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ST NetWatch: Labs and People

Cellular Calcium Information Server View Cellular Calcium Information Server Save to My Folders
Mitsuhiko Ikura has created this website and database to organize and compare numerous sequence and structural information in the calcium research-related literature. The site includes databases for calmodulin target proteins, the cadherin superfamily, and the EF-hand protein superfamily.
(Free Site)
Clapham lab View Clapham lab Save to My Folders
Members of the Clapham lab at Harvard University study cardiac signaling pathways, and they have made some resources concerning ion channels and calcium signaling available on the lab web site. These include comprehensive tables of information about transient receptor potential (TRP) channels,with separate tables for the TRPC, TRPM, and TRPV subfamilies, and a fourth table that combines information about the TRPA, TRPP, and TRPML classes of channels. These tables contain information about TRP family members, such as splice variants, disease models and mutations, agonists, inhibitors, interacting proteins, expression information, and a lot more. Videos posted on the site show confocal imaging of calcium waves in frog oocytes and an illustration of how to apply patch-clamping techniques to sperm. There is also an extensive review of calcium signaling.
(Free Site)
CRISP View CRISP Save to My Folders
Pop quiz: who's working on the developmental biology of retinoids? CRISP (NIH's "Computer Retrieval of Information on Scientific Projects") can help you find the answer, and it will provide you access to their NIH grant proposal abstracts, too. Sorry, award amounts aren't reported. Probably the easiest, most systematic tool for identifying American biomedical researchers with specific interests and expertise.
(Free Site)
Eisen Lab View Eisen Lab Save to My Folders
The Eisen lab uses DNA microarray technology to study gene expression and regulation. The site offers free to academic users the ability to download microarray analysis software and the ability to upload datasets to compare against other datasets using Clustermap. Access to other analysis tools are also provided. For those working in the microarray field, this site may be quite useful.
(Free Site)
Greenberg Lab View Greenberg Lab Save to My Folders
With diagrams about pathways that lead to the regulation of gene expression and songs with lyrics for the scientifically minded, this site offers science and levity. The Greenberg lab started studying c-fos gene expression and is now generally interested in the mechanisms underlying regulation of gene expression.
(Free Site)
Hedgehog Signaling Pathway Database View Hedgehog Signaling Pathway Database Save to My Folders
The Ramirez-Weber Lab at San Francisco State University maintains and curates a database devoted to Hedgehog (Hh) proteins, morphogens that play a critical role in pattern formation during embryogenesis. The Hedgehog Signaling Pathway Website includes an overview of Hh signaling, models of Hh formation and signal transduction, and a database with information on genes involved in—or targets of—the Hh signaling pathway, human diseases associated with the Hh pathway, and reagents used in Hh pathway research.
(Free Site)
Holmgren Lab View Holmgren Lab Save to My Folders
The Holmgren lab at Northwestern University studies the process of pattern formation during animal development. The lab focuses on the Hedgehog (Hh) signal transduction pathway and its role in the patterning of Drosophila. He shares short Protocols of frequently used laboratory methods. But, perhaps the best part of the site is the Glossary, which opens in a separate window. Although some sections remain to be completed, the Glossary includes not only definitions, but also signaling models of EGFR, Hedgehog, and Notch signaling, concepts in development, and developmenal models, a list of genes, and links to related sites.
(Free Site)
Kuriyan Lab Web Site View Kuriyan Lab Web Site Save to My Folders
Devoted to structural biology, the Kuriyan Lab web site provides structures for numerous molecules involved in cell signaling, including tyrosine kinases, serine/threonine kinases, and heme sensors, as well as structures of molecules involved in DNA replication. Associated information, links to publications, and movies are also available.
(Free Site)
NCS proteins View NCS proteins Save to My Folders
This is a site set up by the Bob Burgoyne lab at the University of Liverpoool to provide a resource of information on the Neuronal Calcium Sensor (NCS) family of calcium-binding proteins. The site includes all family members with up-to-date information on known structures and sequences. It has been set up with links to databases for each protein as well as links to searches for papers on interacting proteins and functions.
(Free Site)
Neurotransmitter.net View Neurotransmitter.net Save to My Folders
Shawn Thomas, a graduate student at the University of Illinois at Urbana-Champaign, has compiled and organized information pertaining to neuroscience, psychology, and pharmacology at Neurotransmitter.net. Among other resources, the site includes charts of neuroactive substances, links and indexes of recent abstracts, and a metadatabase for the biological sciences.
(Free Site)
Nitric Oxide, Cyclic GMP and Myocardial Infarction View Nitric Oxide, Cyclic GMP and Myocardial Infarction Save to My Folders
Luis Agulló, a researcher in the Laboratory of Experimental Cardiology, has created a site containing a very accessible introduction to signaling through nitric oxide (NO) and cyclic guanosine monophosphate (cGMP), as well as information on the regulation and clinical relevance of signaling through NO and cGMP. The site also has many useful links to material on NO, cGMP, and myocardial disease.
(Free Site)
Rac Page View Rac Page Save to My Folders
Information from the Lambeth lab regarding the structural analysis of the small GTPase Rac including a table summarizing the effects of point mutations on Rac interaction with NADPH oxidase.
(Free Site)
Rel/NF-kB Transcription Factors View Rel/NF-kB Transcription Factors Save to My Folders
Thomas Gilmore, a professor of biology at Boston University, has created an online resource for the study of nuclear factor-κB (NF-κB) transcription factors. The site includes an introduction to this family of transcription factors and an overview of their regulation. Links to GenBank sequences and Protein Data Bank (PDB) structures for NF-κB transcription factor subunits and the proteins that directly regulate their activity (IKK, IκB) in response to upstream signaling events are available. A large number of compounds, biomolecules, and biological agents or processes, such as infections and stresses, reported to inhibit or promote NF-κB activity are listed here along with references supporting their effect on NF-κB. Users can also access lists of genes that are transcriptionally regulated by NF-κB transcription factors, a list of mouse knockout lines in which NF-κB transcription factors or their regulators have been disrupted, a list of diseases with which aberrant NF-κB activity has been associated, and a list of proteins that interact with NF-κB proteins or their regulators. PubMed links to citations that support the inclusion of each entry in these sections are provided, and the site has an extensive list of publications on NF-κB transcription factors.
(Free Site)
Sheen Lab View Sheen Lab Save to My Folders
Jen Sheen's group is part of the NSF 2010 Arabidopsis Project and has created teaching materials, protocols, as well as made data available regarding the signaling pathways that control plant responses to growth and stress hormones, nutrients, environmental stresses, and pathogens. The site is rich in images, Power Point slides, and explanatory information. There are main sections highlighting mitogen-activated protein kinase (MAPK) signaling and calcium-dependent protein kinase (CDPK) signaling.
(Free Site)
Structural Biology of Cellular Signaling View Structural Biology of Cellular Signaling Save to My Folders
The Sprang lab is concerned with the structural chemistry underlying processes involved in signal transduction. The site focuses on heterotrimeric G protein-mediated pathways but includes several other signaling-related structures as well.
(Free Site)
The Forsburg Lab pombe Pages View The Forsburg Lab <i>pombe</i> Pages Save to My Folders
The Forsburg lab uses the fission yeast Schizosaccharomyces pombe to investigate the relationships between DNA replication, chromosome dynamics, and the cell cycle. In addition to providing a wealth of information on DNA replication and the fission yeast cell cycle, the pombe Pages include research protocols and practical information on working with pombe as well as links to other web-based resources providing pertinent information.
(Free Site)
The Pawson Lab View The Pawson Lab Save to My Folders
The Pawson lab studies the mechanisms that underlie signal transduction. There are pages on protein domains involved in protein-protein interactions and information about how specificity is achieved in signal transduction cascades. There are also links to information about mass spectrometry and links to the several research-related databases.
(Free Site)
The Stephen White Laboratory at UC Irvine View The Stephen White Laboratory at UC Irvine Save to My Folders
The White laboratory, which conducts research concerning the folding and stability of membrane proteins, maintains various membrane and protein biophysics resources. The Membrane Protein Resources include a list of membrane proteins with known 3D structures, a searchable membrane protein topology database, and the Membrane Protein Explorer--a tool for examining the topology of membrane proteins. With beautiful images of protein structure, links to the Protein Data Bank, PubMed and numerous other useful sites, this site provides an invaluable resource for anyone interested in problems related to the structure of membrane proteins.
(Free Site)
The Synapse Web View The Synapse Web Save to My Folders
Synapse Web, created by the laboratory of Kristen M. Harris from the Program in Synapses & Cell Signaling at the Medical College of Georgia, provides an abundance of information concerning the structural basis of synaptic function. The site includes an atlas of ultrastructual neurocytology (created by Dr. Josef Spacek), beautiful images of brain structures and cells (from Nissl-stained sections of hippocampus to Golgi-stained pyrmaidal cells to 3D reconstructions of dendritic spines), tutorials, and a suite of tools for the analysis and 3D reconstruction of structures from serial sections.
(Free Site)
The Wnt Gene Homepage View The Wnt Gene Homepage Save to My Folders
An extensive collection of information about Wnt genes in many organisms, Wnt signaling components, Wnt literature, and assays and tools for studying Wnt signaling. The site is maintained by Roel Nusse and the updates are clearly indicated.
(Free Site)
Woodgett Lab View Woodgett Lab Save to My Folders
The Woodgett lab provides an information resource on protein kinases and various signal transduction pathways. An extremely user-friendly site, with signaling maps, Wnt pathway Flash movies, a kinase quiz, laboratory protocols and many useful links. The signaling maps include stress activated protein kinase pathways, the protein kinase B (also called Akt) in phosphatidylinositol 3-kinase cell survival pathway, and Wnt signaling pathways.
(Free Site)

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