NOVELTIES
The Progenetix database provides an overview of copy number abnormalities in human cancer from Comparative Genomic Hybridization (CGH) experiments. As a curated database, it collects genomic gain/loss information of individual cancer and leukemia cases, published in peer reviewed journals. Registration not required.
Click here for more informationsPublished on 2012-08-20 09:54:42
ColorBrewer is an online tool from Pennsylvania State University designed to help people select good color schemes for maps and other graphics. Registration not required.
Click here for more informationsPublished on 2012-08-16 07:09:53
Ensembl, a genome browser project, produces genome databases for vertebrates, and makes this information freely available online. Registration not required.
Click here for more informationsPublished on 2012-07-27 11:13:14
BioMed Central is a publisher of 206 peer-reviewed open access journals. All original research articles published by BioMed Central are made freely and permanently accessible online immediately upon publication. BioMed Central views open access to research as essential in order to ensure the rapid and efficient communication of research findings. BioMed Central's portfolio of 206 journals includes general titles BMC Biology and BMC Medicine alongside specialist journals (e.g. BMC Bioinformatics, Malaria Journal) that focus on particular disciplines . All the research published by BioMed Central's journals is open access, but BioMed Central also provides access to various additional products and services that require a subscription. For example, certain BioMed Central journals such as Genome Biology publish commissioned review content available only to subscribers. BioMed Central also operates Open Repository, a hosted digital repository solution for institutions. Registration not required.
Click here for more informationsPublished on 2012-07-27 11:03:39
The site proviedes an input form for creating primers around the Open Reading Frame of cDNAs. For primer design, the Primer3 program is used. The input file is a list of GenBank sequences. Registration not required.
Click here for more informationsPublished on 2012-07-18 05:39:14
Ilastik (Interactive Learning and Segmentation Toolkit) is an open-source tool that enables researchers to train a machine-learning Random Forest classifier algorithm to identify which pixels of an image belong to which class of interest, based on the researcher providing example regions of each. Using it requires no experience in image processing. Registration not required.
Click here for more informationsPublished on 2012-07-11 12:05:19
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This wiki is a community knowledge base for ImageJ and friends
Category: Biomedical communities
Image Net is a federally funded, multi-institution project to develop the next generation of ImageJ to include support for many features such as large multidimensional image support, a more flexible data model and improved developer resources. Registration required.
Click here for more informationsPublished on 2012-07-11 11:21:34
Fiji (Fiji is Just ImageJ) is an image processing package based on ImageJ and is currently the tool of choice in analysis of electron- microscopy data.Fiji is effectively an open-source distribution of ImageJ that includes a great variety of organized libraries, plugins relevant for biological research Registration not required.
Click here for more informationsPublished on 2012-07-09 10:56:46
FluoRender is an interactive rendering tool for confocal microscopy data visualization. It combines the renderings of multi-channel volume data and polygon mesh data, where the properties of each dataset can be adjusted independently and quickly. The tool is designed especially for neurobiologists, and it helps them better visualize the fluorescent-stained confocal samples. Registration not required.
Click here for more informationsPublished on 2012-07-09 09:02:42
Bisque (Bio-Image Semantic Query User Environment) is web-based open-source client-server project developed for the exchange and exploration of biological images. The Bisque system supports several areas useful for imaging researchers from image capture to image analsysis and querying. Registration required.
Click here for more informationsPublished on 2012-07-09 08:01:44
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Category: Imaging software, Biomedical images search
OME | The Open Microscopy Environment allows: Image database
OME (Open Microscopy Environment) is a consortium of universities, research labs, industry and developers producing open-source software and format standards for microscopy data. It is an open-source client-server software platform that enables access to and use of a wide range of biological data. You can access your data in OME from any platform. By combining facilities for large-scale data management and a flexible, model-based architecture, OMERO provides a foundation for many different data-management challenges, especially where large, heterogeneous datasets must be accessed, viewed, analyzed and shared. Registration not required.
Click here for more informationsPublished on 2012-07-09 07:22:20
OsiriX is an open-source image processing software dedicated to DICOM images (".dcm" / ".DCM" extension) produced by imaging equipment (MRI, CT, PET, PET-CT, SPECT-CT, Ultrasounds, ...). It is available in 32-bit and 64-bit format and is fully compliant with the DICOM standard for image comunication and image file formats. OsiriX is at the same time a DICOM PACS workstation for imaging and an image processing software for medical research (radiology and nuclear imaging), functional imaging, 3D imaging, confocal microscopy and molecular imaging. Registration not required.
Click here for more informationsPublished on 2012-07-09 06:50:45
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Distributed trough GitHub
Category: Imaging software
CISMM allows: Image tools listing
CISMM is one of several groups providing visualization and analysis tools freely usable by the biomedical microscopy community. There are a number of freely-available tools from other National Research Resources and elsewhere. We list some of them here for easy reference, along with brief descriptions Registration not required.
Click here for more informationsPublished on 2012-07-06 11:21:17
Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC)facilitates access to a growing number of neuroimaging tools and resources. Continuing to identify existing software tools and resources valuable to this community, NITRC’s goal is to support its researchers dedicated to enhancing, adopting, distributing, and contributing to the evolution of neuroimaging analysis tools and resources. Registration not required.
Click here for more informationsPublished on 2012-07-06 09:51:53
MyBioSoftware provides a list with links of several software tools used in Bioinformatics. Registration not required.
Click here for more informationsPublished on 2012-07-05 11:04:57
Protégé is a free, open-source platform that provides a growing user community with a suite of tools to construct domain models and knowledge-based applications with ontologies. It is a tool that acts like the “word processor” of an ontology and uses a language like OWL as a convenient standard. At its core, Protégé implements a rich set of knowledge-modeling structures and actions that support the creation, visualization, and manipulation of ontologies in various representation formats. Registration required.
Click here for more informationsPublished on 2012-07-03 12:09:36
μManager is a open source microscopy software package for control of automated microscopes. It mainly targets camera-based imaging, although it is also used with scanning systems. It includes an easy-to-use interface that runs as an ImageJ plug-in and enables researchers to design and execute common microscopy functions as well as customized image-acquisition routines.The program can be used to collect multichannel data over space and time, such as tracking fluorescently tagged cell fusion events in live cells in a multiwell plate overnight. Registration not required.
Click here for more informationsPublished on 2012-07-02 10:30:21
GeneTests Web site is a publicly funded medical genetics information resource developed for physicians, other healthcare providers, and researchers, available at no cost to all interested persons. Registration not required.
Click here for more informationsPublished on 2012-07-02 09:54:52
Resources provided by EMAP are the EMA Anatomy Atlas of Mouse Development and the EMAGE Gene Expression Database. The EMA Anatomy Atlas of Mouse Development uses embryological mouse models to provide a digital atlas of mouse development. EMAGE is a database of in situ gene expression data in the mouse embryo and an accompanying suite of tools to search and analyse the data.
Click here for more informationsPublished on 2012-07-02 09:02:33
A collection of online public resources integrating extensive gene expression and neuroanatomical data, complete with a novel suite of search and viewing tools. The Allen Brain Atlas website contains a downloadable 3-D interactive Brain explorer for locations of gene expression. Users can delineate networks and pathways using this application by connecting regions that co-express a certain gene. Registration not required.
Click here for more informationsPublished on 2012-07-02 08:41:43
Biomedical search tools
Online genomic tools
Online proteomics tools
Calculators
Biomedical lab tools
Scientific writing/reading
Biomedical communities
Biomedical funding and jobs
Medical topics
Biomedical softwares