Tools   Select Another Resource Report Type

https://code.google.com/p/reditools/

A suite of python scripts to perform high-throughput investigation of RNA editing using next-generation sequencing data.

Proper citation: REDItools (RRID:SCR_012133) Copy   

•   Source: SciCrunch Registry

http://pprospector.sourceforge.net/

A pipeline of software programs to design and analyze PCR primers. It is built in Python using the open-source PyCogent toolkit.

Proper citation: PrimerProspector (RRID:SCR_012136) Copy   

•   Source: SciCrunch Registry

https://code.google.com/p/icelogo/

Software that builds on probability theory to visualize significant conserved sequence patterns in multiple peptide sequence alignments against background (reference) sequence sets that can be tailored to the studied system and the used protocol.

Proper citation: iceLogo (RRID:SCR_012137) Copy   

•   Source: SciCrunch Registry

http://musite.sourceforge.net/

A Java-based standalone application for predicting both general and kinase-specific protein phosphorylation sites.

Proper citation: Musite (RRID:SCR_012141) Copy   

•   Source: SciCrunch Registry

https://code.google.com/p/automotifserver/

Software that predicts the wide selection of 88 different types of the single amino acid post-translational modifications (PTM) in protein sequences. The source code and precompiled binaries of brainstorming tool are available under Apache licensing.

Proper citation: AMS (RRID:SCR_012140) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/phosphosite/

A bioinformatical software tool for analyzing (quantitative) phosphoproteome datasets. The program retrieves kinase-substrate predictions from NetworKIN and contains various statistical modules for futher analysis.

Proper citation: PhosphoSiteAnalyzer (RRID:SCR_012142) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/pronovus-bioscience-llc

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 25,2024.

Proper citation: ProNovus Bioscience LLC (RRID:SCR_012266) Copy   

•   Source: SciCrunch Registry

https://code.google.com/p/hlaforest/

Software that predicts HLA haplotype by hierarchically weighting reads and using an iterative, greedy, top down pruning technique. HLAforest uses BioPerl to read in FASTA files. Alignments use Bow tie, although any alignment tool can be used to generate SAM alignments for use as input to HLAforest.

Proper citation: HLAforest (RRID:SCR_012146) Copy   

•   Source: SciCrunch Registry

https://www.promab.com/about-us

Develops and commercializes recombinant proteins and custom monoclonal antibodies through integration of bioinformatics, gene cloning, protein expression and purification, and immunology, using high-throughput technologies. ProMab applies its proteins and antibodies to deliver diagnostic products as well as services targeting the global biomedical market through collaborations with other biotechnology and bio-reagent companies.

Proper citation: ProMab Biotechnologies Inc. (RRID:SCR_012380) Copy   

•   Source: SciCrunch Registry

https://oligofactory.com/

Provides oligonucleotides. Synthesizes custom DNA/RNA oligonucleotides for scientific and therapeutic communities.

Proper citation: Oligo Factory (RRID:SCR_012567) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/trevigen

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 19,2024. Trevigen Cell Assays (TCA), a division of Trevigen, Inc., was established in 2008 to conduct contract research work for the pharmaceutical, biotechnology, government and academic segments of the medical research market. TCA specializes in designing and conducting assays for lead compounds and genotoxic screening based on DNA damage and repair as well as cancer cell behavior.

Proper citation: Trevigen Cell Assays (RRID:SCR_012449) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/ohio-university

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 14,2024. Portal, Core facility

Proper citation: Ohio University Labs and Facilities (RRID:SCR_012461) Copy   

•   Source: SciCrunch Registry

https://www.creative-biolabs.com/home.htm

Biotechnology company specializing in developing and production of antibodies and service provider for customized products and relevant services. Committed to changing traditional antibody model and establishing new service platform. Specialized in providing custom biotechnology and pharmaceutical services that cover full scope of biotechnology needs of early drug discovery and drug development.

Proper citation: Creative Biolabs (RRID:SCR_012557) Copy   

•   Source: SciCrunch Registry

http://www.bioconductor.org/packages/2.12/bioc/html/DNAcopy.html

Software that segments DNA copy number data using circular binary segmentation to detect regions with abnormal copy number.

Proper citation: DNAcopy (RRID:SCR_012560) Copy   

•   Source: SciCrunch Registry

http://www.scienceexchange.com/facilities/torosgen-biotechnology

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 22, 2024.

Proper citation: TorosGen Biotechnology (RRID:SCR_012402) Copy   

•   Source: SciCrunch Registry

https://us.progen.com/About-Us/

ProGen - Protein & Gene Engineering specializes in custom molecular biology services including DNA cloning, sub-cloning, codon optimized artificial gene synthesis, site-directed mutagenesis and large scale custom projects such as DNA isolation and purification. The custom products of the company are used for gene engineering to study gene expression regulatory mechanisms, protein engineering, and analysis of gene and protein function. Customers of the company include research laboratories in academia, clinical researchers in medical institutes and biotechnology companies. In addition to our custom cloning services, as an authorized Israeli representative of SBS Genetech Co., we market molecular biology products of SBS at competitive prices. SBS is one of the largest sources of synthetic oligonucleotides. The range of the products cover biochemicals, enzymes and PCR products. As a young company we are highly motivated to deliver high quality services and products at lowest prices with a rapid schedule of delivery. We guarantee full customer satisfaction on all products and services.

Proper citation: ProGen - Protein and Gene Engineering (RRID:SCR_012405) Copy   

•   Source: SciCrunch Registry

https://www.ohiopeptide.com/

We provide custom synthesis of peptides and peptide conjugates.

Proper citation: Ohio Peptide (RRID:SCR_012407) Copy   

•   Source: SciCrunch Registry

https://www.eaglegenomics.com/

Core provides outsourced bioinformatics solutions. Core combines cloud computing and Next Generation Sequencing (NGS) expertise with a track record in building scalable, efficient genomics analysis workflows using both commercial and open source software. Core has provided services to big pharma, crop science, personal hygiene and animal health.

Proper citation: Eagle Genomics Limited (RRID:SCR_012543) Copy   

•   Source: SciCrunch Registry

http://autodock.scripps.edu/

Software suite of automated docking tools. Designed to predict how small molecules, such as substrates or drug candidates, bind to receptor of known 3D structure. AutoDock consist of AutoDock 4 and AutoDock Vina. AutoDock 4 consists of autodock to perform docking of ligand to set of grids describing target protein, and autogrid to pre calculate these grids.

Proper citation: AutoDock (RRID:SCR_012746) Copy   

•   Source: SciCrunch Registry

http://www.bioconductor.org/packages/release/bioc/html/ExiMiR.html

R functions for the normalization of Exiqon miRNA array data.

Proper citation: ExiMiR (RRID:SCR_012753) Copy   

•   Source: SciCrunch Registry