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Antibodies: Structure and Sequence Internet Browser
This page attempts to summarise useful information on antibody structure and sequence. It provides a query interface to the Kabat antibody sequence data, general information on antibodies and crystal structures and links to other antibody-related information.
Web Site Home Web Site: University College London

Becoming a Successful Scientist Internet Browser
Provides information and links of interest on succeeding in scientific research.
Web Site Home Web Site: Becoming a Successful Scientist

BioMapper Internet Browser  Windows
Web Site Home Web Site: BIOGIS Biodiversity, Geo and Metadata Management Solutions

BioOffice Internet Browser  Windows
BioOffice from BIOGIS Consulting is a tool for input, mapping, spatial analysis and exchange of biological distribution data and collections. This application for professional biodiversity data management is used at many natural history museums and universities in Europe and also in international projects.
Web Site Home Web Site: BioOffice Biodiversity Data Management Solutions

Biochemical Pathways Internet Browser
Biochemical Pathways is the online version of Boehringer Mannheim's Biochemical Pathways chart. Fully searchable by keyword.
Web Site Home Web Site: Expasy

Biochemistry, Molecular Biology, and Cell Biology Protocols
Life sciences methods and protocols focusing on biochemistry, molecular biology, and cell biology experiments.
Web Site Home Web Site: Biochemistry, Molecular Biology, and Cell Biology Protocols

Bioexplorer Toolbar Internet Browser  Windows
The Bioexplorer Toolbar is the fastest and easiest way to get the information you want from NCBI databases (PubMed, Protein, Nucleotide, and Taxonomy) and from other biological Web resources. It also allows you to search Google, Britannica and Amazon books directory and contains links for fast redirection to literature databases, companies websites, BLAST, ClustalW et.c. All previous searches (up to 20) are stored in the history box. You can clear the history box from the Bioexplorer Toolbar main menu by clicking
Web Site Home Web Site: Bioexplorer Toolbar

Biological Research Protocol Books Internet Browser
Comprehensive and organized list of protocol books in biochemistry, molecular biology, and other life sciences.
Web Site Home Web Site: Biological Research Protocol Books

CL!Psci Windows
Fastest, most efficient free search engine for scientific researchers. The CL!Psci Scientific Search Engine is a superfast and efficient, free Google-like software, designed to meet the specialized and intensive, web-based information need of the life science researcher.
  • Customize a menu of your most commonly used scientific search engines
  • Right-click on a word or phrase to automatically execute multiple searches, eliminating time-consuming typing or "copy and paste" into search fields
  • With one click, browse a consolidated supplier catalog to get to the right product faster than ever
    Web Site Home Web Site: CL!Psci

    COPE: Cytokines Online Pathfinder Encyclopaedia Internet Browser
    The Cytokines Online Pathfinder Encyclopaedia is Horst Ibelgauft's Hypertext Information Universe of Cytokines. Features: 6650+ WWW pages devoted to cytokine research and related subjects; 15000+ cited references; 50000+ internal hyperlinks.
    Web Site Home Web Site: Gene Center, University of Munich (LMU)

    Cutter Internet Browser
    With this tool you can quickly get the list of all enzyme restriction sites on your sequence.
    Web Site Home Web Site: JustBio.com

    ElDorado/Gene2Promoter Internet Browser  Linux  Mac  Unix  Windows
    More than 100 gigabytes of condensed, filtered, quality checked and ranked information on morte than 10 genomes. A condensation of publicly available data from a variety of resources plus Genomatix proprietary annotation, including promoters, transcription factor binding sites, promoter modules, scaffold/matrix attachment regions, single nucleotide polymorphisms, and much more.
    Web Site Home Web Site: Genomatix

    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 Home Web Site: BioMinT

    Genowiz™ Linux  Mac  Windows

    Genowiz™ is a powerful gene expression analysis program that has been designed to store, process and visualize gene expression data efficiently. It includes a suite of advanced analysis methods and allows researchers to select analysis methods appropriate for their dataset. Genowiz™ allows researchers to organize experimental information (MIAME), import data files quickly and easily, work with multiple experiments at the same time, import gene annotation files, preprocess and normalize data, perform cluster analysis, classify and view gene information, perform functional classification and track down intricate correlations in data by performing pathway analysis. All analysis done is tracked, saved into a database and can be retrieved at any point of time.

    Data and Gene List Import
    Genowiz™ supports a wide range of data formats pertaining to cDNA data and Affymetrix processed data. Users also have an option to upload data in customized formats. Customized uploader allows users to add and save new data formats. One-Click Uploader can then identify these formats.
    Gene List files for annotating genes can also be imported.

    MIAME
    Minimum Information About a Microarray Experiment (MIAME) facilitates adoption of standards for microarray experiment annotation and data representation. Genowiz™ focuses on establishing standard microarray experimental data repositories and information sharing within the scientific community. Researchers can also exchange MIAME data by using MAGE ML document exchange format.

    Data Transformation, Normalization and Filtration
    In any type of expression analysis, pre-processing of data to reduce undesirable variation among datasets and to bring data to a common platform is a vital step. Genowiz™ provides users with a wide range of data transformation, normalization and filtration tools. These include:

    • Data transformation options such as imputation of missing values, log transformations, mean/median, Z-transformation, subtract control, divide by control, scaling etc.
    • Normalization techniques such as normalization for dye swap replicates, cDNA raw data normalization options (cDNA Loess and Print tip Loess) and quantile normalization. Separate normalization techniques are provided for cDNA and Affymetrix arrays. Normalization can be done using all genes or control genes.
    • Filter data based on replicate genes, fold change, mean, standard deviation, calls and missing values. Replicate samples are handled using various parametric/non-parametric tests. Multiple testing correction can be applied to reduce false positives.

    Data Analysis and Visualization
    Genowiz™ comes equipped with several data analysis tools. Complete with excellent graphics, it is an excellent tool for interpretation of biologically meaningful results. Some of these tools include partition clustering, hierarchical clustering, SOM, PCA, gene shaving and discriminant PCA (for classification).

    • Partition Clustering (k-means, Forgy's)
    This tool classifies genes or samples in user-defined groups using distance parameters. The obtained clusters can be re-clustered. Re-clustering utility helps scientists pick a set of genes of their interest. A 2D PCA view shows the distribution of genes in various clusters.

    • Hierarchical Clustering
    One of the most important tools for studying relations between genes, this tool creates a dendrogram based on the relative distance between genes. The different optional parameters help the user in correctly determining the relationship between two genes. Models of analysis include single linkage, complete linkage and average linkage clustering. Genes, samples, or both together can be clustered.

    • Self Organizing Maps
    A two-way classification of genes into clusters based on novel artificial neural networks is an integral feature of data clustering tools in Genowiz™. This gives a deeper insight into clusters, as neighboring clusters are very similar to each other.

    • Principal Component Analysis
    This tool involves a mathematical procedure that transforms a number of (possibly) correlated variables into a (smaller) number of uncorrelated variables called principal components. These provide an insight into existent variability in the data.

    • Gene Shaving
    This method identifies subsets of genes with coherent expression patterns and large variation across conditions. Gene shaving differs from hierarchical clustering and other methods of gene expression analysis in that genes may belong to more than one cluster.

    • Discriminant PCA
    This statistical approach classifies samples of unknown classes based on training samples of known classes.

    Biological Analysis
    Genowiz™ annotates genes and classifies them into functional categories (Gene Ontology). Option of importing annotation files is also provided. Integrated pathways module aids researchers in understanding metabolic pathways in relation to expression data. Pathway maps edited/created can be associated with author details too. Coupled with biological information and gene ontological classification, it forms an excellent tool in understanding biological systems.

    Utilities
    Several utility options are present adding value to analysis performed:

    Gene List Comparison: Subtle relations among datasets can be probed using this feature.
    Pattern Simulation: An expression pattern can be defined and Genowiz™ lists out all genes with a similar expression pattern. This gene list can be saved and exported.
    Gene Tracking: Important genes or genes of interest can be tagged and tracked throughout the analysis.

    Web Site Home Web Site: Ocimum Biosolutions - BioIT - Bioinformatics - Genowiz™

    Gideon MS-DOS
    Diagnosis and reference in various medical situations is the purpose of this interactive computer program.
    Web Site Home Web Site: C.Y Informatics

    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 Home 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 Home 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 Home 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 Home Web Site: BioMedSciDirect publications

    Jouarnal of Qafqaz Universty
    The Journal of Qafqaz University ` is a international refereed journal published twice a year since 1997 by Qafqaz University, Baku-Azerbaijan." "The Qafqaz University Journal accepts original unpublished articles and book reviews in the following fields: - social sciences, engineering, which includes computer engineering and industrial engineering..." Articles in English, Turkish and Azeri are available in full text.
    Web Site Home Web Site: Journal of Qafqaz University

    LabCollector Internet Browser  Linux  Unix  Windows
    The main concept behind LabCollector is that each scientist in the lab can manage quickly his own data (strains, plasmids, primers and sequences) and turn it available to the rest of the lab team. Due to Intranet support, data can be accessed from any connected computer in the lab, which accelerates information retrieval.
    Web Site Home Web Site: AgileBio

    Lucid Internet Browser  Windows
    Lucid is a multi-media software system for creating and publishing identification and diagnostic keys on CD and the Internet. The Lucid standard player is available as a free download.
    Web Site Home Web Site: lucidcentral

    MBS EnzFinder Internet Browser
    MBS ENZFINDER searches REBASE database for known restriction enzymes matching your query. It provides informations on: isoschizomers and related enzymes, recognition sequences, methylation, commercial availability, references.
    Web Site Home Web Site: MBS

    MedScan Windows
    MedScan is an automated desktop system based on advanced Natural Language Processing (NLP) technologies, extracting information about protein functions and pathways from MEDLINE abstracts. The accuracy of MedScan when applied to the whole PubMed was found to be 97% (less than 3% of false positives).
    Web Site Home Web Site: Ariadne Genomics

    NetPlasmid Internet Browser
    A free online tool to create nice quality and colored plasmid maps. Very easy too use.
    Web Site Home Web Site: JustBio

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