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GelQuest	Windows
Software for the analysis of DNA fingerprint data: AFLP, RFLP, tRFLP, RAPD. GelQuest imports trace data (FSA files) from automtic sequencers as well as images from slab gels. It performs peak detection, fragment sizing using size standard matching and binning (bins, superbins, hyperbins). Exports data as trace files, tab-delimited spread sheaths, 01 matrix, Nexus, Newick and other formats.
Web Site: GelQuest DNA Fingerprint Software
GenScript siRNA Target Finder	Internet Browser
To facilitate the designing process for vector-based siRNA and siRNA cassette, a tool set has been developed: siRNA target finder, siRNA construct builder, and siRNA sequence scrambler. The siRNA target finder is used to identify candidate siRNA target sites. The program automates homology filtering, minimizes non-specific cross-reaction, filters target sites based on RNA duplex internal stability and siRNA sense/anti-sense strand secondary structure. The siRNA construct builder is used to create siRNA hairpin construct as vector insert or cassette insert. The siRNA sequence scrambler is used to generate negative control sequence for siRNA experiment. Together, these programs provide a comprehensive utility set to address the specific bioinformatics need of DNA-based siRNA design.
Web Site: GenScript siRNA Target Finder
Gene and Protein Synonym DataBase (GPSDB)	Internet Browser
GPSDB (Gene and Protein Synonym DataBase) is the most comprehensive collection of gene and protein name synonyms, organized by species. Freely accessible on the web. Published by PharmaDM.
Web Site: BioMinT
GenomatixSuitePE	Internet Browser  Linux  Mac  Unix  Windows
GenomatixSuitePE enables biologists to discover, explore and understand biologically relevant pathways down to the molecular level. Applying the GenomatixSuitePE pipeline to a researcher's set of genes e. g. from a microarray analysis, generates the full biological network, allowing for functional analysis of the most relevant sub-network and enables understanding of gene regulatory mechanisms on DNA sequence level.
Web Site: Genomatix
Gepasi 3.21	Windows
GEPASI 2.0, a general purpose simulator of metabolic pathways. It is a directed towards research and education; it is meant to be a very useful tool for modelling biochemical pathways, system kinetics chemical reactions,etc.
Web Site: Gepasi
HBPlus	Unix
A hydrogen bond calculation program that calculates the geometries of all Hydrogen Bonds and Hydrogen positions, optionally lists neighbor interactions, and deals with Hydrogens that can occupy more than one position.
Web Site: BSM Group of UCL
Homology Modeling for HyperChem	Windows
Homology Modeling for HyperChem with Gaussian Interface for HyperChem is a powerful protein modeling and functional analysis system using the HyperChem graphical user interface.
Web Site: Institute of Molecular Function
IJPT online open access journal	Internet Browser
International Journal of Pharmacy and Technology(ISSN:0975-766X)is the officeal scintific publication,IJPT is an open access journal publishing original peer-reviewed research articles and circulated electronically via the World Wide Web. IJPT is published four times per year and aims to provide a platform to the young researchers of pharmaceutical sciences.
Web Site: www.ijptonline.com
Infrared Spectrum with Animated Molecular Vibrations	Internet Browser
Used for identifying spectral modes. Requires Chime 2 and Netscape Communicator 4.04 or better.
Web Site: University of Massachusetts, Amherst
Instant EPA's Pesticide Facts	Windows
This database contains information on trade names, use patterns, formulations, chemical and physical properties, toxicological acute and chronic effects, physiological, biochemical, and ecological effects and EPA contacts for over 200 pesticides (both chemical and biological types). We've added hyperlinked glosssaries of acronyns, abbreviations and technical terms to make it easier to use this comprehensive technical database. Hot keys link data from chemical names and EPA Methods in this publication to all of the others in the Professional PC References / Windows tm Series.
Web Site: Instant Reference Sources
Instant Gloves + CPC Database Version 2.0	Windows
The world's largest international database of chemical permeation and degradation data includes over 10,500 reported chemical permeation tests with over 350 different models of chemical protective clothing and 860 chemicals and mixtures In addition, there are over 3,000 chemical degradation tests reported and the database includes about another 50,000 associated pieces of data such as reference source, type of garment, thickness, Permeation Index Number, comments, chemical class, synonyms, and CAS Registry Numbers. Within minutes you can find the information you need for protection versus a specific chemical or all the chemicals within a chemical class, or the performance of a specific CPC model versus the chemicals that it has been tested against. With powerful searching and hyperlink capabilities this data is instantly available to you with a mouse click.
Web Site: Instant Reference Sources
Instant Tox-Base	Windows
Instant Tox-Base contains toxicological summaries in text and tabular format on over 1,800 chemicals. Edited from a $2,000,000 NTP database carefully collected over twelve years, these valuable summaries can be owned for just pennies each. They contain data on carcinogenicity, teratogenicity, mutations and accute toxicity on humans and a large variety of animal species. Dosage amounts and the mode of exposure are also included and, when available, irritation data are listed. Hot keys link data from chemical names in this publication to all of the others in the Professional PC References / Windows tm Series.
Web Site: Instant Reference Sources
International Journal of Biological & Medical Research (IJBMR)	Internet Browser  Linux  Windows
International Journal of Biological & Medical Research (IJBMR) publishes papers describing original research in all areas of contemporary biological and medical fields. Submitted original research papers should represent a novel and important contribution to the understanding of any area of biological and medical research and provide mechanistic insights into the process. All submitted articles should report original, previously unpublished research results, experimental or theoretical, and will be peer-reviewed. Articles submitted to the journal should meet these criteria and must not be under consideration for publication. Manuscripts should follow the style of the journal and are subject to both review and editing. International Journal of biological and medical research is an international peer-reviewed multidisciplinary online journal published in quarterly in the months of January, April, July and October. The journal accepts Original Articles, Review Articles, Case Report and Short Report. Scope of the Article All Biological & Medical Sciences like Anesthesiology, Animal Research, Basic medical sciences, Biochemistry, Biotechnology, Bioinformatics, Biophysics, Biology, Cancer biology, Cardiology, Cardio Thoracic Surgery, Dibetology, Dermatology, ENT, Endocrinology, Free radical Biology, General surgery, General Medicine, Genetics, Gastroenterology, Gynecology, Hematology, Herbal Therapy, Human physiology, Immunology, Infertility, Infectious Diseases, Laboratory Medicine & Techniques, Microbiology, Molecular Biology, Nanotechnology, Neonatology, Neurology, Nephrology, Nursing care, Nutrition, Oncology, Orthopedics, Ophthalmology, Pathology, Plant Study, Plant Bio Technology, Pharmacology, Pulmonology, Pediatrics, Psychiatry, Rheumatology, STDs, Stem Cell Research, Toxicology, Urology & Virology, etc
Web Site: BioMedSciDirect publications
International Journal of Biological and Medical Research (IJBMR)	Internet Browser  MS-DOS  Windows
International Journal of Biological & Medical Research (IJBMR) publishes papers describing original research in all areas of contemporary biological and medical fields. Submitted original research papers should represent a novel and important contribution to the understanding of any area of biological and medical research and provide mechanistic insights into the process. All submitted articles should report original, previously unpublished research results, experimental or theoretical, and will be peer-reviewed. Articles submitted to the journal should meet these criteria and must not be under consideration for publication. Manuscripts should follow the style of the journal and are subject to both review and editing. International Journal of biological and medical research is an international peer-reviewed multidisciplinary online journal published in quarterly in the months of January, April, July and October. The journal accepts Original Articles, Review Articles, Case Report and Short Report. Scope of the Article All Biological & Medical Sciences like Anesthesiology, Animal Research, Basic medical sciences, Biochemistry, Biotechnology, Bioinformatics, Biophysics, Biology, Cancer biology, Cardiology, Cardio Thoracic Surgery, Dibetology, Dermatology, ENT, Endocrinology, Free radical Biology, General surgery, General Medicine, Genetics, Gastroenterology, Gynecology, Hematology, Herbal Therapy, Human physiology, Immunology, Infertility, Infectious Diseases, Laboratory Medicine & Techniques, Microbiology, Molecular Biology, Nanotechnology, Neonatology, Neurology, Nephrology, Nursing care, Nutrition, Oncology, Orthopedics, Ophthalmology, Pathology, Plant Study, Plant Bio Technology, Pharmacology, Pulmonology, Pediatrics, Psychiatry, Rheumatology, STDs, Stem Cell Research, Toxicology, Urology & Virology, etc...
Web Site: BioMedSciDirect publications
Introduction to Biochemistry	Windows
This HyperCard stack self paced CAL package is designed for use by 1st year biology undergraduates with 'weak' Chemistry (ie. failed or not attempted A level Chemistry). It supplements the lecture component of a remedial chemistry course and allows the undergraduates to revise and test themselves on simple but essential chemical concepts.
Web Site: BioNet
ItemTracker	Windows
Complete management solution for ALL laboratory storage, samples and sample sources. Samples are tracked whether they are in storage, the lab or elsewhere. See a virtual representation of individual containers. Incorporates functionality such as auditing, bar-coding, document management, mail merge and much more. A flexible sample tracker for all sites. Meets FDA guidelines for software development.
Web Site: Sample Tracking and Freezer Management Software
JChem	Unix  Windows
JChem is a system written in Java for manipulating mixed chemical and corporate data over the Internet or in Intranets. JChem integrates web browsers with relational databases using Java applets and servlets.
Web Site: ChemAxon
JOELib	Linux  Mac  Unix  Windows
JOELib is a computational chemistry library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of different chemical file formats ... 100% pure Java, but interfaces to external programs are available.
Web Site: JOELib
JOELib2	Internet Browser  Linux  Unix  Windows
JOELib/JOELib2 is a cheminformatics library which supports chemical file conversion (for molecular modeling programs), SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available. Furthermore a basic statistic module allows to calculate entropies, mean values and standard deviations for chemical descriptors.
Web Site: JOELib/JOELib2
MB DNA Analysis	Windows
MB is a free multi-functional DNA/protein analysis program. It's main advantage is that it combines all of the most widely used features needed for an advanced molecular analysis of genomic/proteomic data. Features of MB include a fast restriction analysis algorithm (included plasmid / linear DNA drawing), promoter analysis, calculation of molecular weights and chemical properties of proteins, prediction of the secondary protein structures (after Chou-Fasman). Protein analysis also includes sequence translation and codon usage table calculation. Other features: hierarchical multiple sequence alignment tool (with a feature to compare secondary structure of proteins), phylogenetic tree building, dot plot, estimation of isoelectric point for proteins, primer design. A tool for the structural analysis of alpha helices is also included in the main package
Web Site: MB DNA Analysis
MMCalc: Molecular Mass Calculator	Mac  Windows
A stand-alone application used to calculate the exact mass, or the mass percent of a formula.
Web Site: Softshell
MOIL	Linux  Unix  Windows
The MOIL modeling package to simulate structure, dynamics, and function of biological molecules at the atomic level of detail. Note the availability of a Window version in the present release and a parallel version for stochastic path simulations.
Web Site: Cornell University
MOPAC2000	Unix  Windows
MOPAC is a general-purpose semiempirical quantum mechanics package for the study of chemical properties and reactions in gas, solution or solid-state. MOPAC is used to directly predict numerous chemical and physical properties such as Gibbs free energies, activation energies, reaction paths, dipole moments, non-linear optical properties and infrared spectra, etc. It is also used as the basis of quantitative structure-property (or activity) relationships, to predict a wide variety of biological and other properties including, carcinogenicity, vapor pressure, water solubility, and reaction rates, etc.
Web Site: Fujitsu
MOWSE	Internet Browser
Peptide mass search tool.
Web Site: Daresbury Laboratory
MPQC	Linux  Unix
MPQC is the Massively Parallel Quantum Chemistry Program. It computes properties of atoms and molecules from first principles using the time independent Schrödinger equation. The source code for MPQC is distributed under the GNU General Public License (GPL).
Web Site: The SNL/CA Computational Chemistry Group

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