NOVELTIES
The cBio Cancer Genomics Portal provides visualization and analysis for working with data from TCGA and other data sets and provides download of large-scale cancer genomics data sets. You can query this user-friendly portals maintained by the Computational Biology Center at Memorial Sloan-Kettering Cancer Center by entering the name of one or more genes. The output is a list of cancer studies of different tumor types; click on a study, and then on View Cancer Study Details, to call up a graphic—referred to as an “oncoprint”—that represents the frequency of genomic alterations. Registration not required.
Click here for more informationsPublished on 2014-03-31 04:57:23
FANTOM is a large international consortium led by Japanese RIKEN that releases the first comprehensive map of gene activity across the human body. FANTOM5 has been mapping which genes are active in virtually all cell types across the human body, and the regions which determine where the genes are read from the genome. An associated data processing and visualization web system, Zenbu, enables researchers to quickly and easily integrate, visualize and compare large amounts of genomic information resulting from large-scale, next-generation sequencing experiments. Registration not required.
Click here for more informationsPublished on 2014-03-27 09:35:23
The Vienna Biocenter PhD programme in Molecular Life Sciences is a programme for talented and highly motivated students of any nationality that covers a range of topics in modern biological sciences, including gene regulation, cell division, neural circuits, and evolutionary genomics. Registration required.
Click here for more informationsPublished on 2014-03-03 04:07:24
Mendeley is a free desktop and web tool for research and literature management. It acts as reference manager and academic social network for for managing and sharing research papers,discovering research data and collaborating on line (Singh, J Pharmacol Pharmacotherap 1:62, 2010). Registration required.
Click here for more informationsPublished on 2014-03-02 08:39:18
BoxplotR is an interactive web application written in R for generation of customized box plots. Box Plots can be downloaded (Spitzer et al., Nat Meth 11:121, 2014). Registration not required.
Click here for more informationsPublished on 2014-02-06 11:19:15
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National Toxicology Program
Category: Laboratory animals, Laboratory animal tutorials
This website from the US National Toxicology Program presents microscopic images of rodent organs and non-neoplastic lesions. The atlas is organized by organ system and is subdivided into chapters, each covering a single organ. Each chapter comprises a set of sections, each describing a single lesion. Each section includes histopathologic descriptions, high-quality images, diagnostic guideline recommendations, and references (Environmental Health Perspectives 122:A76, March 2014). Registration not required.
Click here for more informationsPublished on 2014-01-31 04:34:30
The Yeast Metabolome Database (Canadian Institutes of Health Research) is a manually curated database of small molecule metabolites found in or produced by Saccharomyces cerevisiae. This database covers metabolites described in textbooks, scientific journals, metabolic reconstructions and other electronic databases. Registration not required.
Click here for more informationsPublished on 2013-12-06 09:29:16
This is useful and fast genetic calculator for predicting the offspring results of genetic crosses. The application can show all possible allelic combinations of gametes and produce genotypes and phenotypes ratio and probability for these crosses. You can easily generate punnett squares with unlimited number of genes and results will be ready in less than one second due to unique algorithms of this calculator. The complete accuracy of these results we can guarantee. From now punnett squares calculation will no longer be the hard work for you, because you can get this free powerful genetic calculator.
Click here for more informationsPublished on 2013-11-12 08:10:14
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protocols for 2D and 3D quantification in microscopic images
Category: Imaging software, Imaging tutorials
Microscopy-based imaging is booming and the need for tools to retrieve quantitative data from images is urgent. This book provides simple but reliable tools to generate valid quantitative gene expression data, at the mRNA, protein and activity level, from microscopic images in relation to structures in cells, tissues and organs in 2D and 3D. Volumes, areas, lengths and numbers of cells and tissues can be calculated and related to these gene expression data while preserving the 2D and 3D morphology. Image cytometry thus provides a comprehensive toolkit to study molecular processes and structural changes at the level of cells and tissues. Registration not required.
Click here for more informationsPublished on 2013-11-04 03:09:39
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free, online, open-source curated knowledgebase of biological pathways
Category: Pathways
Reactome allows: to analyse pathways, to visualize pathways
Reactome is a free, online, open-source curated knowledgebase of biological pathways for several species, encompassing many areas of human biology (D Croft et al., Nucleic Acid Res 39, D691, 2011). Registration not required.
Click here for more informationsPublished on 2013-10-25 09:10:30
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Category: Biomedical protocols
Protocol Exchange allows: to discover protocols, to share protocols, to comment on protocols, to organize your favorites protocols
Protocol Exchange from Nature Protocols is an open resource where the community of scientists pool their experimental know-how to help accelerate research. Discover the protocols, share a protocol, join a lab group, comment on protocols, organize your favorites and personalize your experience. Registration not required.
Click here for more informationsPublished on 2013-10-25 00:08:25
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Histology/Immunohistochemistry
Category: Biomedical protocols
IHCWORLD protocols allows: to search protocols
This protocol database is a collection of histology/immunohistochemstry protocols compiled based on published literatures, laboratory submissions, as well as individual experimental data. Registration not required.
Click here for more informationsPublished on 2013-10-25 00:02:04
ClinVar is a unified, curated, publicly available database about sequence variation and its relationship to health. It aggregates information about sequence variation and its relationship to human health. Registration not required.
Click here for more informationsPublished on 2013-10-24 10:07:21
Software Carpentry is a volunteer organization whose members teach basic software skills to researchers in science, engineering, and medicine. Registration required.
Click here for more informationsPublished on 2013-10-24 10:03:41
A portal collecting several downloadable tools for the study of genomic structural & copy number variations. Software tools can be used to construct a personal diploid genome sequence by including personal variants into reference genome (vcf2diploid), to discover and genotype CNVs from genome sequencing (CNVnator), etc. Registration not required.
Click here for more informationsPublished on 2013-10-12 06:04:54
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discuss online published papers
Category: Literature search
PubPeer allows: to discuss papers
PubPeer is a forum for free-ranging discussion of published papers. It allows to search for scientific articles and to post anonymous comments on them. See Science 341:606, 2013) Registration not required.
Click here for more informationsPublished on 2013-09-25 02:35:21
Biocompare is a resource for up-to-date product information, product reviews, and new technologies for life scientists. Biocompare combines an in-depth knowledge of life science products and new technologies with the power of the Internet to offer scientists the most dynamic, relevant, and innovative media-based marketplace for life science information. Produced by scientists, Biocompare's mission is to provide free, time saving services to life science researchers, allowing scientists to find and learn about the technologies that drive discovery. Biocompare does this by providing specialized search tools, articles, product reviews, webinars, videos and technology spotlights all designed to ensure that Biocompare remains a trusted and comprehensive source of product information. Registration not required.
Click here for more informationsPublished on 2013-09-19 09:26:29
Irritable bowel syndrome (IBS) is the most common disorder of the gastrointestinal tract, with up to 15% of the general population affected, primarily women. The etiology is unknown, there is no cure, and treatment can only be aimed at relieving symptoms that reduce people's quality of life. The bellygenes initiative stems from the need we recognized to compile scattered information into a unified source that could serve as reference for future genetic studies in IBS. Ideally, it will also serve as a good primer to stimulate further discussion and collaboration between researchers, clinicians, funding bodies, and everyone interested. Registration not required.
Click here for more informationsPublished on 2013-09-13 06:30:44
BMI calculator calculates your Body Mass Index (BMI), from NHLBI Registration not required.
Click here for more informationsPublished on 2013-08-23 04:34:46
The web site calculates the body shape index (ABSI). A body shape index that, by quantifying abdominal adiposity relative to BMI and height, is thought to be a better predictor of mortality than BMI (see Krakauer & Krakauer, PLoS ONE 7, e39504, 2012; Ahima & Lazar, Science 341:856, 2013). Registration not required.
Click here for more informationsPublished on 2013-08-23 04:33:11
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