration and image processing are placed on the computer CPU. Multiple versions of ScanImage are available, each with their own features.

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• SciCrunch
• 11 years ago - by Anonymous

Data set about mapping information provided as text files. The text files contain 3D representations of neuronal morphologies reconstructed using Neurolucida.

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• SciCrunch
• 11 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented March 14, 2016. Research Integrative Query (ResearchIQ) tool, a semantically anchored resource discovery platform that facilitates semantic discovery of local and publicly available data through a single web portal designed for researchers in the biomedical informatics domain within The Ohio State University.

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• SciCrunch
• 11 years ago - submitted by Anita Bandrowski

Interactive rendering tool for confocal microscopy data visualization. Combines rendering of multi-channel volume data and polygon mesh data, where properties of each dataset can be adjusted independently and quickly. Designed for neurobiologists, allowing them to better visualize confocal data from fluorescently-stained brains, but it is also useful for other biological samples. Features include feature tracking, 3D measurement tools, multiple render modes for multi-channel confocal data, and volume paint selection and segmentation.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A discovery platform used to analyze and annotate imagery for individual projects, while assembling shared data resources. It was originally applied to Drosophila neuronal anatomy and neuroblast lineage analysis and is currently being extended to support mouse whole-brain projection tracing. The Workstation is both a pipeline management system that extracts entities from 3D imagery and a suite of tools that enable scientists to annotate large imagery datasets. A Entity-Attribute-Value (EAV) graph permits any element to be annotated by users with custom ontologies. By allowing any entity to have multiple parents, the graph can be re-arranged by each user without copying the underlying image data.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software package for multi-parametric model-fitting of 4D Magnetic Resonance Imaging data. Software library to facilitate voxel wise fitting on a number of datatypes including T1 and T2 relaxometry, Arterial Spin Labeled MRI, Diffusion Weighted Imaging and Dynamic Contrast Enhanced MRI. T

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• SciCrunch
• 11 years ago - submitted by David Kennedy

Digital microscopy software for research microscopy. It comes standard with drivers to control numerous instruments in and around the microscope. When online, data is acquired in a native-3D format over time, color and specimen locations in customizable experiment protocols. Data can be analyzed by a wide variety of tools for image processing including mathematical operations, statistics functions, analysis scripting and import to/export from MATLAB. Additional modules are available for special applications ranging from deconvolution to photomanipulation to multiphoton.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A software application for one-dimensional electrophoretic analysis of multi-labeled fluorophores. It was designed to analyze multi-channel fluorescence data from Fujifilm FLA-5000 and FLA-8000 scanning systems. The software also works with other scanners in the BAS/FLA series and with the LAS series.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje