Curator Dashboard

Image analysis software package that allows non-destructive image marking, input for further image processing, and marking the results of automatic measurements. Object-Image integrates measurements, macros, graphical objects and image names in a closed unit called 'object file' so that it reduces file clutter.

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• RRID-Legacy
• 9 years ago - by Anonymous

Database of neuronal cell types based on multimodal characterization of single cells to enable data-driven approaches to classification.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software package for classification and regression based on a forest of trees using random inputs.

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• RRID-Legacy
• 9 years ago - by Anonymous

Source code for a machine learning method to detect somas on confocal microscopic images of the Drosophila brain. The method can be applied to the original raw images where the noises are not removed and the number of somas is unknown.

• RRID-Legacy
• 9 years ago - submitted by David Kennedy

Database of disease genes and risk factors and of host pathogen/interactomes. Lists genes, pathways and environmental risk factors positively associated with diseases and conditions such as Alzheimer's disease, schizophrenia, multiple sclerosis, childhood obesity, anorexia nervosa, HIV-1/AIDS, and helicobacter pylori. Details of polymorphisms as well as negative/positive association data can be found via Useful links. Throughout the site are links to Entrez Gene and Pubmed.

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• RRID-Legacy
• 9 years ago - by Anonymous

Web application that scans a library of protein-DNA complexes and builds comparative models of proteins bound to DNA. Its results include complex coordinates, schematic interface diagrams, interface alignments and DNA motifs.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Web application for the design of PCR primers for cross-species amplification of novel sequences from metagenomic DNA or from uncharacterized organisms belonging to user-specified phylogenetic lineages. It implements an extended CODEHOP strategy and evaluates thermodynamic properties of the oligonucleotide pairs.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Database of DNA-binding protein structures that is updated with Protein Data Bank complexes. It provides structure-based binding specificities and sequence logos, classification and clusters of protein-DNA interfaces, and downloads/stats.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Web application for structural alignment of DNA motifs and protein domains from DNA binding protein complexes in Protein Data Bank.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Web application for predicting transcription factors which bind a specific DNA site or motif, as well as DNA motifs or sites likely to be recognized by a specific DNA-binding protein. footprintDB also lists several databases and repositories relevant to DNA transcription.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Barleymap was designed to search the position of barley genetic markers on the Barley Physical Map and the POPSEQ map. Its three main functions are finding markers, aligning sequences, and locating by position.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Perl software script that can annotate barley sequences with Gene Ontology terms inferred by homology. It uses the IBSC2012 barley GO annotation and supports both nucleotide and peptide sequences.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Open source software to evaluate, quantify, compare, and predict the metabolic machinery of interest in large ‘omic’ datasets. This protocol finds informative protein families and uses them to score metagenomic sets.

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• SciCrunch
• 9 years ago - submitted by Valerie De Anda

Software for processing NGS sequence reads in FASTQ and FASTA formats. split_pairs.pl is suited particularly for the task of sorting pair end reads and for modifying their headers with Perl-style regular expressions.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Software scripts for the assembly of chloroplast genomes out of whole-genome sequencing reads.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Software package for pan-genome analysis. This software is suitable for bacterial genomes and the study of intra-specific eukaryotic pan-genomes.

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• SciCrunch
• 9 years ago - submitted by Bruno Contreras-Moreira

Software for processing, display, and analysis of magnetic resonance spectroscopic imaging data. MIDAS supports a "whole-brain" MRSI acquisition method that has been implemented on MRI systems from three major manufacturers., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software for image analysis, processing and quantitation. This software analyzes standard JPEG, BMP, PNG, TIFF images; 16-bit TIFF images; and .GEL files produced by Phosphorimager, Typhoon and Storm instruments.

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• RRID-Legacy
• 9 years ago - submitted by Anita Bandrowski

Data set of thalamo-centric mesoscopic projection maps to the cortex and striatum. The maps are established through two-color, viral (rAAV)-based tracing images and high throughout imaging.

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• RRID-Legacy
• 9 years ago - by Anonymous

Molecular modeling software package for 3D structure prediction and high resolution design of proteins, nucleic acids, and non natural polymers. Used in computational biology, including de novo protein design, enzyme design, ligand docking, and structure prediction of biological macromolecules and macromolecular complexes.

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• RRID-Legacy
• 9 years ago - by Anonymous