601 West Lombard Street
Baltimore MD 21201-1512
Reference: 410-706-7996
Circulation: 410-706-7928
Follow our blog for CDABS updates, information about data and bioinformation related opportunities and events at UMB and beyond, and in-depth looks at useful tools and resources. Check out our research contributions (including supporting data and code) and presentations to see how we are enhancing the field of data and bioinformation.
Love Data Week at UMB Begins on Feb. 10
Posted on Wednesday, January 29, 2025
Love Data Week (Feb. 10 to 14) is an international celebration of all things data! Each year, the Data and Bioinformation Services team at the Health Sciences and Human Services Library looks forward to engaging the University on issues like data management, sharing, wrangling, and visualization, as well as open and reproducible science.
This year’s theme is “Whose Data Is It, Anyway?” which asks us to consider “who owns data compared to who uses data” and to think about “where the data came from before using it.”
Check out the week’s events below:
Looking for more ways to participate?
Don’t forget to follow the HSHSL and Love Data Week on social media! #LoveData25 #UMBLovesData
Questions? Contact Amy Yarnell, Head of Data and Bioinformation Services, and Christine Nieman Hislop, Data Services Librarian at data@hshsl.umaryland.edu.
July Data Drop: Check Out These New Datasets Published in the UMB Data Catalog
Posted on Monday, July 29, 2024
Every month, we will be highlighting new datasets added to the UMB Data Catalog. The UMB Data Catalog facilitates discovery of data by providing a searchable and browsable collection of records describing datasets generated by UMB researchers. Sharing a record of your data in the Catalog is also a great way to demonstrate compliance with data sharing policies!
These latest records showcase data on opioid treatment availability, COVID-19 misinformation on TikTok, and immune response in HIV-infected patients.
Congrats to our UMB researchers on these publications!
Title: County-level factors associated with a mismatch between opioid overdose mortality and availability of opioid treatment facilities
Description: Identifies characteristics of United States (US) counties with high rates of opioid overdose mortality and low rates of opioid treatment facilities.
Authors: John G. Rizk, Jannat Saini, Kyungha Kim, Uzma Pathan, Danya M. Qato
URL: https://datacatalog.hshsl.umaryland.edu/dataset/224
Title: #Coronavirus on TikTok: user engagement with misinformation as a potential threat to public health behavior
Description: Examines factors associated with user engagement with COVID-related misinformation on the social media platform, TikTok.
Authors: Jonathan D. Baghdadi, K.C. Coffey, Rachael Belcher, James Frisbie, Naeemul Hassan, Danielle Sim, Rena D. Malik
URL: https://datacatalog.hshsl.umaryland.edu/dataset/225
Title: IFNa induces CCR5 in CD4+ T cells of HIV patients causing pathogenic elevation
Description: Investigates whether elevated circulating interferon-alpha (IFNα) promotes widespread immune cell alterations and persists post-therapy, furthering understanding of why non-elite controller (EC) HIV patients continue to need treatment.
Authors: Hélène Le Buanec, Valérie Schiavon, Marine Merandet, Alexandre How-Kit, Hongshuo Song, David Bergerat, Céline Fombellida-Lopez, Armand Bensussan, Jean-David Bouaziz, Arsène Burny, Gilles Darcis, Mohammad M. Sajadi, Shyamasundaran Kottilil, Daniel Zagury, Robert C. Gallo
URL: https://datacatalog.hshsl.umaryland.edu/dataset/226
Thanks to Metadata Librarian, Eva Greitzer for creating and compiling these records!
Want to see your data listed in the UMB Data Catalog? Submit this form to get the process started.
Questions? Email us at data@hshsl.umaryland.edu.
Learn R this summer with CDABS
Posted on Friday, June 28, 2024
The Center for Data and Bioinformation Services (CDABS) will be holding two R workshops in July. The sessions will be held in-person at the HSHSL on July 24th and July 25th from 12:00pm to 2:00pm . Space is limited so register now!
R is an open-source programming language that is ideal for working with statistics and data. Here at CDABS, we love R for many reasons: It's free, flexible, and friendly! In this series, we will focus on the Tidyverse, a collection of R packages designed for data science. The Tidyverse makes data manipulation, exploration, and visualization simple and intuitive. These packages provide excellent tools for cleaning, analyzing, and visualizing data, all while writing readable and maintainable code. Sign up for one or both sessions, but be advised that the second session will require a minimal familiarity with R.
See full session descriptions below and register here:
This session will introduce participants to the basics of getting started with R and RStudio and introduce the workhorse package dplyr. Participants will get hands-on experience wrangling real datasets.
Topics covered include:
Prerequisites: none
Learn how to use ggplot2, a robust Tidyverse package used to create high quality graphics for exploring and communicating your data. We will go beyond basic graphs and learn how to customize and annotate our graphs for more effective storytelling. Participants will have the best experience if they attended session one in this series or have some previous experience with R and the Tidyverse.
Topics covered include:
Prerequisites: Session one in this series, or familiarity with navigating RStudio and basic concepts in R.
Questions? Contact: Amy Yarnell, data services librarian at data@hshsl.umaryland.edu.
The Center for Data and Bioinformation Services (CDABS) is the University of Maryland Health Sciences and Human Services Library hub for data and bioinformation learning, services, resources, and communication
Sign up to get DABS delivered to your email or RSS feed.
Fresh Data Alert: Check Out These New Datasets Published in the UMB Data Catalog this June
Posted on Thursday, June 20, 2024
Every month, we will be highlighting new datasets added to the UMB Data Catalog. The UMB Data Catalog facilitates discovery of data by providing a searchable and browsable collection of records describing datasets generated by UMB researchers. Sharing a record of your data in the Catalog is also a great way to demonstrate compliance with data sharing policies!
The latest records showcase datasets from the fields of neuroscience and physiology, molecular biology and malaria studies, and library science and education.
Congrats to our UMB researchers on these publications!
Title: Genotyping Plasmodium falciparum gametocytes using amplicon deep sequencing
Description: A genotyping method that detects distinct gametocyte clones and estimates their relative frequencies was developed to understand the dynamics of gametocyte production in polyclonal Plasmodium falciparum infections using a specific marker and amplicon deep sequencing to genotype mature gametocytes.
Authors: Jimmy Vareta, Natalie A. Horstman, Matthew Adams, Karl B. Seydel, Robert S. McCann, Lauren M. Cohee, Miriam K. Laufer, Shannon Takala‑Harrison
URL: https://datacatalog.hshsl.umaryland.edu/dataset/221
Title: Differential nanoscale organization of excitatory synapses onto excitatory vs. inhibitory neurons
Description: Confocal and DNA-PAINT super-resolution microscopy was used to compare scaffold protein organization in excitatory principal neuron synapses and parvalbumin-expressing interneuron synapses.
Authors: Poorna A. Dharmasri, Aaron D. Levy, Thomas A. Blanpied
URL: https://datacatalog.hshsl.umaryland.edu/dataset/222
Title: Increasing student engagement using an Amazing Race-style competition
Description: Evaluations of the "Amazing Race: Drug Information Edition," an orientation activity designed to introduce first-year pharmacy students to library and drug information resources.
Authors: Emily F. Gorman
URL: https://datacatalog.hshsl.umaryland.edu/dataset/223
Thanks to Metadata Librarian, Eva Greitzer for creating and compiling these records!
Want to see your data listed in the UMB Data Catalog? Submit this form to get the process started.
Questions? Email us at data@hshsl.umaryland.edu.
A Model for Centralizing Data and Bioinformation Services at the Health Sciences and Human Services Library. Courneya JP, Yarnell A. Project Briefing presented at: Coalition for Networked Information (CNI) Fall Membership Meeting; 2020 Nov 10 - Dec 15; Virtual.
(CDABS primary work)
Creating campuswide engagement opportunities with library professionals through promotion of Love Data Week 2020. Yarnell A, Courneya JP. Posted presented at: Medical Library Association, Mid-Atlantic Chapter (MAC/MLA) Annual Meeting; 2020 Oct 19-21; Virtual.
(CDABS primary work)
Delayed microglial depletion after spinal cord injury reduces chronic inflammation and neurodegeneration in the brain and improves neurological recovery in male mice. Li Y, Ritzel RM, Khan N, Cao T, He J, Lei Z, Matyas JJ, Sabirzhanov B, Liu S, Li H, Stoica BA, Loane DJ, Faden AI, Wu J. Theranostics. 2020 Sep 14;10(25):11376-11403. doi: 10.7150/thno.49199.
(CDABS contribution: Functional gene enrichment analysis)
Full-length IL-33 regulates Smad3 phosphorylation and gene transcription in a distinctive AP2-dependent manner. Luzina IG, Fishelevich R, Hampton BS, Courneya JP, Parisella FR, Lugkey KN, Baleno FX, Choi D, Kopach P, Lockatell V, Todd NW, Atamas SP. Cell Immunol. 2020 Nov;357:104203. doi: 10.1016/j.cellimm.2020.104203. Epub 2020 Sep 2.
(CDABS contribution: Bioinformatics, Visualization)
High-performance computing service for bioinformatics and data science. Courneya JP, Mayo A. J Med Libr Assoc. 2018 Oct;106(4):494-495. doi: 10.5195/jmla.2018.512. Epub 2018 Oct 1.
(CDABS primary work)
High-performance computing service in the Health Science and Human Services Library at University of Maryland Baltimore. Mayo A and Courneya JP. [version 1; not peer reviewed]. F1000Research 2018, 7(ISCB Comm J):1089 (https://doi.org/10.7490/f1000research.1115828.1)
(CDABS primary work)
PubRunner: A light-weight framework for updating text mining results. Anekalla KR, Courneya JP, Fiorini N, Lever J, Muchow M, Busby B. F1000Res. 2017 May 2;6:612. doi: 10.12688/f1000research.11389.2.
(CDABS contribution: Informatics, programming)