[ { "key": "ZZ5PAFES", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/ZZ5PAFES", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/ZZ5PAFES", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Raths", "parsedDate": "2006", "numChildren": 1 }, "data": { "key": "ZZ5PAFES", "version": 3, "itemType": "journalArticle", "title": "Scientists take a closer look at ELNs", "creators": [ { "creatorType": "author", "firstName": "David", "lastName": "Raths" } ], "abstractNote": "The article discusses the development of electronic lab notebook (ELN) used for recording experiments in majority of researches. The existence of ELN has been in available more than 10 years but the transition from paper to ELN was slow because of legal and technological issues. ELN is considered as the major enablers of information exchange and organizational memory. Meanwhile, Millennium Pharmaceuticals Inc. is using the ELN by connecting it to other applications the chemists use.", "publicationTitle": "KM World", "publisher": "", "place": "", "date": "2006", "volume": "15", "issue": "6", "section": "", "partNumber": "", "partTitle": "", "pages": "16-26", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://login.ezproxy.lib.vt.edu/login?url=http://search.ebscohost.com/login.aspx?direct=true&db=lxh&AN=21101148&scope=site", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "10998284", "archive": "lxh", "archiveLocation": "21101148", "shortTitle": "Scientists take a closer look at ELNs", "language": "", "libraryCatalog": "EBSCOhost", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "COMPUTER software" }, { "tag": "ELECTRONIC data processing documentation" }, { "tag": "Electronic records" }, { "tag": "Information services" }, { "tag": "MILLENNIUM Pharmaceuticals Inc." }, { "tag": "RESEARCH management" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:39Z" } }, { "key": "ZXVW6QT7", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/ZXVW6QT7", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/ZXVW6QT7", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Sander et al.", "parsedDate": "2009", "numChildren": 1 }, "data": { "key": "ZXVW6QT7", "version": 3, "itemType": "journalArticle", "title": "OSIRIS, an Entirely in-House Developed Drug Discovery Informatics System", "creators": [ { "creatorType": "author", "firstName": "T.", "lastName": "Sander" }, { "creatorType": "author", "firstName": "J.", "lastName": "Freyss" }, { "creatorType": "author", "firstName": "M.", "lastName": "von Korff" }, { "creatorType": "author", "firstName": "J. R.", "lastName": "Reich" }, { "creatorType": "author", "firstName": "C.", "lastName": "Rufener" } ], "abstractNote": "We present OSIRIS, an entirely in-house developed drug discovery informatics system. Its components cover all information handling aspects from compound synthesis via biological testing to preclinical development. Its design principles are platform and vendor independence, a consistent look and feel, and complete coverage of the drug discovery process by custom tailored applications. These include electronic laboratory notebook applications for biology and chemistry, tools for high-throughput and secondary screening evaluation, chemistry-aware data visualization, physicochemical property prediction, 3D-pharmacophore comparisons, interactive modeling, computing grid based ligand-protein docking, and more. Most applications are developed in Java and are built on top of a Java library layer that provides reusable cheminformatics functionality and GUI components such as chemical editors, structure canonicalization, substructure search, combinatorial enumeration, enhanced stereo perception, force field minimization, and conformation generation.;We present OSIRIS, an entirely in-house developed drug discovery informatics system. Its components cover all information handling aspects from compound synthesis via biological testing to preclinical development. Its design principles are platform and vendor independence, a consistent look and feel, and complete coverage of the drug discovery process by custom tailored applications. These include electronic laboratory notebook applications for biology and chemistry, tools for high-throughput and secondary screening evaluation, chemistry-aware data visualization, physicochemical property prediction, 3D-pharmacophore comparisons, interactive modeling, computing grid based ligand-protein docking, and more. Most applications are developed in Java and are built on top of a Java library layer that provides reusable cheminformatics functionality and GUI components such as chemical editors, structure canonicalization, substructure search, combinatorial enumeration, enhanced stereo perception, force field minimization, and conformation generation.;We present OSIRIS, an entirely in-house developed drug discovery informatics system. Its components cover all information handling aspects from compound synthesis via biological testing to preclinical development. Its design principles are platform and vendor independence, a consistent look and feel, and complete coverage of the drug discovery process by custom tailored applications. These include electronic laboratory notebook applications for biology and chemistry, tools for high-throughput and secondary screening evaluation, chemistry-aware data visualization, physicochemical property prediction, 3D-pharmacophore comparisons, interactive modeling, computing grid based ligand-protein docking, and more. Most applications are developed in Java and are built on top of a Java library layer that provides reusable cheminformatics functionality and GUI components such as chemical editors, structure canonicalization, substructure search, combinatorial enumeration, enhanced stereo perception, force field minimization, and conformation generation. [PUBLICATION ABSTRACT];We present OSIRIS, an entirely in-house developed drug discovery informatics system. Its components cover all information handling aspects from compound synthesis via biological testing to preclinical development. Its design principles are platform and vendor independence, a consistent look and feel, and complete coverage of the drug discovery process by custom tailored applications. These include electronic laboratory notebook applications for biology and chemistry, tools for high-throughput and secondary screening evaluation, chemistry-aware data visualization, physicochemical property prediction, 3D-pharmacophore comparisons, interactive modeling, computing grid based ligand-protein docking, and more. Most applications are developed in Java and are built on top of a Java library layer that provides reusable cheminformatics functionality and GUI components such as chemical editors, st ucture canonicalization, substructure search, combinatorial enumeration, enhanced stereo perception, force field minimization, and conformation generation. [PUBLICATION ABSTRACT];", "publicationTitle": "JOURNAL OF CHEMICAL INFORMATION AND MODELING", "publisher": "", "place": "", "date": "2009", "volume": "49", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "232-246", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1021/ci800305f", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwjV1bS8MwFD6ILwoi3q1OCOqj1SZpQvoou7A9CU6fS64yGEW27mH_3qSXuXmBvea0gZ6053zpOd8XAEoek_hHTPCw3BkstONUS6stV5xKZ_zr5CGDycwmCR7u_inoE_ykJ6LCvS4Q1n26D2ioO26DL6VZdYZoEB6LM5bxVkxo_c7NFPQLV_6dglgIn4MjOGyAInquV_YYdmxxAnvd9ny2Uxi-jEevo_EDkgXqF6UPXdMlmhTx0O_lLWqagaxBvdniA_Umcx2aNZeo4R8FdWZUy5Wfwfug_9Ydxs25CLHG3McEwwIRXHCnGDNWewTgx_2Qs0wmGdWJFFIxwZWwiUsk9h-1ktbIxBqdKu7oORzI0D9flBXPzlwCcpZmfjYltUzTLE2VsoZJLQTXPoMTG8Ft67P8s9bByKv6NcH5yrERdFpv5lKFXzW6nOcE80pnjUVwsTKb6TTHnAU0hVMcLJXvv-cOunV-9xrB_fpirOwhknPq4ROpirER4G0u6za654HvX15t80jXsF_Xj0hMaAd2y9nC3oTmyy9YptUE", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1549-9596", "archive": "", "archiveLocation": "", "shortTitle": "OSIRIS, an Entirely in-House Developed Drug Discovery Informatics System", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "CHEMISTRY, MULTIDISCIPLINARY" }, { "tag": "COMPUTER SCIENCE, INFORMATION SYSTEMS" }, { "tag": "COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS" }, { "tag": "Chemical synthesis" }, { "tag": "Drugs" }, { "tag": "Information systems" }, { "tag": "Knowledge" }, { "tag": "LEAD DISCOVERY" }, { "tag": "Molecular chemistry" }, { "tag": "Pharmacology" }, { "tag": "Physical chemistry" }, { "tag": "Proteins" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:38Z" } }, { "key": "ZMXJKU9K", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/ZMXJKU9K", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/ZMXJKU9K", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "numChildren": 1 }, "data": { "key": "ZMXJKU9K", "version": 3, "itemType": "journalArticle", "title": "Quality control is food and drink for LIMS", "creators": [], "abstractNote": "The food industry has begun to embrace the concept of electronic lab notebooks (ELNs) as well as LIMS(Laboratary Information Management Software). The UK-based data management company IDBS has been working with Wells Dairy to implement their ELN, E-workbook. We are focused on the food and beverage business not only because it is topical, but because our purpose-built LIMS are quite suited to the requirements of the processes in this industry.", "publicationTitle": "Scientific Computing World", "publisher": "", "place": "", "date": "6", "volume": "", "issue": "100", "section": "", "partNumber": "", "partTitle": "", "pages": "20-2", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1356-7853", "archive": "", "archiveLocation": "", "shortTitle": "Quality control is food and drink for LIMS", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Quality Control" }, { "tag": "beverage industry" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:37Z" } }, { "key": "ZH48MUE4", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/ZH48MUE4", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/ZH48MUE4", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Macneil", "parsedDate": "2011", "numChildren": 1 }, "data": { "key": "ZH48MUE4", "version": 3, "itemType": "journalArticle", "title": "The benefits of integrated systems for managing both samples and experimental data: An opportunity for labs in universities and government research institutions to lead the way", "creators": [ { "creatorType": "author", "firstName": "Rory", "lastName": "Macneil" } ], "abstractNote": "Currently most biomedical labs in universities and government funded research institutions use paper lab notebooks for recording experimental data and spreadsheets for managing sample data. One consequence is that sample management and documenting experiments are viewed as separate and distinct activities, notwithstanding that samples and aliquots are an integral part of a majority of the experiments carried out by these labs.Various drivers are pushing labs towards integrated management of sample data and experimental data. These include the ever increasing amounts of both kinds of data, the increasing adoption of online collaborative tools, changing expectations about online communication, and the increasing affordability of electronic lab notebooks and sample management software. There is now an opportunity for smaller labs, which have been slow to move from paper to electronic record keeping, to leapfrog better resourced commercial labs and lead the way in adopting the new generation of tools which permit integrated management of samples and experimental data and a range of tangible benefits to conducting research, including:1. Fewer lost and mislabelled samples2. Clearer visualization of relationships between samples and experiments3. Reduction of experimental error4. More effective search5. Productivity gains6. More efficient use of freezers, leading to cost reduction and enhanced sustainability7. Improved archiving and enhanced memory at the lab and institutional levels;Currently most biomedical labs in universities and government funded research institutions use paper lab notebooks for recording experimental data and spreadsheets for managing sample data. One consequence is that sample management and documenting experiments are viewed as separate and distinct activities, notwithstanding that samples and aliquots are an integral part of a majority of the experiments carried out by these labs.Various drivers are pushing labs towards integrated management of sample data and experimental data. These include the ever increasing amounts of both kinds of data, the increasing adoption of online collaborative tools, changing expectations about online communication, and the increasing affordability of electronic lab notebooks and sample management software. There is now an opportunity for smaller labs, which have been slow to move from paper to electronic record keeping, to leapfrog better resourced commercial labs and lead the way in adopting the new generation of tools which permit integrated management of samples and experimental data and a range of tangible benefits to conducting research, including:1. Fewer lost and mislabelled samples2. Clearer visualization of relationships between samples and experiments3. Reduction of experimental error4. More effective search5. Productivity gains6. More efficient use of freezers, leading to cost reduction and enhanced sustainability7. Improved archiving and enhanced memory at the lab and institutional levels.;Currently most biomedical labs in universities and government funded research institutions use paper lab notebooks for recording experimental data and spreadsheets for managing sample data. One consequence is that sample management and documenting experiments are viewed as separate and distinct activities, notwithstanding that samples and aliquots are an integral part of a majority of the experiments carried out by these labs.;", "publicationTitle": "Automated experimentation", "publisher": "", "place": "", "date": "2011", "volume": "3", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "2-2", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1186/1759-4499-3-2", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwpV07T8MwELaAASEhxJvykG5iMzi24yRsBVGxsMHCEvmRQKXSIpIK9V_xEznnpSYrs31WlM---y65-0yI4DeMDnyCFNphMmSly5QWGbNh6JjmyOwwQKqqR2ytCb7TTBr80A9idYvhLqESeToVFF3vZsCqrq37t9b_Kt9rWrVBNhNbZc2h8aDFfdaLTI1_7lNN5V3rZJ_sNWQRxjW6B2Qjmx-S7efmd_gR-UWQwaC3yqdlAYscOvEHB7VEcwFISuGzuYwIDOIChfaKwAXouYN1gX_w1aJ3MJ7D4suz8iWe9lVljzulwLVh2VZxTBvz9-6mXmhUgz5wXl1-4PczlAuY4S4CpJnwo1fH5HXy-PLwRJsrGKjhSA1obDnPmeMisjqXeYbxTqvEMkyDdJxIKUMnMQGSSuPrzazTRtgkDkODWWVoQylOyK72pfrzsmrpc2cENGMGkyQdZ0jmAsuMEiawyrlQCxtHbkSSHi7pV627kXol7P4IHsrUY5p6TFOR8hG5bjHszKo0J1bDiace4dQfY1zKplzxhHk1OxypQe8WwKyNRUikz__xYBdkp_4arSiPLslW-b3MrnwR5x90F_Ke", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1759-4499", "archive": "", "archiveLocation": "", "shortTitle": "The benefits of integrated systems for managing both samples and experimental data: An opportunity for labs in universities and government research institutions to lead the way", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Analysis" }, { "tag": "Decision-making" }, { "tag": "Information management" }, { "tag": "Management" }, { "tag": "Medical laboratories" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:36Z" } }, { "key": "Z4UJEAR8", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/Z4UJEAR8", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/Z4UJEAR8", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Schatzberg et al.", "parsedDate": "2009", "numChildren": 1 }, "data": { "key": "Z4UJEAR8", "version": 3, "itemType": "journalArticle", "title": "CHED 409-Does year in school have an effect upon students using an electronic laboratory notebook program?", "creators": [ { "creatorType": "author", "firstName": "W. E.", "lastName": "Schatzberg" }, { "creatorType": "author", "firstName": "J. P.", "lastName": "Suits" }, { "creatorType": "author", "firstName": "K.", "lastName": "Pacheco" } ], "abstractNote": "", "publicationTitle": "ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY", "publisher": "", "place": "", "date": "2009", "volume": "238", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMw3Z3PS8MwFMeDehJEFBXnD8hBvJTK2rRdexCZXWXeBquIp9GmKZtgN2x70L_evKZN06Kws9dtlNJ8m31f3nufhxAx74Z6b0_gtjxNDJemDqERo8yJHRKlCZcTtwyJl3Sb4GVNe_vZf1h4fxpMNB5P6ZM1y7UvAPWsMi0XtM0lDBvir7Qo49DKDV_8XOAtc63MRceipszGqUUCmfhsXVSp1aamq1cTOH6E-ct-WA1Dn41n0LtQlxTJ0ZIqgOE5CKWNntNlVHw3pWavsjtiXq4KITTZhjYDAjVdtye0zZGFB2ewoqPyT-KD3KAdGwz_SN2gTcF_6cKye39isrSwyq2OXB4XVm7kFgjqH8mKFvcs01_muzw8dyFIfwtUppE3Imq2k5s-0sEQEo8o_b_c4_IoTcUIOrZqow1ucj2FCQQTwOxhJ3vN71Huk4bJo17SYtQMB6YHtbYTkG-u6wjwff18fvdJBDxBeIQO62gGj4UKj9EOy07QOygQNwrEoEC8yrBQIAYF4ijDQoEYFIgbBeJKgdW3UoG4VSBuFIhrBT6cIu0pCP2prt7lYiMIKoveIpEzdBBBQ0dWVI2fyTnCKSOebSdxRCPL8iwrjlliR5Q_B8otpckG6GabSw-Qsc3P_BqIDyCI4mK7S1-i_VbcV2iv-CzZNdTl_gA4soXZ", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "0065-7727", "archive": "", "archiveLocation": "", "shortTitle": "CHED 409-Does year in school have an effect upon students using an electronic laboratory notebook program?", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "CHEMISTRY" }, { "tag": "MULTIDISCIPLINARY" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:35Z" } }, { "key": "Z4MPXMP9", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/Z4MPXMP9", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/Z4MPXMP9", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Hagerty and Reimer", "parsedDate": "2006", "numChildren": 1 }, "data": { "key": "Z4MPXMP9", "version": 3, "itemType": "journalArticle", "title": "Document or perish: Laboratory notebooks, electronic documents and other forms of documenting your ideas", "creators": [ { "creatorType": "author", "firstName": "P. R.", "lastName": "Hagerty" }, { "creatorType": "author", "firstName": "L. M.", "lastName": "Reimer" } ], "abstractNote": "", "publicationTitle": "ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY", "publisher": "", "place": "", "date": "2006", "volume": "231", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMw3V3PS8MwFA7qSRBRVJw_IAfxMitt02at4GGOiYKHgfWw02ib1PVgJ7U7-N-bl2RNOhR29tp1pTQfL9_Le-_7ECL-reusxQRBywvmRXlBSZ7ynNOMkrRgAk6CMrCYdYfgW9NOc-0_LLzYNpaqwl-DKHH5NYes_0UtNlTUq0UjS6RyBS0bHKb_qFSb5WSWnG2UzR6rH-Fk4Vu8Rr9kXDcWrTRsH8B_eZRIM_TJcAKzC7qlqLWWtAUYnsfJ1MS_d9D4lZTWlJ54qa1d9IG6dThBHDUB_6e2QxuKaQjUfmCHYl_vCB1Z7LXtqm0idBXf8MH3NCL0GrTSP1iZN_e8ct5et0UiHkE6Ph3b6kXxgNh1TUHvSEdwkMTEmvQVbFbkY7ZgIA1twuwJOhtb6j_g9RW6nTq175qI6PkivyVGMM2j4BNkCCaIu0URVRL3-vv8zogC2M2TA7Sv8xY8VHg7RFu8OkLzFdbwosYKa3fYIA23SLvBBme4xRkWOMMSZ1jiDC8KbOEMA86wxNkx6j-Ok9GTY7_j7FMppczWloicoL0UBjeqRg54slOEC07iMGRZmqdBEAdBlnEWprn4Crmgjj7voatNHt1D3ia3jbTwPQg-NGebPfoc7RpoX6Cdpl7yS-i__QElXYCR", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "0065-7727", "archive": "", "archiveLocation": "", "shortTitle": "Document or perish: Laboratory notebooks, electronic documents and other forms of documenting your ideas", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "CHEMISTRY" }, { "tag": "MULTIDISCIPLINARY" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:34Z" } }, { "key": "Z4JXJF3P", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/Z4JXJF3P", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/Z4JXJF3P", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Macdonald and Macneil", "parsedDate": "2015", "numChildren": 1 }, "data": { "key": "Z4JXJF3P", "version": 3, "itemType": "journalArticle", "title": "Service Integration to Enhance Research Data Management: RSpace Electronic Laboratory Notebook Case Study", "creators": [ { "creatorType": "author", "firstName": "Stuart", "lastName": "Macdonald" }, { "creatorType": "author", "firstName": "Rory", "lastName": "Macneil" } ], "abstractNote": "Research Data Management (RDM) provides a framework that supports researchers and their data throughout the course of their research and is increasingly regarded as one of the essential areas of responsible conduct of research. New tools and infrastructures make possible the generation of large volumes of digital research data in a myriad of formats. This facilitates new ways to analyse, share and reuse these outputs, with libraries, IT services and other service units within academic institutions working together with the research community to develop RDM infrastructures to curate and preserve this type of research output and make them re-usable for future generations. Working on the principle that a rationalised and continuous flow of data between systems and across institutional boundaries is one of the core goals of information management, this paper will highlight service integration via Electronic Laboratory Notebooks (ELN), which streamline research data workflows, result in efficiency gains for researchers, research administrators and other stakeholders, and ultimately enhance the RDM process.", "publicationTitle": "International Journal of Digital Curation", "publisher": "", "place": "", "date": "2015", "volume": "10", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "163-172", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.2218/ijdc.v10i1.354", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMw3V3La9swGBfpToMyukdp1xZ06g7BmR6OLBd62LKMHcYubc9GluTUgzkluPv7--mF7XSnsdOuItjK9_38vR8IcbYg2Z5MkEQaxvPS6NrawpZSc1MIUTdElbT0G1pGTfCztOx1OPsfGB-_fh_r20T-goG57u59d0AqtQN-92pU_eIr427Ag7bz9bAa53vAiEvE_9j2PrM6X4Hi8_WHk4zw89BitHO_tBu3mGS-etxNsv7wBLi923xkfHx6SP3Ay-C0s7H6I8Yk6DKVMaeg4aSmZA1K2KeMRmK2yEUGvmkcgv2HsySbyTMMBkFLo1gMOpuG9T_76oCB_QJcb38avfhNSUsXPEysns7dHk1a3Zu77SoUq-1uU0VuVpIoKSmRSguWqwIArAyhNWmkIKbR8tINbP9lWt1f2y67uzlAB0tZJE8_GAhLN8oz9OmGPxxmibrLfpxedWIrjVZKzHJnA9weoVeRm_hTuN9rNLPdG3QRe17wJY5NbY69OGqLt6iNSMQjJOJ-iyMScUIidkjEAxKvcMAhHnCIBxzihEPscIg9Dt-hu6_r29W3LG72yDTY8zIDu902OdCyVMQQoznTmsIBq8F8Z4224EaYonRZZGJBYCgtG210bjhtBLeMH6ND5TpAut53ipoThFWt3HhGbRmtc5abeik4mJ9SlFw0NTWn6EMiZvUQJrlU4AE7sleO7JUnewVkP0WfPePTr_4KCe__xUPO0Mvh8zpHL_rdo71wpb9PlFS8Gw", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1746-8256", "archive": "", "archiveLocation": "", "shortTitle": "Service Integration to Enhance Research Data Management: RSpace Electronic Laboratory Notebook Case Study", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Bibliography. Library science. Information resources" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:33Z" } }, { "key": "Z254XFBK", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/Z254XFBK", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/Z254XFBK", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Rocci et al.", "parsedDate": "2014-10", "numChildren": 1 }, "data": { "key": "Z254XFBK", "version": 3, "itemType": "journalArticle", "title": "7th GCC Insights: incurred samples use; fit-for-purpose validation, solution stability, electronic laboratory notebook and hyperlipidemic matrix testing", "creators": [ { "creatorType": "author", "firstName": "M.", "lastName": "Rocci" }, { "creatorType": "author", "firstName": "S.", "lastName": "Lowes" }, { "creatorType": "author", "firstName": "R.", "lastName": "Shoup" }, { "creatorType": "author", "firstName": "F.", "lastName": "Garofolo" }, { "creatorType": "author", "firstName": "R.", "lastName": "Farmen" }, { "creatorType": "author", "firstName": "T.", "lastName": "Zhang" }, { "creatorType": "author", "firstName": "J.", "lastName": "Allinson" }, { "creatorType": "author", "firstName": "D.", "lastName": "Gouty" }, { "creatorType": "author", "firstName": "R.", "lastName": "Hayes" }, { "creatorType": "author", "firstName": "R.", "lastName": "Nicholson" }, { "creatorType": "author", "firstName": "R.", "lastName": "Houghton" }, { "creatorType": "author", "firstName": "I.", "lastName": "Dumont" }, { "creatorType": "author", "firstName": "R.", "lastName": "LeLacheur" }, { "creatorType": "author", "firstName": "J.", "lastName": "Zimmer" }, { "creatorType": "author", "firstName": "M.", "lastName": "Cruz Caturla" }, { "creatorType": "author", "firstName": "P.", "lastName": "Couerbe" }, { "creatorType": "author", "firstName": "K.", "lastName": "Awaiye" }, { "creatorType": "author", "firstName": "S.", "lastName": "Fatmi" }, { "creatorType": "author", "firstName": "C.", "lastName": "Sheldon" }, { "creatorType": "author", "firstName": "J.", "lastName": "Bower" }, { "creatorType": "author", "firstName": "M.", "lastName": "Fiscella" }, { "creatorType": "author", "firstName": "D.", "lastName": "Fast" }, { "creatorType": "author", "firstName": "S.", "lastName": "Cape" }, { "creatorType": "author", "firstName": "J.", "lastName": "Hulse" }, { "creatorType": "author", "firstName": "J.", "lastName": "Kamerud" }, { "creatorType": "author", "firstName": "S.", "lastName": "Pasas-Farmer" }, { "creatorType": "author", "firstName": "W.", "lastName": "Garofolo" }, { "creatorType": "author", "firstName": "M.", "lastName": "Moussallie" }, { "creatorType": "author", "firstName": "M.", "lastName": "Buonarati" }, { "creatorType": "author", "firstName": "N.", "lastName": "Boudreau" }, { "creatorType": "author", "firstName": "B.", "lastName": "Pellerin" }, { "creatorType": "author", "firstName": "J.", "lastName": "Lin" }, { "creatorType": "author", "firstName": "A.", "lastName": "Xu" }, { "creatorType": "author", "firstName": "M.", "lastName": "Bouhajib" }, { "creatorType": "author", "firstName": "M.", "lastName": "Stipancic" }, { "creatorType": "author", "firstName": "C.", "lastName": "Nehls" }, { "creatorType": "author", "firstName": "M.", "lastName": "Warren" }, { "creatorType": "author", "firstName": "S.", "lastName": "Karnik" }, { "creatorType": "author", "firstName": "C.", "lastName": "Stovold" }, { "creatorType": "author", "firstName": "S.", "lastName": "Reuschel" }, { "creatorType": "author", "firstName": "L.", "lastName": "Cojocaru" }, { "creatorType": "author", "firstName": "J.", "lastName": "Marcelletti" }, { "creatorType": "author", "firstName": "X.", "lastName": "Fang" }, { "creatorType": "author", "firstName": "I.", "lastName": "Smith" }, { "creatorType": "author", "firstName": "A.", "lastName": "Watson" } ], "abstractNote": "", "publicationTitle": "Bioanalysis", "publisher": "", "place": "", "date": "2014 Oct", "volume": "6", "issue": "20", "section": "", "partNumber": "", "partTitle": "", "pages": "2713-20", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.4155/bio.14.231", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1757-6199 (Electronic) 1757-6180 (Linking)", "archive": "", "archiveLocation": "25413703", "shortTitle": "7th GCC Insights: incurred samples use; fit-for-purpose validation, solution stability, electronic laboratory notebook and hyperlipidemic matrix testing", "language": "eng", "libraryCatalog": "NLM", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Biological Markers/analysis" }, { "tag": "Clinical Laboratory Techniques" }, { "tag": "Electronic Health Records" }, { "tag": "Eln" }, { "tag": "Guidelines as Topic" }, { "tag": "Humans" }, { "tag": "Hyperlipidemias/ diagnosis" }, { "tag": "Iss" }, { "tag": "biomarker validation" }, { "tag": "electronic laboratory notebook" }, { "tag": "fit-for-purpose validation" }, { "tag": "hyperlipidemic matrix" }, { "tag": "incurred sample stability" }, { "tag": "incurred samples" }, { "tag": "lipemic plasma" }, { "tag": "solution stability" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:32Z" } }, { "key": "XZHKA4J9", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XZHKA4J9", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XZHKA4J9", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Upchurch and Sims-Knight", "parsedDate": "1997", "numChildren": 1 }, "data": { "key": "XZHKA4J9", "version": 3, "itemType": "conferencePaper", "title": "Integrating software process in computer science curriculum", "creators": [ { "creatorType": "author", "firstName": "R. L.", "lastName": "Upchurch" }, { "creatorType": "author", "firstName": "J. E.", "lastName": "Sims-Knight" } ], "abstractNote": "Software process-planning, evaluation and modification of development activities based on metrics and measurement must be integrated into the computer science curriculum if it is to stay apace with the needs of modern software organizations. We developed software process activities and implemented them in a laboratory in conjunction with the third course of the computer science major. Students used practices such as postmortem analysis and measurement-based planning to gain control over their program development activities. Students kept electronic design notebooks that included pre/post surveys and postmortems on activities. Students used the data from their programming projects, collected during reviews and postmortems, in planning the next project. We used cognitive apprenticeship techniques so that students could not only understand the concepts but be able to apply them. At the end of the course surveys of the students indicated that they had (a) understood the software process concepts, (b) changed their own practices, (c) appreciated the value of such practices and (d) increased their commitment to a software engineering career. The laboratory developed in this project is not tied to a particular content but is generally applicable to any course with programming projects.", "proceedingsTitle": "", "conferenceName": "Proceedings Frontiers in Education 1997 27th Annual Conference. Teaching and Learning in an Era of Change, 5-8 Nov. 1997", "publisher": "Stipes Publishing", "place": "", "date": "1997", "eventPlace": "", "volume": "vol.2", "issue": "", "numberOfVolumes": "", "pages": "867-71", "series": "Proceedings. Frontiers in Education 1997, 27th Annual Conference. Teaching and Learning in an Era of Change (IEEE Cat. No.97CH36099)", "seriesNumber": "", "DOI": "10.1109/FIE.1997.635990", "ISBN": "", "citationKey": "", "url": "http://dx.doi.org/10.1109/FIE.1997.635990", "accessDate": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "Integrating software process in computer science curriculum", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "computer science education" }, { "tag": "educational courses" }, { "tag": "programming" }, { "tag": "software engineering" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:31Z" } }, { "key": "XXZQ94TT", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XXZQ94TT", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XXZQ94TT", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Wang et al.", "parsedDate": "2014", "numChildren": 1 }, "data": { "key": "XXZQ94TT", "version": 3, "itemType": "journalArticle", "title": "Use of a Wiki-Based Software to Manage Research Group Activities", "creators": [ { "creatorType": "author", "firstName": "Ting", "lastName": "Wang" }, { "creatorType": "author", "firstName": "Dmitri V.", "lastName": "Vezenov" }, { "creatorType": "author", "firstName": "Brian", "lastName": "Simboli" } ], "abstractNote": "This paper discusses use of the wiki software Confluence to organize research group activities and lab resources. Confluence can serve as an electronic lab notebook (ELN), as well as an information management and collaboration tool. The article provides a case study in how researchers can use wiki software in \"home-grown\" fashion to organize their research activities and how librarians can play a role in exploring or advocating wiki software for these purposes. Most of the focus in our discussion will be on ELNs, but we will also address other uses of Confluence. [ABSTRACT FROM AUTHOR]\nCopyright of Issues in Science & Technology Librarianship is the property of Association of College & Research Libraries and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)", "publicationTitle": "Issues in Science & Technology Librarianship", "publisher": "", "place": "", "date": "2014 Summer", "volume": "", "issue": "77", "section": "", "partNumber": "", "partTitle": "", "pages": "2-2", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.5062/F4KS6PJ1", "citationKey": "", "url": "http://login.ezproxy.lib.vt.edu/login?url=http://search.ebscohost.com/login.aspx?direct=true&db=lxh&AN=98514538&scope=site", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "10921206", "archive": "lxh", "archiveLocation": "98514538", "shortTitle": "Use of a Wiki-Based Software to Manage Research Group Activities", "language": "", "libraryCatalog": "EBSCOhost", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "COMPUTER software" }, { "tag": "INFORMATION resources management -- Software" }, { "tag": "LIBRARIANS" }, { "tag": "RESEARCH teams" }, { "tag": "WIKIS (Computer science)" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:30Z" } }, { "key": "XTXQMBQ9", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XTXQMBQ9", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XTXQMBQ9", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Quinnell et al.", "parsedDate": "2009", "numChildren": 1 }, "data": { "key": "XTXQMBQ9", "version": 3, "itemType": "conferencePaper", "title": "eScience: Evaluating electronic laboratory notebooks in chemistry research", "creators": [ { "creatorType": "author", "firstName": "Rosanne", "lastName": "Quinnell" }, { "creatorType": "author", "firstName": "D. Brynn", "lastName": "Hibbert" }, { "creatorType": "author", "firstName": "Andrew", "lastName": "Milsted" } ], "abstractNote": "The School of Chemistry at UNSW is undertaking a trial of an electronic laboratory notebook (ELN) with selected honours and postgraduate research students. This ELN was developed at the University of Southampton and has been designed to accommodate the diversity of research in science. The concept of an ELN is that all the data from instruments, the observations of a researcher, their notes, thoughts, etc, will be captured within the ELN. The UNSW/Southampton ELN is a blog of each researcher's experiments, which resides on a secure server and is accessed through the web. It is intended that data will be readily retrievable for creating presentations, writing papers and ultimately the student's thesis. The project has obtained a number of input devices (e.g. netbook, tablet and notebook PCs, PDA) and will trial their use with the web site. The central part of this trial is the perceptions of staff and students as to the merits of adopting an ELN and the usefulness of an ELN to access experimental data more efficiently and to enhance communication between students and their supervisor(s). 2009 Rosanne Quinnell, D. Brynn Hibbert and Andrew Milsted.", "proceedingsTitle": "", "conferenceName": "26th Annual Conference of the Australasian Society for Computers in Learning in Tertiary Education - \"Same places, different spaces\", ASCILITE 2009, December 6, 2009 - December 9, 2009", "publisher": "Australian Society for Computers in Tertiary Education", "place": "", "date": "2009", "eventPlace": "", "volume": "", "issue": "", "numberOfVolumes": "", "pages": "799-803", "series": "ASCILITE 2009 - The Australasian Society for Computers in Learning in Tertiary Education", "seriesNumber": "", "DOI": "", "ISBN": "", "citationKey": "", "url": "", "accessDate": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "eScience: Evaluating electronic laboratory notebooks in chemistry research", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Laptop computers" }, { "tag": "Research" }, { "tag": "Students" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:29Z" } }, { "key": "XHJZEK8F", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XHJZEK8F", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XHJZEK8F", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Prilusky et al.", "parsedDate": "2005-06", "numChildren": 1 }, "data": { "key": "XHJZEK8F", "version": 3, "itemType": "journalArticle", "title": "HalX: an open-source LIMS (Laboratory Information Management System) for small- to large-scale laboratories", "creators": [ { "creatorType": "author", "firstName": "J.", "lastName": "Prilusky" }, { "creatorType": "author", "firstName": "E.", "lastName": "Oueillet" }, { "creatorType": "author", "firstName": "N.", "lastName": "Ulryck" }, { "creatorType": "author", "firstName": "A.", "lastName": "Pajon" }, { "creatorType": "author", "firstName": "J.", "lastName": "Bernauer" }, { "creatorType": "author", "firstName": "I.", "lastName": "Krimm" }, { "creatorType": "author", "firstName": "S.", "lastName": "Quevillon-Cheruel" }, { "creatorType": "author", "firstName": "N.", "lastName": "Leulliot" }, { "creatorType": "author", "firstName": "M.", "lastName": "Graille" }, { "creatorType": "author", "firstName": "D.", "lastName": "Liger" }, { "creatorType": "author", "firstName": "L.", "lastName": "Tresaugues" }, { "creatorType": "author", "firstName": "J. L.", "lastName": "Sussman" }, { "creatorType": "author", "firstName": "J.", "lastName": "Janin" }, { "creatorType": "author", "firstName": "H.", "lastName": "van Tilbeurgh" }, { "creatorType": "author", "firstName": "A.", "lastName": "Poupon" } ], "abstractNote": "Structural genomics aims at the establishment of a universal protein- fold dictionary through systematic structure determination either by NMR or X- ray crystallography. In order to catch up with the explosive amount of protein sequence data, the structural biology laboratories are spurred to increase the speed of the structure- determination process. To achieve this goal, high-throughput robotic approaches are increasingly used in all the steps leading from cloning to data collection and even structure interpretation is becoming more and more automatic. The progress made in these areas has begun to have a significant impact on the more ' classical' structural biology laboratories, dramatically increasing the number of individual experiments. This automation creates the need for efficient data management. Here, a new piece of software, HalX, designed as an ' electronic lab book' that aims at ( i) storage and ( ii) easy access and use of all experimental data is presented. This should lead to much improved management and tracking of structural genomics experimental data.", "publicationTitle": "Acta Crystallographica Section D-Biological Crystallography", "publisher": "", "place": "", "date": "2005 Jun", "volume": "61", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "671-678", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1107/s0907444905001290", "citationKey": "", "url": "://WOS:000229436800004", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "0907-4449", "archive": "", "archiveLocation": "WOS:000229436800004", "shortTitle": "HalX: an open-source LIMS (Laboratory Information Management System) for small- to large-scale laboratories", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:28Z" } }, { "key": "XBXG53BI", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XBXG53BI", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XBXG53BI", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Butler", "parsedDate": "2005", "numChildren": 1 }, "data": { "key": "XBXG53BI", "version": 3, "itemType": "journalArticle", "title": "Electronic notebooks: A new leaf", "creators": [ { "creatorType": "author", "firstName": "Declan", "lastName": "Butler" } ], "abstractNote": "Record-keeping in the lab has stayed unchanged for hundreds of years, but today's experiments are putting huge pressure on the old ways. Declan Butler weighs up the pros and cons of electronic alternatives to that dog-eared notebook.", "publicationTitle": "Nature", "publisher": "", "place": "", "date": "2005", "volume": "436", "issue": "7047", "section": "", "partNumber": "", "partTitle": "", "pages": "20-21", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1038/436020a", "citationKey": "", "url": "http://dx.doi.org/10.1038/436020a", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "00280836", "archive": "", "archiveLocation": "", "shortTitle": "Electronic notebooks: A new leaf", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Data reduction" }, { "tag": "Electronic document exchange" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:27Z" } }, { "key": "XB5EAH7M", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/XB5EAH7M", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/XB5EAH7M", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Holzmuller-Laue et al.", "parsedDate": "2014", "numChildren": 1 }, "data": { "key": "XB5EAH7M", "version": 3, "itemType": "journalArticle", "title": "LIMS-BPMS coupling: A novel approach for flexible end-To-End workflow automation in life science laboratories, Part 1", "creators": [ { "creatorType": "author", "firstName": "Silke", "lastName": "Holzmuller-Laue" }, { "creatorType": "author", "firstName": "Bernd", "lastName": "Gode" }, { "creatorType": "author", "firstName": "Kerstin", "lastName": "Thurow" } ], "abstractNote": "Complete process documentation can be generated and controlled with BPMN 2.0-based workflow automation using a LIMS/ELN (electronic laboratory notebook). The preferred approach of a combination generic LIMS in the form of an enterprise application integration (EAI) solution and BPMN 2.0 as an intersystem and interdisciplinary automation language offers the possibility to use the systems integration that already exists in the LIMS. The process engine is an integral part of the BPMS. The BPMS handles the function of an execution-oriented integration platform. The integration environment includes manual tasks that are specified and controlled with messages or other IT support options. Regarding the integration of the structured laboratory automation system, the end-to-end workflow automation connects distributed subprocesses of the control level, the device level, the instrument level, and, if necessary, the intelligent field level. A BPMN process model integrates all distributed workflows as a black box.", "publicationTitle": "American Laboratory", "publisher": "", "place": "", "date": "2014", "volume": "46", "issue": "4", "section": "", "partNumber": "", "partTitle": "", "pages": "26-29", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "00447749", "archive": "", "archiveLocation": "", "shortTitle": "LIMS-BPMS coupling: A novel approach for flexible end-To-End workflow automation in life science laboratories, Part 1", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Automation" }, { "tag": "Integration" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:26Z" } }, { "key": "X8RA627N", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/X8RA627N", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/X8RA627N", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Zaki et al.", "parsedDate": "2013", "numChildren": 1 }, "data": { "key": "X8RA627N", "version": 3, "itemType": "journalArticle", "title": "Architecture design of a user-orientated electronic laboratory notebook: A case study within an atmospheric chemistry community", "creators": [ { "creatorType": "author", "firstName": "Z. M.", "lastName": "Zaki" }, { "creatorType": "author", "firstName": "P. M.", "lastName": "Dew" }, { "creatorType": "author", "firstName": "L. M. S.", "lastName": "Lau" }, { "creatorType": "author", "firstName": "A. R.", "lastName": "Rickard" }, { "creatorType": "author", "firstName": "J. C.", "lastName": "Young" }, { "creatorType": "author", "firstName": "T.", "lastName": "Farooq" }, { "creatorType": "author", "firstName": "M. J.", "lastName": "Pilling" }, { "creatorType": "author", "firstName": "C. J.", "lastName": "Martin" } ], "abstractNote": "Data is particularly valuable to scientists when details of its provenance are known. This research concerned deploying a user-orientated electronic laboratory notebook (ELN) system within a scientific community. The ELN system supported the capture and retrieval of semantic metadata describing the provenance of the modelling activities of scientists within that community. The research was grounded within the atmospheric chemistry community but has applicability to other communities using an iterative model development process. The ELN system involved the automatic capture of metadata concerning the modelling process together with inline annotations added by the modeller explaining the reasoning for modelling decisions at each step of the process. A full realisation of the ELN system was built and evaluated by members of the atmospheric chemistry community. In order to promote reusability the ELN system architecture had domain-independent as well as domain-dependent elements. An ontology (in OWL) was used to ensure that the specific terminology of the community was used within the provenance metadata and also that it was used consistently. Other domain-independent elements of the architecture included a dynamic graphic interface that allowed the modeller to view his/her modelling history. This was recorded as a set of nodes each pointing to the stored provenance metadata associated with a specific simulation run. In addition, there was an innovative mechanism that enabled the modeller to navigate through the various nodes. The navigation process supported making comparisons between different nodes: a facility that users found particularly valuable. Members of the atmospheric chemistry community took part in a two-day summative evaluation of the ELN system. This confirmed its value to the modellers and it is now being introduced more widely across the modelling community. In addition, the research proposes a methodology for transferring this ELN system to other modelling communities making use of the domain-independent elements of the architecture.;Data is particularly valuable to scientists when details of its provenance are known. This research concerned deploying a user-orientated electronic laboratory notebook (ELN) system within a scientific community. The ELN system supported the capture and retrieval of semantic metadata describing the provenance of the modelling activities of scientists within that community. The research was grounded within the atmospheric chemistry community but has applicability to other communities using an iterative model development process. The ELN system involved the automatic capture of metadata concerning the modelling process together with inline annotations added by the modeller explaining the reasoning for modelling decisions at each step of the process. A full realisation of the ELN system was built and evaluated by members of the atmospheric chemistry community. In order to promote reusability the ELN system architecture had domain-independent as well as domain-dependent elements. An ontology (in OWL) was used to ensure that the specific terminology of the community was used within the provenance metadata and also that it was used consistently. Other domain-independent elements of the architecture included a dynamic graphic interface that allowed the modeller to view his/her modelling history. This was recorded as a set of nodes each pointing to the stored provenance metadata associated with a specific simulation run. In addition, there was an innovative mechanism that enabled the modeller to navigate through the various nodes. The navigation process supported making comparisons between different nodes: a facility that users found particularly valuable. Members of the atmospheric chemistry community took part in a two-day summative evaluation of the ELN system. This confirmed its value to the modellers and it is now being introduced more widely across the modelling community. In addition, the research proposes a methodology for transferring this ELN system to other modelling c mmunities making use of the domain-independent elements of the architecture. (C) 2013 Elsevier B.V. All rights reserved.;", "publicationTitle": "FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF GRID COMPUTING AND ESCIENCE", "publisher": "", "place": "", "date": "2013", "volume": "29", "issue": "8", "section": "", "partNumber": "", "partTitle": "", "pages": "2182-2196", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1016/j.future.2013.04.011", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMw3V1Nj9MwELXockFCLN-UBckHxAVl1cROYiPtISpd4LBa1KZIcKkcf6DualtUsuLIX1-P7Xy0VGjPSD1UUVM1yatn_ObNG4RIcjyKdtYENmIqIZQrWWmda84kUXmWVWYkeMzdhJZeE_ygmYnXHfsfHnzRLw0oJ9DwTZDAR0TrjWuAhDyzNwEnQAHq7at17QqovmVd2iDnLWgdY7sE6fI7UV-tf4EdgT1TNgPjQJwOrSb1Vp34dO5kFV4g5wb8jM_PvsxLoLe-zcrJ2SwCzdEeY14vSPo4_fwhnAK0GnhhTQIv1lLewk_e_t6x7vp328cSXCWvPS_fZr7TpbwUXtVfTPvMR9xp6P5NxwWi1AaAnLgxvTbO-cWd5XY3Efv20Wb1D3yLRznbWsr9VKSQFtiVPdsbcjz7cXHsPWBALEiceW6IIVsO3zuRt9VDws4UMiVCXSn4Ldi-X6mlrE_0KprPBmiQsvwA3T0v5l8nbaIR52HcZrjUpjPUyRf__jlt0rEvw6KQPZQP0YOwD8KFx-8jdEevHqPDZsYIDiHnCfrThzP2cMZrgwXegTPu4Iw7OOMGzu9xgQHM2IEZezBjYV8dmHELZtyC-SkqTyfl-FMUhoZEP1hiEy5pI78xVMQiyaoqoanhXHAmJBxJ4S3TxKZkiiljEpXkMleaphXXxijCyTN0X0Bvyap2PajqBcKiEmD8KHUSVzShqkozYhNblnGSmSpWQ_QcbuwCYFFvhFwQavcJOcn4EL3p3-vFT-8gs9h53kMU3-Zj4-DaD24V9cvbffURutf9dV6hg3pzrV-DePgGGdfE5A", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "0167-739X", "archive": "", "archiveLocation": "", "shortTitle": "Architecture design of a user-orientated electronic laboratory notebook: A case study within an atmospheric chemistry community", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Analysis" }, { "tag": "Atmospheric chemistry" }, { "tag": "Atmospheric chemistry community" }, { "tag": "CHEMICAL MECHANISM" }, { "tag": "COMPUTER SCIENCE, THEORY & METHODS" }, { "tag": "Case studies" }, { "tag": "Component" }, { "tag": "ENVIRONMENT" }, { "tag": "PRINCIPLES" }, { "tag": "PROTOCOL" }, { "tag": "Provenance" }, { "tag": "SOCIOTECHNICAL DESIGN" }, { "tag": "Semantic Web" }, { "tag": "TIME" }, { "tag": "TROPOSPHERIC DEGRADATION" }, { "tag": "VOLATILE ORGANIC-COMPOUNDS" }, { "tag": "WORKFLOW" }, { "tag": "electronic laboratory notebook" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:25Z" } }, { "key": "X89Q3HZP", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/X89Q3HZP", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/X89Q3HZP", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Polonsky et al.", "parsedDate": "2006", "numChildren": 1 }, "data": { "key": "X89Q3HZP", "version": 3, "itemType": "conferencePaper", "title": "Semantic laboratory notebook: Managing biomedical research notes and experimental data", "creators": [ { "creatorType": "author", "firstName": "Alexander", "lastName": "Polonsky" }, { "creatorType": "author", "firstName": "Adrien", "lastName": "Six" }, { "creatorType": "author", "firstName": "Mikhail", "lastName": "Kotelnikov" }, { "creatorType": "author", "firstName": "Vadim", "lastName": "Polonsky" }, { "creatorType": "author", "firstName": "Renaud", "lastName": "Polly" }, { "creatorType": "author", "firstName": "Paul", "lastName": "Brey" } ], "abstractNote": "The main raw product of biomedical research is the information contained in laboratory notebooks and the associated computer files of individual researchers. Most of the problems in managing bioresearch information downstream stem from the way this information is initially recorded and stored. Electronic notebooks based on traditional knowledge management approaches have not been widely adopted by bio-researchers - the vast majority still use paper notebooks. We describe deployment of a software system based on the semantic tagging approach that successfully addresses the key adoption problems. This case study also indicates fruitful directions for the future RandD.", "proceedingsTitle": "", "conferenceName": "3rd European Semantic Web Conference, ESWC 2006, June 12, 2006 - June 12, 2006", "publisher": "Sun SITE Central Europe CEUR-WS", "place": "", "date": "2006", "eventPlace": "", "volume": "194", "issue": "", "numberOfVolumes": "", "pages": "", "series": "CEUR Workshop Proceedings", "seriesNumber": "", "DOI": "", "ISBN": "16130073", "citationKey": "", "url": "", "accessDate": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "Semantic laboratory notebook: Managing biomedical research notes and experimental data", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Knowledge management" }, { "tag": "Research" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:24Z" } }, { "key": "X7PF34JJ", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/X7PF34JJ", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/X7PF34JJ", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Skidmore et al.", "parsedDate": "1998-11-07", "numChildren": 0 }, "data": { "key": "X7PF34JJ", "version": 3, "itemType": "conferencePaper", "title": "A Prototype Notebook-Based Environment for Computational Tools Computational Tools", "creators": [ { "creatorType": "author", "firstName": "J. L.", "lastName": "Skidmore" }, { "creatorType": "author", "firstName": "M. J.", "lastName": "Sottile" }, { "creatorType": "author", "firstName": "J. E.", "lastName": "Cuny" }, { "creatorType": "author", "firstName": "A. D.", "lastName": "Malony" } ], "abstractNote": "The Virtual Notebook Environment (ViNE) is a platform-independent, web-based interface designed to support a range of scientific activities across distributed, heterogeneous computing platforms. ViNE provides scientists with a web-based version of the common paper-based lab notebook, but in addition, it provides support for collaboration and management of computational experiments. Collaboration is supported with the web-based approach, which makes notebook material generally accessible and with a hierarchy of security mechanisms that screen that access. ViNE provides uniform, system-transparent access to data, tools, and programs throughout the scientist's computing infrastructure. Computational experiments can be launched from ViNE using a visual specification language. The scientist is freed from concerns about inter-tool connectivity, data distribution, or data management details. ViNE also provides support for dynamically linking analysis results back into the notebook content. In this paper we present the ViNE system architecture and a case study of its use in neuropsychology research at the University of Oregon. Our case study with the Brain Electrophysiology Laboratory (BEL) addresses their need for data security and management, collaborative support, and distributed analysis processes. The current version of ViNE is a prototype system being tested with this and other scientific applications.", "proceedingsTitle": "", "conferenceName": "Supercomputing, 1998.SC98. IEEE/ACM Conference on", "publisher": "", "place": "", "date": "07-13 Nov. 1998", "eventPlace": "", "volume": "", "issue": "", "numberOfVolumes": "", "pages": "22-22", "series": "", "seriesNumber": "", "DOI": "10.1109/SC.1998.10031", "ISBN": "", "citationKey": "", "url": "", "accessDate": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "A Prototype Notebook-Based Environment for Computational Tools Computational Tools", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Collaboration" }, { "tag": "Computer architecture" }, { "tag": "Computer interfaces" }, { "tag": "Data security" }, { "tag": "Electrophysiology" }, { "tag": "Joining processes" }, { "tag": "Laboratories" }, { "tag": "Prototypes" }, { "tag": "Specification languages" }, { "tag": "TOOLS" }, { "tag": "World wide web" }, { "tag": "computational science" }, { "tag": "distributed computing" }, { "tag": "electronic notebook" }, { "tag": "heterogeneous" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:23Z" } }, { "key": "WRWJ4FC7", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/WRWJ4FC7", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/WRWJ4FC7", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Baykoucheva and Friedman", "parsedDate": "2013", "numChildren": 1 }, "data": { "key": "WRWJ4FC7", "version": 3, "itemType": "journalArticle", "title": "Introducing Electronic Laboratory Notebooks (ELNs) to students and researchers at the University of Maryland College Park", "creators": [ { "creatorType": "author", "firstName": "S.", "lastName": "Baykoucheva" }, { "creatorType": "author", "firstName": "L.", "lastName": "Friedman" } ], "abstractNote": "", "publicationTitle": "ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY", "publisher": "", "place": "", "date": "2013", "volume": "246", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMw3Z1NS8NAEIYX9SSIKCp-whxEFIkk2SRNDh7akmKhloLx4KlsdxMQsZE2Ffrv3cnXbkIPPXsNISnZl-07szPPEELtJ9No7QnSlifC8nniUc5iHnszj7JESDlJyyAC0WyCr6uc1bX_sPBDrD0XK445gFANuRkVq41H6uM0y89I84RrOBovMTUgPeiy4FwW1OaSApQ3-BYNj60ijle2WGNZZJ17mFRtPxXUtocDmftRPh190p1gM0NZY1TPmtSJDMMwqn11j62_0pV8-y9r5GcHMrIXjX6JMmOB0yMCw_SVxjYAH-r92XPR73f0_dl2NrCyW_9hdWUhxnh2PsXGtHzfuUOA-rf45NlzPDfe33ZldO5jjP4R6kijoEP1w07p-WiDQkgDqrX_SosrgzSdIui5uou2pMcNNCQQDgBzzcbhtW2qbdKyZdBLFUXN8nB4kHKdSHzzfa_g3pffZ7NNomgFoiNyWAYz0C1EeEx24vkJWWsCBCVAUAKEWoBwj_J7gCyFSnwgJQWa-IBlIMUHSnyQJlCJD0rxAYrvlDwOwqj_Yug_evpT8FSmrTWjZ-SAYXvHPMvbQMU5gSSmgeuKGePMcQLHmc1i4TIuPwuXBtOOL8jtNo--INY2t_VLPD5iIbLL7R59RfaV1q_JXrZYxTdYpfsH1WiNdw", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "0065-7727", "archive": "", "archiveLocation": "", "shortTitle": "Introducing Electronic Laboratory Notebooks (ELNs) to students and researchers at the University of Maryland College Park", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "CHEMISTRY" }, { "tag": "MULTIDISCIPLINARY" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:22Z" } }, { "key": "WRS939Z2", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/WRS939Z2", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/WRS939Z2", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Tormey", "parsedDate": "2006", "numChildren": 1 }, "data": { "key": "WRS939Z2", "version": 3, "itemType": "journalArticle", "title": "IP protection and E-Notebooks - 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P. C.", "lastName": "Burns" } ], "abstractNote": "Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar.org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.;Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar. org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.;  Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar.org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context o their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.[PUBLICATION ABSTRACT];Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar.org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.;Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www.neuroscholar.org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.;Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar.org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventri ular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. 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"parsedDate": "2013", "numChildren": 1 }, "data": { "key": "W63C42WZ", "version": 3, "itemType": "journalArticle", "title": "EMEN2: An Object Oriented Database and Electronic Lab Notebook", "creators": [ { "creatorType": "author", "firstName": "I.", "lastName": "Rees" }, { "creatorType": "author", "firstName": "E.", "lastName": "Langley" }, { "creatorType": "author", "firstName": "W.", "lastName": "Chiu" }, { "creatorType": "author", "firstName": "S. J.", "lastName": "Ludtke" } ], "abstractNote": "Transmission electron microscopy and associated methods, such as single particle analysis, two-dimensional crystallography, helical reconstruction, and tomography, are highly data-intensive experimental sciences, which also have substantial variability in experimental technique. Object-oriented databases present an attractive alternative to traditional relational databases for situations where the experiments themselves are continually evolving. We present EMEN2, an easy to use object-oriented database with a highly flexible infrastructure originally targeted for transmission electron microscopy and tomography, which has been extended to be adaptable for use in virtually any experimental science. It is a pure object-oriented database designed for easy adoption in diverse laboratory environments and does not require professional database administration. It includes a full featured, dynamic web interface in addition to APIs for programmatic access. EMEN2 installations currently support roughly 800 scientists worldwide with over 1/2 million experimental records and over 20 TB of experimental data. The software is freely available with complete source. [PUBLICATION ABSTRACT];  Abstract Transmission electron microscopy and associated methods, such as single particle analysis, two-dimensional crystallography, helical reconstruction, and tomography, are highly data-intensive experimental sciences, which also have substantial variability in experimental technique. Object-oriented databases present an attractive alternative to traditional relational databases for situations where the experiments themselves are continually evolving. We present EMEN2, an easy to use object-oriented database with a highly flexible infrastructure originally targeted for transmission electron microscopy and tomography, which has been extended to be adaptable for use in virtually any experimental science. It is a pure object-oriented database designed for easy adoption in diverse laboratory environments and does not require professional database administration. It includes a full featured, dynamic web interface in addition to APIs for programmatic access. EMEN2 installations currently support roughly 800 scientists worldwide with over 1/2 million experimental records and over 20 TB of experimental data. The software is freely available with complete source. [PUBLICATION ABSTRACT];Transmission electron microscopy and associated methods, such as single particle analysis, two-dimensional crystallography, helical reconstruction, and tomography, are highly data-intensive experimental sciences, which also have substantial variability in experimental technique. Object-oriented databases present an attractive alternative to traditional relational databases for situations where the experiments themselves are continually evolving. We present EMEN2, an easy to use object-oriented database with a high y flexible infrastructure originally targeted for transmission electron microscopy and tomography, which has been extended to be adaptable for use in virtually any experimental science. It is a pure object-oriented database designed for easy adoption in diverse laboratory environments and does not require professional database administration. It includes a full featured, dynamic web interface in addition to APIs for programmatic access. EMEN2 installations currently support roughly 800 scientists worldwide with over 1/2 million experimental records and over 20 TB of experimental data. The software is freely available with complete source.;Transmission electron microscopy and associated methods, such as single particle analysis, two-dimensional crystallography, helical reconstruction, and tomography, are highly data-intensive experimental sciences, which also have substantial variability in experimental technique. Object-oriented databases present an attractive alternative to traditional relational databases for situations where the experiments themselves are continually evolving. We present EMEN2, an easy to use object-oriented database with a highly flexible infrastructure originally targeted for transmission electron microscopy and tomography, which has been extended to be adaptable for use in virtually any experimental science. It is a pure object-oriented database designed for easy adoption in diverse laboratory environments and does not require professional database administration. It includes a full featured, dynamic web interface in addition to APIs for programmatic access. EMEN2 installations currently support roughly 800 scientists worldwide with over 1/2 million experimental records and over 20 TB of experimental data. The software is freely available with complete source.;", "publicationTitle": "MICROSCOPY AND MICROANALYSIS", "publisher": "", "place": "", "date": "2013", "volume": "19", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "1-10", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1017/S1431927612014043", "citationKey": "", "url": "http://vt.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwjV1JS8NAFB5cEAQRd6sW5uA1OltmEg9KqS0exHrQc5glPZW2ajz4730vSRekDV7zJWGWx5vvzdsIkeKGRX90gpI2gDHkVci1lTnzcRyYFcDs4IDUZY7YUhJ8ldSPNwXVbs-UZKm5w8TjpfktKFa0rgRLH6YfEbaRQndr3VNjk2yjSxWtsVe9qCcFAl2lG0kepcLomZsTa0jjQ3zGRVVyZhXlXH06adS8_QOyX3NI2qk2_ZBs5OMjslN1lfw5JvdYoF_c0c6YDhxes9ABFjMGakkfbWHx3KJ2HGhv3gGHPltHXyZF6Tk9Ie_93lv3KarbJERTqQ2PnHC5cWgXmFTw3ON0eGrVUMU-uKEx3MZSg52jddBeOqmdS3MRSwdcTQkrT8mexXD6cVGm3YVzQi1jDgwZm-RAuLhnTkvHvQ4httInJrRIe7Y4mXV4KeOLr2yxJWtwpTEGxyjWhCcwjQbcAAeUjbjSqglXyjT-3ySq8fsEKGwzbkyLnM3xMBplAgwZpAuGI1LKUjatyolkQkpYkxjGdL0sXHMc5RbMXmCupSumRfh_XuvWJd6xtEFxsXY4l2RXlA0-MEDnimwVn995G4NLfwHLmhor", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1431-9276", "archive": "", "archiveLocation": "", "shortTitle": "EMEN2: An Object Oriented Database and Electronic Lab Notebook", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "00000", "tags": [ { "tag": "Automatic Data Processing" }, { "tag": "Automatic Data Processing - methods" }, { "tag": "Biology" }, { "tag": "Biology - methods" }, { "tag": "Cryoelectron Microscopy" }, { "tag": "Cryoelectron Microscopy - methods" }, { "tag": "DATA-ACQUISITION" }, { "tag": "Database" }, { "tag": "Databases, Chemical" }, { "tag": "Electron Microscope Tomography" }, { "tag": "Electron Microscope Tomography - methods" }, { "tag": "GALAXY" }, { "tag": "Html" }, { "tag": "Internet" }, { "tag": "MATERIALS SCIENCE, MULTIDISCIPLINARY" }, { "tag": "MICROSCOPY" }, { "tag": "MODEL" }, { "tag": "Management" }, { "tag": "Multiple" }, { "tag": "PLATFORM" }, { "tag": "Records" }, { "tag": "SYSTEM" }, { "tag": "Software" }, { "tag": "TEM" }, { "tag": "Types" }, { "tag": "cryo-EM" }, { "tag": "electronic notebook" }, { "tag": "fast Fourier transform" }, { "tag": "spreadsheet" }, { "tag": "web interface" } ], "collections": [], "relations": {}, "dateAdded": "2015-10-16T13:31:06Z", "dateModified": "2015-10-19T20:19:16Z" } }, { "key": "VZMSVUG9", "version": 3, "library": { "type": "group", "id": 416746, "name": "Electronic Laboratory Notebooks", "links": { "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/416746/items/VZMSVUG9", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/electronic_laboratory_notebooks/items/VZMSVUG9", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1214081, "username": "VPannabecker", "name": "Virginia Pannabecker", "links": { "alternate": { "href": "https://www.zotero.org/vpannabecker", "type": "text/html" } } }, "creatorSummary": "Weinberg and Fuqua", "parsedDate": "2011", "numChildren": 1 }, "data": { "key": "VZMSVUG9", "version": 3, "itemType": "journalArticle", "title": "A quick guide to ELN regulatory requirements", "creators": [ { "creatorType": "author", "firstName": "Sandy", "lastName": "Weinberg" }, { "creatorType": "author", "firstName": "Ronald", "lastName": "Fuqua" } ], "abstractNote": "Modern electronic laboratory notebook (ELN) systems are more efficient, more flexible, and more powerful. Regulatory agencies have provided a variety of guidance documents to define requirements for assuring accuracy, reliability and acceptability of these ELNs. The developer of an ELN system should be aware of and compliant with 21 CFR Part 11, the U.S. Food and Drug Administration (FDA) regulation of electronic signatures and systems, Good Manufacturing Practices specifically requirements for validation, and potentially the guidelines of industry supplemental organizations. Vendors seeking maximum market credibility should consider having their ELNs independently certified for compliance with US, European and Japanese requirements. 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