Core Technology Development Team Meeting
|
|
|
- Job Norris
- 5 years ago
- Views:
Transcription
1 Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: Access Code: For international call in numbers, please visit:
2 Agenda v Updates on action items v Suggestions for biocaddie Webinars v Search workflow diagram v Review of repository submission form/ response to submissions v Linkout review v Visualization plans v Updates from all team members Supported by the NIH grant 1U24 AI to the University of California, San Diego 2
3 Updates- action items v v v Other repositories should be sent to UTHealth team for integration Jeff to be mapped to DATS 2.0 w w w w w w ArrayExpress Dataverse dbgap LINCS PDB SRA Video Jeff Monthly testing of DataMed Anu/CDT Thursday, 08/04 Supported by the NIH grant 1U24 AI to the University of California, San Diego 3
4 Updates- action items v v v v v Search workflow overview - Ruiling Repository submission form SOP - George Presentation of visualization/user activity tracking system Deevakar/Ruiling Record the timestamps for queries and results retrived to determine the response time - Ruiling Pubmed link investigation - Jeff Supported by the NIH grant 1U24 AI to the University of California, San Diego 4
5 biocaddie webinars v Suggestions? v Please send to me (Anupama.E.Gururaj@uth.tmc.edu) or Elizabeth Bell (eabell@ucsd.edu) Supported by the NIH grant 1U24 AI to the University of California, San Diego 5
6 Search Workflow Diagram Search for Datasets on DataMed Website User DataMed Website Terminology Server Submit a query term Receive and process query term No selected data types Selected data types No selected access types Selected access types No selected authorization types Selected authorization types No selected repositories Selected repositories Get a list of selected repositories Simple search Receive and process query term Advanced search Get Synonyms of the query term Parse advanced search Add synonyms to query term Generate Elasticsearch query Generate Search Results and facets Display Search Results and facets View Search Results Correct misspelled words Supported by the NIH grant 1U24 AI to the University of California, San Diego 6
7 Repository Submission form v submit_repository.php v manage_submit_repository.php?show=all - Has these requests been responded to? v Reminder to be sent if no response seen for a week? Supported by the NIH grant 1U24 AI to the University of California, San Diego 7
8 LinkOut Xiaoling Chen
9 What is LinkOut v A service allows you to link from PubMed and other NCBI databases to other resources beyond the NCBI systems. v Aims to facilitate access to relevant online resources to extend, clarify, and supplement information found in NCBI databases. v Online resources that may be valuable to users of PubMed and other NCBI databases are encourage to participate in LinkOut.
10 Examples of linkout v v v
11
12 Databases available for linking
13 Type of providers v As of July 21, 2016, there are 4083 LinkOut providers. w Full-text publication w Biological databases w Consumer health information w Research tools
14 Prerequisites for Participation v Resources submitted for inclusion in LinkOut will be evaluated individually to determine whether they meet certain inclusion criteria. v Quality: LinkOut resources and the information therein must be of sufficiently high quality that NCBI database users will not be hindered, interrupted, or unnecessarily frustrated in their research. v Relevance: directly relevant to the specific subjects of the NCBI database records and useful to users' study and research.
15 Apply for Inclusion in LinkOut v To apply for inclusion in LinkOut, send an to linkout@ncbi.nlm.nih.gov. v Include the following information: w w w Name, address, and phone number of a contact person in your organization. The scope of your resource, including the URL of the resource. Also, please describe the type of NCBI database records to which you would like to apply links. Describe any restrictions on access to the resource. v A LinkOut team member will the contact person within 1 week regarding your request.
16 Files for inclusion v LinkOut requires two types of files to describe online resources v w w Identity files (XML) Resource files (XML, CSV, Simple Text) These files are specified in the LinkOut DTD. These files include the necessary elements for the NCBI retrieval system to construct an appropriate URL to access specific resources.
17 File Transfer v When you receive your account information, validate the files using the LinkOut File Validation Utility and transfer all files via FTP to the host FTPprivate.ncbi.nlm.nih.gov. v Inform the LinkOut team at linkout@ncbi.nlm.nih.gov v Your files will be given a final evaluation before being placed in the production queue. From this point on, files will be processed automatically every day.
18 Provider Responsibilities v maintaining their LinkOut files v transferring any additions, changes or deletions of their links to NCBI v updating files and informing NCBI when access rights are changed v correcting broken or incorrect links in a timely manner v Participation in LinkOut is free and voluntary, and so may be discontinued at any time. Submission of links is at the provider s discretion; participants may choose not to submit links to certain portions of their resource.
19 Provider Statistics v LinkOut collects statistics on the number of clicks on each providers s links in the LinkOut display. v Statistics can be ed to the LinkOut contact monthly.
20 Links v Homepage: w linkout/doc/linkout.html Identify file: w NBK3802/ #nonbib.file_preparation_identity_file v Source file: w NBK3802/ #nonbib.file_preparation_resource_file_xm
21 Visualizations for DataMed Website
22 Visualization 1
23 Populati on On Click of bar keywor d cloud of results Organis m System Organ Tissue Cell Molecule Genome Gene PDB (23) Mouseover Repository Name and number of results Nucleoti de Chemistr y Book Stack - Bins are the data types - Thicker book = more results - Taller book = high ranking
24 v Pros: Book Stack w Scalable stack more repositories in bin, adjust width and spaces w Visible index data types and repositories contained within bin v Cons w Multiple datatype relationships w Thickness and Height may be confusing / not evident
25 Visualization 2
26 Spoke and Wheel - Wheel is divided into datatypes - Spokes are the repositories Word cloud of a repository Repositoriescolor = importance of the repository
27
28 Spoke and Wheel v Pros: w Scalable, by adjusting the density, and the bins w Can fit in smaller screen space v Cons w Multiple datatype relationships w Not easy to click / pick a repository w limited space to display word cloud
29 Github Issues Total Issues 138 Number Open 66 Number Closed 72 Associated with v1.0 Usability Issues Associated with v0.5 Number of Bugs Number of Enhancements Number of QuesOons Number Open 9 Number Closed 1 Number Open 29 Number Closed 0 Number Open 38 Number Closed 46 Number Open 7 Number Closed 10 Number Open 27 Number Closed 20 Number Open 8 Number Closed 9 Supported by the NIH grant 1U24 AI to the University of California, San Diego 29
30 Ongoing work Task Status 1 Metadata Ingestion 1.1 Import repositories expansion Ongoing 1.2 Data repository suggestion form at DataMed - George 1.3 Metadata mapping review/ reconciliation between curators Ongoing 1.4 Metadata management Ongoing 1.5 Indexing Ongoing 1.6 NLP-based indexing : Gene/protein, Disease, Drug/chemical, Evaluation Biological process, Organism, Format, Access, Cell types phase 1.7 Bulk download of indices 2 Terminology server 2.3 Integrate terminology server (Indexing) Ongoing 4 Interface Design 4.2 Design interface usability issues Ongoing 4.5 Display most Accessed Datasets Not Started Supported by the NIH grant 1U24 AI to the University of California, San Diego 30
31 Ongoing work Task Status 5 Personalized search 5.1 Improve the tracking system Ongoing 6 Searching/Ranking algorithms 6.1 Similar datasets to be expanded Ongoing 7 Display of results 7.1 Sort datasets author, published date, repository, title Ongoing 7.2 What fields should be displayed? Ongoing 7.3 Additional filters: File type Data Restrictions (data use agreement, restricted, unrestricted) Data Level (participant/aggregate) Population (mouse, human, etc) Not started 8 Link to external resources Pubmed: click through to pubmed records of citing publications: copy citation to clipboard 2. Scholix Framework for Linking Data and Literature Not Started Supported by the NIH grant 1U24 AI to the University of California, San Diego 31
32 Ongoing work Task Status 10 Documentation 10.1 Source code Ongoing 10.2 Tutorials Not Started 10.3 Help menu Not Started 10.4 Video Ongoing 11 Usability studies 11.2 User studies Ongoing Data Duplication issue: Create a plan for how to best display/represent the duplicate in the metadata records and set up a meeting to discuss the workflow for displaying the duplicates in the metadata records Jeff/Anu 12 Additional field in index 13 Generation of benchmark for the dataset 13.4 Execute designed queries and annotate results Ongoing 14 Relationship Network Graph 15 Collaborative research support Supported by the NIH grant 1U24 AI to the University of California, San Diego 32
33 Other issues v Please deposit codes in GitHub. Please contact me at Anupama.E.Gururaj@uth.tmc.edu if you need access v Any other issues? v Thank You
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Metadata Ingestion and Processinng
biomedical and healthcare Data Discovery Index Ecosystem Ingestion and Processinng Jeffrey S. Grethe, Ph.D. 2017 BioCADDIE All Hands Meeting prototype Ingestion Indexing Repositories Ingestion ElasticSearch
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Minutes. Date: Location: UCSD BRF2 5A03. Attendees Present
Executive Committee Meeting Location: UCSD BRF2 5A03 Date: 8-16-16 Start time: 10:00 am PDT End time: 11:30 am PDT Meeting Objective Attendees Present Minute Taker Executive Committee Meeting UCSD: Lucila
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Agenda. Clarification of issues Quarter definition Steering and Executive Committee composition Dissemination and community outreach activities
Agenda Clarification of issues Quarter definition Steering and Executive Committee composition Dissemination and community outreach activities Progress and updates Y1Q3 and plans for Y1Q4 Plan for the
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
The Final Updates. Philippe Rocca-Serra Alejandra Gonzalez-Beltran, Susanna-Assunta Sansone, Oxford e-research Centre, University of Oxford, UK
The Final Updates Supported by the NIH grant 1U24 AI117966-01 to UCSD PI, Co-Investigators at: Philippe Rocca-Serra Alejandra Gonzalez-Beltran, Susanna-Assunta Sansone, Oxford e-research Centre, University
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please isit: https://www.readytalk.com/account-administration/international-numbers
Linking data and publications the past, present, and future. Dr. Hylke Koers, Head of Content Innovation, Elsevier
Linking data and publications the past, present, and future Dr. Hylke Koers, Head of Content Innovation, Elsevier BioCADDIE webinar January 8, 2015 Ease of access Open Access 2 The issue: data is important,
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
NCBI News, November 2009
Peter Cooper, Ph.D. NCBI cooper@ncbi.nlm.nh.gov Dawn Lipshultz, M.S. NCBI lipshult@ncbi.nlm.nih.gov Featured Resource: New Discovery-oriented PubMed and NCBI Homepage The NCBI Site Guide A new and improved
Susanna-Assunta Sansone, PhD. Metadata WG3 chair.
Susanna-Assunta Sansone, PhD Metadata WG3 chair 3-workgroup@biocaddie.org WG3 Metadata v v Full description: goals, synergies, phases, members & files Joint effort with BD2K Center for Expanded Data Annotation
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
HRA Open User Guide for Awardees
HRA Open User Guide for Awardees HRA Open is an web-based service sponsored by the Health Research Alliance (HRA) that promotes open access by linking your award information with PubMed Central so you
Data publication and discovery with Globus
Data publication and discovery with Globus Questions and comments to outreach@globus.org The Globus data publication and discovery services make it easy for institutions and projects to establish collections,
eveloping DataMed the current status
eeloping DataMed the current status Hua Xu Core Deelopment Team (CDT) biocaddie AHM 2017 8/8/17 Supported by the NIH grant 1U24 AI117966-01 to the Uniersity of California, San Diego 1 Outline CDT Roles
Data Curation Profile Human Genomics
Data Curation Profile Human Genomics Profile Author Profile Author Institution Name Contact J. Carlson N. Brown Purdue University J. Carlson, jrcarlso@purdue.edu Date of Creation October 27, 2009 Date
Linking data and publications the past, present, and future. Dr. Hylke Koers, Head of Content Innovation, Elsevier
Linking data and publications the past, present, and future Dr. Hylke Koers, Head of Content Innovation, Elsevier STM Innovations Seminar, 3 Dec 2014 Ease of access Open Access 2 The issue: data is important,
NIH PUBLIC ACCESS Policy WORKSHOP April
University of Michigan Deep Blue deepblue.lib.umich.edu 2018-04-18 NIH PUBLIC ACCESS Policy WORKSHOP April Rosenzweig, Merle http://hdl.handle.net/2027.42/143151 Everything you need to know 1 ALL ABOUT
ClinVar. Jennifer Lee, PhD, NCBI/NLM/NIH ClinVar
ClinVar What is ClinVar ClinVar is a freely available, central archive for associating observed variation with supporting clinical and experimental evidence for a wide range of disorders. The database
ProQuest Dissertations and Theses Overview. Austin McLean and Marlene Coles CGS Summer Workshop, July 2017
ProQuest Dissertations and Theses Overview Austin McLean and Marlene Coles CGS Summer Workshop, July 2017 Agenda Dissertations and ProQuest Short form video Pilot Project 2 A mission that aligns with universities
Update on Dataverse Dryad-Dataverse Community Meeting. Mercè Crosas, Elizabeth Quigley & Eleni Castro. Data Science > IQSS > Harvard University
Update on Dataverse Image credit: David Bygott (CC-BY-NC-SA) 2014 Dryad-Dataverse Community Meeting Mercè Crosas, Elizabeth Quigley & Eleni Castro Data Science > IQSS > Harvard University Introduction
Metadata Discovery and Integration to Support Repurposing of Heterogeneous Data using the OpenFurther Platform
Metadata Discovery and Integration to Support Repurposing of Heterogeneous Data using the OpenFurther Platform biocaddie All Hands Meeting September 11 th, 2016 Ram Gouripeddi & Julio Facelli Department
Maximizing Public Data Sources for Sequencing and GWAS
Maximizing Public Data Sources for Sequencing and GWAS February 4, 2014 G Bryce Christensen Director of Services Questions during the presentation Use the Questions pane in your GoToWebinar window Agenda
Using the Payor Agreement Library
Using the Payor Agreement Library Introduction The purpose of this chapter is to provide instruction to users of the Payor Agreement Library. Application Prerequisites Each RelayHealth customer must designate
Improving Metadata Compliance and Assessing Quality Metrics with a Standards Library
PharmaSUG 2018 - Paper SS-12 Improving Metadata Compliance and Assessing Quality Metrics with a Standards Library Veena Nataraj, Erica Davis, Shire ABSTRACT Establishing internal Data Standards helps companies
How to store and visualize RNA-seq data
How to store and visualize RNA-seq data Gabriella Rustici Functional Genomics Group gabry@ebi.ac.uk EBI is an Outstation of the European Molecular Biology Laboratory. Talk summary How do we archive RNA-seq
Exploring and Exploiting the Biological Maze. Presented By Vidyadhari Edupuganti Advisor Dr. Zoe Lacroix
Exploring and Exploiting the Biological Maze Presented By Vidyadhari Edupuganti Advisor Dr. Zoe Lacroix Motivation An abundance of biological data sources contain data about scientific entities, such as
Conducting a Self-Assessment of a Long-Term Archive for Interdisciplinary Scientific Data as a Trustworthy Digital Repository
Conducting a Self-Assessment of a Long-Term Archive for Interdisciplinary Scientific Data as a Trustworthy Digital Repository Robert R. Downs and Robert S. Chen Center for International Earth Science Information
Introducing the Springer Nature Data Support Services
Introducing the Springer Nature Data Support Services 1 What motivates researchers to share data? 97% - to accelerate research and its applications 1 96% - increased visibility and discovery of their research
TSRI, 400-S PubMed / MyNCBI
TSRI, 400-S helplib@scripps.edu 858-784-8705 PubMed / MyNCBI My NCBI is a free service available in PubMed (and all other NCBI databases) that allows you to save searches, set up email alerts for search
Feed the Future Innovation Lab for Peanut (Peanut Innovation Lab) Data Management Plan Version:
Feed the Future Innovation Lab for Peanut (Peanut Innovation Lab) Data Management Plan Version: 20180316 Peanut Innovation Lab Management Entity The University of Georgia, Athens, Georgia Feed the Future
funricegenes Comprehensive understanding and application of rice functional genes
funricegenes Comprehensive understanding and application of rice functional genes Part I Display of information in this database as static web pages https://funricegenes.github.io/ At the homepage of our
Core Technology Development Team Meeting
Core Technology Development Team Meeting Agenda v Updates regarding last meeting action items v Presentation by Ergin about Ontology Services v Brief updates from others Supported by the NIH grant 1U24
This Statement of Work describes tasks to be performed by the RFC Production Center (RPC).
RFC PRODUCTION CENTER (RPC) STATEMENT OF WORK This Statement of Work describes tasks to be performed by the RFC Production Center (RPC). The RPC is one of the distinct components of the RFC Editor. The
Data Curation Handbook Steps
Data Curation Handbook Steps By Lisa R. Johnston Preliminary Step 0: Establish Your Data Curation Service: Repository data curation services should be sustained through appropriate staffing and business
Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords [version 1; referees: awaiting peer review]
![Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords [version 1; referees: awaiting peer review]](/thumbs/88/117074068.jpg "Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords [version 1; referees: awaiting peer review]")
SOFTWARE TOOL ARTICLE Biobtree: A tool to search, map and visualize bioinformatics identifiers and special keywords [version 1; referees: awaiting peer review] Tamer Gur European Bioinformatics Institute,
Searching the Evidence in PubMed
CAMBRIDGE UNIVERSITY LIBRARY MEDICAL LIBRARY Supporting Literature Searching Searching the Evidence in PubMed July 2017 Supporting Literature Searching Searching the Evidence in PubMed How to access PubMed
Database of Curated Mutations (DoCM) ournal/v13/n10/full/nmeth.4000.
Database of Curated Mutations (DoCM) http://docm.genome.wustl.edu/ http://www.nature.com/nmeth/j ournal/v13/n10/full/nmeth.4000.h tml Home Page Information in DoCM DoCM uses many data sources to compile
TSRI, 400-S PubMed / MyNCBI
TSRI, 400-S helplib@scripps.edu 858-784-8705 PubMed / MyNCBI My NCBI is a free service available in PubMed (and all other NCBI databases) that allows you to save searches, set up email alerts for search
Data Curation Profile Movement of Proteins
Data Curation Profile Movement of Proteins Profile Author Institution Name Contact J. Carlson Purdue University J. Carlson, jrcarlso@purdue.edu Date of Creation July 14, 2010 Date of Last Update July 14,
Curatr: a web application for creating, curating, and sharing a mass spectral library
Curatr: a web application for creating, curating, and sharing a mass spectral library Andrew Palmer (1), Prasad Phapale (1), Dominik Fay (1), Theodore Alexandrov (1,2) (1) European Molecular Biology Laboratory,
A Data Citation Roadmap for Scholarly Data Repositories
A Data Citation Roadmap for Scholarly Data Repositories Tim Clark (Harvard Medical School & Massachusetts General Hospital) Martin Fenner (DataCite) Mercè Crosas (Institute for Quantiative Social Science,
Ontology-based annotation of multiscale imaging data: Utilizing and building the Neuroscience Information Framework. Maryann E.
Ontology-based annotation of multiscale imaging data: Utilizing and building the Neuroscience Information Framework Maryann E. Martone University of California, San Diego What does this mean? 3D Volumes
Nancy Baker 1, Thomas Knudsen 2, Antony Williams 2
SOFTWARE TOOL ARTICLE Abstract Sifter: a comprehensive front-end system to PubMed [version 1; referees: 2 approved] Nancy Baker 1, Thomas Knudsen 2, Antony Williams 2 1Leidos, Research Triangle Park, NC,
The Data Curation Profiles Toolkit: Interview Worksheet
Purdue University Purdue e-pubs Data Curation Profiles Toolkit 11-29-2010 The Data Curation Profiles Toolkit: Interview Worksheet Jake Carlson Purdue University, jakecar@umich.edu Follow this and additional
LIBER Webinar: A Data Citation Roadmap for Scholarly Data Repositories
LIBER Webinar: A Data Citation Roadmap for Scholarly Data Repositories Martin Fenner (DataCite) Mercè Crosas (Institute for Quantiative Social Science, Harvard University) May 15, 2017 2014 Joint Declaration
DataSTORRE Deposit Guide
DataSTORRE Deposit Guide Introduction DataStorre is an online digital repository of multi-disciplinary research datasets produced at the University of Stirling. University of Stirling researchers who have
Demos: DMP Assistant and Dataverse
Demos: DMP Assistant and Dataverse Alexandra Cooper, Data Services Coordinator, Queen s University Meghan Goodchild, RDM Systems Librarian, Queen s University/Scholars Portal Overview of session Research
SAE MOBILUS USER GUIDE Subscription Login Dashboard Login Subscription Access Administration... 5
May 2018 TABLE OF CONTENTS SAE MOBILUS USER GUIDE 1. Logging into SAE MOBILUS... 2 1.1. Subscription Login... 2 1.2. Dashboard Login... 3 2. Subscription Access... 4 3. Administration... 5 3.1 Testing
National Center for Biotechnology Information and National Institute of Health Manuscript Submission Accounts Set Up
Puerto Rico Clinical and Translational Research Consortium National Center for Biotechnology Information and National Institute of Health Manuscript Submission Accounts Set Up Prepared by the Evaluation
iportal user guide for assessors
iportal user guide for assessors April 2017 Contents About the Careerforce iportal... 3 Help & General Administration... 4 How to Register... 5 Terminology Changes... 5 Navigation on the iportal... 6 Assessor
Electronic Thesis and Dissertation Tutorial: Submitting an ETD to SFA ScholarWorks
Stephen F. Austin State University SFA ScholarWorks Library Faculty and Staff Publications Ralph W. Steen Library 5-13-2016 Electronic Thesis and Dissertation Tutorial: Submitting an ETD to SFA ScholarWorks
Renae Barger, Executive Director NN/LM Middle Atlantic Region
Renae Barger, Executive Director NN/LM Middle Atlantic Region rbarger@pitt.edu http://nnlm.gov/mar/ DANJ Meeting, November 4, 2011 Advanced PubMed (20 min) General Information PubMed Citation Types Automatic
IRB RESEARCH REPOSITORY COMPLIANCE PROGRAM. FAQs: Designing and Managing Repositories. Compliance Deadline: August 31, 2011
IRB RESEARCH REPOSITORY COMPLIANCE PROGRAM FAQs: Designing and Managing Repositories Compliance Deadline: August 31, 2011 Susan Bankowski, MS, JD IRB Chair Kathryn Schuff, MD, MCR IRB Co-Chair Agenda Review
Exercises. Biological Data Analysis Using InterMine workshop exercises with answers
Exercises Biological Data Analysis Using InterMine workshop exercises with answers Exercise1: Faceted Search Use HumanMine for this exercise 1. Search for one or more of the following using the keyword
Launching the. Data Curation Network NDS/MBDH 2018
NDS/MBDH 2018 Launching the Data Curation Network Lisa Johnston University of Minnesota Jake Carlson University of Michigan Cynthia Hudson-Vitale Penn State Univ. Heidi Imker University of Illinois Wendy
DATA SHARING FOR BETTER SCIENCE
DATA SHARING FOR BETTER SCIENCE THE DATAVERSE PROJECT Mercè Crosas, Institute for Quantitative Social Science, Harvard University @mercecrosas MAX PLANCK INSTITUTE FOR RADIOASTRONOMY, SEPTEMBER 12, 2017
The LAILAPS Search Engine - A Feature Model for Relevance Ranking in Life Science Databases
International Symposium on Integrative Bioinformatics 2010 The LAILAPS Search Engine - A Feature Model for Relevance Ranking in Life Science Databases M Lange, K Spies, C Colmsee, S Flemming, M Klapperstück,
Editorial Workflow Tasks. Michaela Barton Account Coordinator
Editorial Workflow Tasks Michaela Barton Account Coordinator mbarton@ariessys.com Editorial Workflow Tasks: Agenda ORCID: Single Sign on Manuscript Ingest Parallel Workflows Preventing Duplicate Submissions
User Help. Fabasoft Cloud
User Help Fabasoft Cloud Copyright Fabasoft R&D GmbH, Linz, Austria, 2019. All rights reserved. All hardware and software names used are registered trade names and/or registered trademarks of the respective
User Stories : Digital Archiving of UNHCR EDRMS Content. Prepared for UNHCR Open Preservation Foundation, May 2017 Version 0.5
User Stories : Digital Archiving of UNHCR EDRMS Content Prepared for UNHCR Open Preservation Foundation, May 2017 Version 0.5 Introduction This document presents the user stories that describe key interactions
Genome Browsers - The UCSC Genome Browser
Genome Browsers - The UCSC Genome Browser Background The UCSC Genome Browser is a well-curated site that provides users with a view of gene or sequence information in genomic context for a specific species,
All abstracts should be reviewed by meeting organisers prior to submission to BioMed Central to ensure suitability for publication.
Abstract supplements - Guidelines for Organisers General requirements Abstracts submitted to the journal must be original and must not have been previously published elsewhere. Abstracts published on a
Customer Guidance For Requesting Changes to SNOMED CT
Customer Guidance For Requesting Changes to SNOMED CT Date 20161005 Version 2.0 Customer Guidance For Requesting Changes to SNOMED CT Page 1 of 12 Version 2.0 Amendment History Version Date Editor Comments
CrossRef tools for small publishers
pissn 2288-8063 eissn 2288-7474 Sci Ed 2015;2(2):79-85 http://dx.doi.org/10.6087/kcse.48 Training Material CrossRef tools for small publishers Rachael Lammey CrossRef, Oxford, United Kingdom Abstract CrossRef
Data for Accountability, Transparency and Impact Monitoring (DATIM) MER Data Import Reference Guide Version 2. December 2018
Data for Accountability, Transparency and Impact Monitoring (DATIM) MER Data Import Reference Guide Version 2 December 2018 U.S. Department of State U.S. Office of Global AIDS Coordinator (OGAC) MER Data
CDIS Biomedical Data Commons
CDIS Biomedical Data Commons Computational Life Science Seminar Series October 18, 2017 Michael Fitzsimons Center for Data Intensive Science Agenda What is a Data Commons? Data Commons at CDIS NCI GDC
CODE AND DATA MANAGEMENT. Toni Rosati Lynn Yarmey
CODE AND DATA MANAGEMENT Toni Rosati Lynn Yarmey Data Management is Important! Because Reproducibility is the foundation of science Journals are starting to require data deposit You want to get credit
DATAVERSE FOR JOURNALS
DATAVERSE FOR JOURNALS Mercè Crosas, Ph.D. Director of Data Science IQSS, Harvard University @mercecrosas Society for Scholarly Publishing 37 th Meeting, 28, May, 2015 About Dataverse Science requires
BIBL NEEDS REVISION INTRODUCTION
BIBL NEEDS REVISION FCSM Statistical Policy Seminar Session Title: Integrating Electronic Systems for Disseminating Statistics Paper Title: Interacting with Tabular Data Through the World Wide Web Paper
Structural Bioinformatics
Structural Bioinformatics Elucidation of the 3D structures of biomolecules. Analysis and comparison of biomolecular structures. Prediction of biomolecular recognition. Handles three-dimensional (3-D) structures.
Human Disease Models Tutorial
Mouse Genome Informatics www.informatics.jax.org The fundamental mission of the Mouse Genome Informatics resource is to facilitate the use of mouse as a model system for understanding human biology and
Prototyping a Biomedical Ontology Recommender Service
Prototyping a Biomedical Ontology Recommender Service Clement Jonquet Nigam H. Shah Mark A. Musen jonquet@stanford.edu 1 Ontologies & data & annota@ons (1/2) Hard for biomedical researchers to find the
Scholar Universe faculty profile FAQ
Scholar Universe faculty profile FAQ Searching and Viewing Results What data is considered when ranking search results by relevance? I noticed that my profile does not have keywords; how are profiles searched?
Responding to REB Feedback
Responding to REB Feedback A ROMEO Hasty Handbook Presented by the CHEO Research Institute Table of Contents: What is REB Feedback? The REB Feedback Letter The Investigator Response Letter Finding the
Research Elsevier
Research Data @ Elsevier From generation through sharing and publishing to discovery IJsbrand Jan Aalbersberg SVP Journal and Data Solutions NDS, Boulder - June 12, 2014 Contributors: Anita de Waard Hylke
Software review. Biomolecular Interaction Network Database
Biomolecular Interaction Network Database Keywords: protein interactions, visualisation, biology data integration, web access Abstract This software review looks at the utility of the Biomolecular Interaction
OvidSP Frequently Asked Questions
OvidSP Frequently Asked Questions Updated: April 2010 Q: What is OvidSP? A. OvidSP- a powerful, complete research solution provides fast, easy access to critical information and productivity tools to effectively