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New HSLS Program—Spotlight Series: Software Developed @ Pitt

The HSLS MolBio Information Service and Data Services have collaborated in the creation of a new HSLS program—Spotlight Series: Software Developed @ Pitt—that focuses on software developed by Pitt health sciences researchers.  Sessions will begin with a 30-minute presentation of tool development and use cases, followed by instruction on software access/installation, discussion of parameters, and hands-on practice.

Data Sharing Statement Policy for Clinical Trials Enacted July 2018

The International Committee of Medical Journal Editors (ICMJE) is a working group of medical journal editors that makes recommendations for the conduct, reporting, editing, and publication of scholarly work in medical journals. Journals that state they follow the ICMJE recommendations include: Academic Medicine, American Journal of Epidemiology, Cancer Nursing, Chest, Circulation, Immunology & Cell Biology, Journal of Dental Hygiene, and Radiology. 

Tracking down Datasets Using PubMed and PMC

PubMed and PubMed Central (PMC) now offer filters to limit a search to only those articles or citations that include related data links, supplemental material, data citations, or a data availability or data accessibility statement.

The filters, detailed below, can be combined with any search by simply adding the Boolean operator “AND” and the specific filter into the search box (see the screenshots below for example syntax; the filters are highlighted in yellow).

PubMed

data[filter] in PubMed search box

Use data[filter] to find citations with related data links in either the Secondary Source ID field or the LinkOut – more resources field (both located below the abstract).

Introducing the Pitt Data Catalog for Dataset Sharing and Discovery

Pitt Data Catalog, a project by the Health Sciences Library SystemSharing research data can bring many benefits, including greater visibility for data creators, a more transparent research process, and opportunities to identify potential collaborators. But what about datasets that are stored on a lab server instead of in a data repository, or that should only be shared with vetted researchers? The Pitt Data Catalog is a new platform at HSLS designed to help Pitt health sciences researchers share and discover their otherwise hard-to-find datasets, while keeping ultimate control over the data in researchers’ hands.

Expand Your Data Analysis Universe with Galaxy

Galaxy logoThe life sciences are erupting with data. Thanks to advancements in DNA sequencing technologies and the speed and capacity of computational algorithms, the generation of vast quantities of genomic and proteomic data is now commonplace and expected. However, analysis of this data is not keeping pace with its acquisition (storage space is yet another issue…). One limiting factor is that many biomedical scientists do not yet know how to access, much less use, the available analytical resources. This article describes a platform for multi-omic data analysis that is accessible, reproducible, and transparent, and recommends resources on how to use it.

NEW Data Class Offerings

In our continuous effort to support your research needs, HSLS is offering four new classes this spring covering: (1) introduction to mapping, (2) Python through Jupyter, (3) beginning command line for bioinformatics, and (4) options for bioinformatics analysis. Class descriptions and registration links are listed below.

(1) Data 101: Introduction to Mapping 

Thursday, February 15, 2018, 11 a.m. – 1 p.m.; Registration required

Mapping is a great way to visualize and analyze information—and to tell stories. In this introductory workshop, you’ll learn the principles of mapmaking, understand how computers are used to plot addresses on a map, conduct basic spatial analysis, and update records in a database based on location. Along with a deeper appreciation for computers, this class will provide you with a solid foundation of mapping concepts and processes, and get you prepared to take your first computer-based mapping class. No computers will be used in this class.

Updated PubMed Central Policy Statement on Supplementary Data

PubMed Central logoPubMed Central (PMC) was established in 2000 as the National Library of Medicine’s full-text, journal article repository. Since 2005, PMC has also been the designated repository for papers submitted in accordance with the NIH Public Access Policy. Today, PMC serves as the full-text repository for papers across a variety of scientific disciplines that fall under a number of funding agencies’ public access policies.

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