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* Version Number and Release Date: caNanoLab 1.5.2 November 2010
* Primary audience: Investigators and researchers interested in information about the characterizations of nanomaterials used in biomedical research
* caBIG® Tool Bundle: None
* Grid Enabled? Yes
* Compatibility Level: Not yet determined
* Installation Level: Intermediate - technical assistance may be required, download may require supporting infrastructure or software
* System Requirements: This is a web-based application that can be accessed through an industry standard browser. Installation requires:
* Memory 1GB or more (Linux, Solaris, or Windows)
* Disk storage 36 GB (minimum)
* Database Server: MySQL v 5.0.X and above (tested with MySQL)
* Jboss Application Server, 4.0.5 and above (tested in 4.0.5)
* JRE/JDK 1.5.1
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h2. Tool Overview
The cancer Nanotechnology Laboratory portal ([caNanoLab\|http://cananolab.nci.nih.gov]) is a web-based portal designed to facilitate data sharing in the research community to expedite and validate the use of nanomaterials in biomedicine. caNanoLab provides support for the annotation of nanomaterials with characterizations resulting from physico-chemical and in vitro nanomaterial assays and for the sharing of these characterizations and associated nanotechnology protocols in a secure fashion.
caNanoLab is a collaboration between the NCI Center for Biomedical Informatics and Information Technology (CBIIT), the [NCI Nanotechnology Characterization Laboratory (NCL)|http://ncl.cancer.gov/], and the [NCI Cancer Centers of Nanotechnology Excellence (CCNEs)|http://nano.cancer.gov/programs/ccne.asp]. CCNEs actively involved in the caNanoLab effort include Washington University, Stanford, Emory/Georgia Tech, and MIT.
h2. Installation and Downloads
[Download source Code|http://ncicb.nci.nih.gov/download/downloadcalab.jsp]
Please sign up for this [listserv|https://list.nih.gov/archives/cananolab-users-l.html] to receive updates about this tool.
h2. Forum and Support
h3. Resources
* [Application Support|mailto:ncicb@pop.nci.nih.gov]
* ICR Workspace Coordinator: [Mervi Heiskanen|mailto:heiskame@mail.nih.gov]
* [caNanoLab Users Listserv|https://list.nih.gov/archives/cananolab-users-l.html] - Sign up for tool updates. [Send mail|mailto:(CANANOLAB-USERS-L@LIST.NIH.GOV)]
* [caNanoLab GForge Project Site|http://gforge.nci.nih.gov/projects/calab]
* [caBIG ICR Nanotech Working Group|ICR:Nanotechnology Working Group]
h3. caNanoLab Users Group
caNanoLab hosts data from a variety of organizations conducting nanomaterial characterizations. caNanoLab feature requests are obtained by working with the nanotechnology community through the caNanoLab Users Group and the caBIG ICR Nano WG.
caNanoLab Users Group meetings occur the _3rd Friday of every month from 1:30PM-2:30PM ET_. [caNanoLab Users Group Presentations|https://gforge.nci.nih.gov/docman/index.php?group_id=69&selected_doc_group_id=3978&language_id=1] are available on the [caNanoLab Project Site|http://gforge.nci.nih.gov/projects/calab]. To become a caNanoLab Users Group member, please subscribe via the [caNanoLab Users Listserv|https://list.nih.gov/archives/cananolab-users-l.html].
h2. Presentations, Demos and Other Materials
* [caNanoLab Brochure|https://gforge.nci.nih.gov/docman/view.php/69/14126/caNanoLab%20Poster_Brochure_new.ppt]
* [Brief overview and demonstration|http://gforge.nci.nih.gov/docman/view.php/69/23070/caNanoLab_Overview_caBIG_2010_Conference.ppt]
* [caNanoLab Overview|https://gforge.nci.nih.gov/docman/view.php/69/20028/caNanoLab_Overview_Alliance_Conference.ppt]
* [caNanoLab Data Submission Video|http://cabigtrainingdocs.nci.nih.gov/caNanolab/websubmission/caNanolab_websubmission.html]
h2. Documentation and Training
* [caNanoLab FAQ|caNanoLab FAQ]
* [caNanoLab Glossary of Terms|https://gforge.nci.nih.gov/docman/view.php/69/20142/glossary.pdf]
* [caNanoLab Object Model|https://gforge.nci.nih.gov/docman/view.php/69/20141/caNanoLab_1.5_OM_06_12_2009.ppt]
* [caNanoLab Design Document|https://gforge.nci.nih.gov/docman/view.php/69/20194/caNanoLab_1.5_Design_Document.pdf]
h2. Related Tools and Terminology
* [NCI BiomedGT Nanotechnology Terminology Portal|http://biomedgt.nci.nih.gov/index.php/NANO]
* [Nanoparticle Ontology (NPO)|http://bioportal.bioontology.org/visualize/29531] {multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true}
* [NCI EVS Thesaurus|http://nciterms.nci.nih.gov/NCIBrowser/Dictionary.do]
* [NCI cancer Data Standards Repository (caDSR)|https://cabig.nci.nih.gov/community/concepts/caDSR/]
h2. Related Organization
* [NCI Alliance for Nanotechnology in Cancer|http://nanotech.cancer.gov/]
h2. Data Curation
Data curation is a key component for ensuring that data is appropriately annotated to facilitate data sharing in a semantically interoperable fashion. Data curation activities on caNanoLab are currently performed by nanotechnology data scientists at Washington University and the Nanotechnology Characterization Laboratory (NCL). Data curators assist in extracting data from publications and nanotechnology experiments, annotating extracted data, and providing overall data quality control. If you are interested in submitting your data into caNanoLab, please contact the [caNanoLab Users Listserv|https://list.nih.gov/archives/cananolab-users-l.html].
h2. caNanoLab Architecture
caNanoLab leverages the caCORE SDK and caGrid technologies to develop, deploy, and advertise common services for nanomaterials and characterizations. For information on accessing caNanoLab grid services, please refer to the [caNanoLab Grid Services Web Page|https://wiki.nci.nih.gov/display/caNanoLab/caNanoLab+Grid+Services]. caNanoLab grid services are accessed through a variety of caBIG resources such as caB2B, caOBR, the GSS iPhone App, and caGrid Portal | |||||||||||||||||||||||||||||||||||
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Column | caNanoLab OverviewThe cancer Nanotechnology Laboratory portal (caNanoLab) is a web-based portal designed to facilitate data sharing in the research community to expedite and validate the use of nanomaterials in biomedicine. caNanoLab provides support for the annotation of nanomaterials with characterizations resulting from physico-chemical and in vitro nanomaterial assays and the sharing of these characterizations and associated nanotechnology protocols in a secure fashion. caNanoLab is a collaboration between the NCI Center for Biomedical Informatics and Information Technology (CBIIT), the NCI Nanotechnology Characterization Laboratory (NCL), and the NCI Cancer Centers of Nanotechnology Excellence (CCNEs). CCNEs actively involved in the caNanoLab effort include Washington University, Stanford, Emory/Georgia Tech, and MIT. caNanoLab and Standards DevelopmentThe caNanoLab project is actively involved in a variety of efforts supporting the development of standards for representing nanomaterials and their characterizations as applied to the field of nanomedicine. The caNanoLab project participates in the caBIG® Integrative Cancer Research (ICR) Nanotechnology Working Group (Nano WG) which is chartered to integrate nanotechnology information and tools to aid discovery and clinical translation in the cancer research community leveraging caBIG infrastructure components. The primary objectives of the caBIG ICR Nano WG are to:
The caNanoLab project participates in working group objectives by assisting in the development of nanotechnology standards and the application of these standards in the caNanoLab nanotechnology resource. Information on caBIG ICR Nano WG standards leveraged by caNanoLab is provided in the subsections below. Nanotechnology Data Sharing StandardsThe caNanoLab project worked with the caBIG ICR Nano WG to develop a Nanotechnology Data Sharing Standards document which identifies common data elements leveraged across nanotechnology resources.
NanoParticle OntologycaNanoLab consumes of and contributes to the NanoParticle Ontology (NPO). Information on the NPO is available on the caBIG ICR Nano WG Ontology Development and Governance Site. nano-TABnano-TAB is a tab-delimited spreadsheet type of format facilitating the submission and exchange of data pertaining to nanomaterial composition and their characterizations. The caNanoLab project participates on the caBIG ICR Nano WG sub-group supporting the development of nano-TAB which leverages and extends the ISA-TAB standard. To become a member of the nano-TAB sub-group, please subscribe to the nano-TAB Listserv. Artifacts from the sub-group are available on the nano-TAB project site LS DAM Nano Sub-DomaincaNanoLab has been working with the caBIG Life Sciences Domain Analysis Modeling (LS DAM) team to develop a nano sub-domain. The nano sub-domain is based on the caNanoLab object model (nano-OM) extended to support existing LS DAM concepts. The caNanoLab project aims to develop future services leveraging the NCI's Enterprise Compliance and Conformance Framework (ECCF). Data CurationData curation is a key component for ensuring that data is appropriately annotated to facilitate data sharing in a semantically interoperable fashion. Data curation activities on caNanoLab are currently performed by nanotechnology data scientists at Washington University and the Nanotechnology Characterization Laboratory (NCL). Data curators assist in extracting data from publications and nanotechnology experiments, annotating extracted data, and providing overall data quality control. If you are interested in submitting your data into caNanoLab, please contact the caNanoLab Users Listserv. caNanoLab ArchitecturecaNanoLab leverages the caCORE SDK and caGrid technologies to develop, deploy, and advertise common services for nanomaterials and characterizations. For information on accessing caNanoLab grid services, please refer to the caNanoLab Grid Services Web Page. caNanoLab grid services are accessed through a variety of caBIG resources such as caB2B, caOBR, the GSS iPhone App, and caGrid Portal. caNanoLab Users GroupcaNanoLab hosts data from a variety of organizations conducting nanomaterial characterizations. caNanoLab feature requests are obtained by working with the nanotechnology community through the caNanoLab Users Group and the caBIG ICR Nano WG. caNanoLab Users Group meetings occur the 3rd Friday of every month from 1:30PM-2:30PM ET. caNanoLab Users Group Presentations are available on the caNanoLab Project Site. To become a caNanoLab Users Group member, please subscribe via the caNanoLab Users Listserv. Using the caNanoLab WikiThis is the wiki home page of caNanoLab. Collaborators may edit this page and add more pages. If you can see the link at the bottom of the page, you may add comments. |
