Science and Informatics

A Becker Guide for Proteomics Data Repositories Part 2

In the first part of this blog series, I provided an overview of the ProteomeXChange (PX) Consortium and introduced its most important member – the PRIDE Database. I also introduced ProteomeCentral, the common portal providing the ability to browse and search all of the public datasets within the PX Consortium member repositories. Here in the  [Read more]

Science and Informatics

A Becker Guide for Proteomics Data Repositories Part 1

Introduction Proteomics, the large-scale study of proteomes, is a highly valuable tool in biomedical research, but because most proteomics approaches are based on mass spectrometry (MS), the analytical chemistry nature can be a barrier to some biologists and physician-scientists. In this series of three blog articles, I would like to introduce MS-based proteomics data by  [Read more]

Mastering Information, Science and Informatics

Tips for Writing NIH Data Management and Sharing Plans

The National Institutes of Health (NIH) requires a Data Management and Sharing Plan (DMSP) in all competing applications that generate scientific data. A DMSP should cover six key elements as outlined in NOT-OD-21-014.  While not required, using a DMSP template helps researchers address all six elements and sub-elements required by the NIH DMS policy. The  [Read more]

Science and Informatics

Check out Dataset Catalog beta from the National Library of Medicine

Earlier this year, the National Library of Medicine (NLM) announced the launch of the beta version of a new online tool called the Dataset Catalog. This tool is intended to be the “PubMed of datasets” to help users search, find and retrieve datasets in multiple repositories through a single, user-friendly interface. Dataset Catalog beta currently  [Read more]

Mastering Information, Science and Informatics

How to Make Your Protocols Complete, Interactive, and Citable

Are you frustrated by incomplete methods in publications that lack critical details? Are you seeking a simple solution to document comprehensive step-by-step protocols, complete with information on reagents and equipment, and a dedicated space to note any protocol deviations? In research settings, reproducible experimental methods are of utmost importance. Fortunately, protocols.io offers a solution where  [Read more]

Mastering Information

Preparing for Upcoming Federal Public Access Policies: What Does it Mean for School of Medicine Researchers?

In August 2022, the White House Office of Science & Technology Policy (OSTP) issued a memo: Ensuring Free, Immediate, and Equitable Access to Federally Funded Research (OSTP 2022 Nelson Memo), that directs federal agencies to update their public access policies per OSTP 2013 Holdren Memo. The policies pertain to publications, scientific data underlying publications, and  [Read more]

Mastering Information, Science and Informatics

Introducing the FDP NIH Data Management and Sharing Pilot

Are you working on a Data Management and Sharing (DMS) Plan for your NIH grant application under the 2023 NIH DMS policy (NOT-OD-21-013) and curious about the evaluation metric? Check out NIH’s ongoing pilot with DMS Plan templates Alpha and Bravo. The Federal Demonstration Partnership (FDP) NIH DMS Pilot, launched on March 1, 2023, is  [Read more]

Mastering Information, Science and Informatics

Introduction to PIDs: What They Are and How to Use Them

Persistent Unique Identifiers (PIDs), also known as Digital Persistent Identifiers (DPIs), are globally unique, persistent, machine-resolvable digital identifiers with an associated metadata schema. A PID identifies and locates an entity regardless of where it is hosted or published and enables its unambiguous and long-term identification. PIDs are an essential component of the research ecosystem, linking  [Read more]

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