602 Works

Data from: Rates of genomic divergence in humans, chimpanzees and their lice

Kevin P. Johnson, Julie M. Allen, Brett P. Olds, Lawrence Mugisha, David L. Reed, Ken N. Paige & Barry R. Pittendrigh
The rate of DNA mutation and divergence is highly variable across the tree of life. However, the reasons underlying this variation are not well understood. Comparing the rates of genetic changes between hosts and parasite lineages that diverged at the same time is one way to begin to understand differences in genetic mutation and substitution rates. Such studies have indicated that the rate of genetic divergence in parasites is often faster than that of their...

Data from: Paternal care in a fish: epigenetics and fitness enhancing effects on offspring anxiety

Katie E. McGhee & Alison M. Bell
In many animals, including humans, interactions with caring parents can have long-lasting effects on offspring sensitivity to stressors. However, whether these parental effects impact offspring fitness in nature is often unclear. In addition, despite evidence that maternal care can influence offspring behaviour via epigenetic alterations to the genome, it remains unclear whether paternal care has similar effects. Here, we show in three-spined sticklebacks, a fish in which fathers are the sole provider of offspring care,...

Data from: Rapid light-induced shifts in opsin expression: finding new opsins, discerning mechanisms of change, and implications for visual sensitivity

Rebecca C Fuller & Kristin M Claricoates
Light induced shifts in cone frequency and opsin expression occur in many aquatic species. Yet little is known about how quickly animals can alter opsin expression and, thereby, track their visual environments. Similarly, little is known about whether adult animals can alter opsin expression or whether shifts in opsin expression are limited to critical developmental windows. We took adult wild caught bluefin killifish (Lucania goodei) from three different lighting environments (spring, swamp, variable), placed them...

Data from: The chemical basis of a signal of individual identity: Shell pigment concentrations track the unique appearance of Common Murre eggs

Mark E Hauber, Alexander L Bond, Amy-Lee Kouwenberg, Gregory J Robertson, Erpur S Hansen, Mande Holford, Miri Dainson, Alec Luro & James Dale
In group-living species with parental care, the accurate recognition of one’s own young is critical to fitness. Because discriminating offspring within a large colonial group may be challenging, progeny of colonial breeders often display familial or individual identity signals to elicit and receive costly parental provisions from their own parents. For instance, the Common Murre (or Common Guillemot: Uria aalge) is a colonially breeding seabird that does not build a nest and lays and incubates...

Data from: Identification of the Minimal Cytolytic Unit for Streptolysin S and an Expansion of the Toxin Family

Evelyn M. Molloy, Sherwood R. Casajens, Courtney L. Cox, Tucker Maxson, Nicole A. Ethridge, Gabriele Margos, Volker Fingerle & Douglas A. Mitchell
Background: Streptolysin S (SLS) is a cytolytic virulence factor produced by the human pathogen Streptococcus pyogenes and other Streptococcus species. Related “SLS-like” toxins have been characterized in select strains of Clostridium and Listeria, with homologous clusters bioinformatically identified in a variety of other species. SLS is a member of the thiazole/oxazole-modified microcin (TOMM) family of natural products. The structure of SLS has yet to be deciphered and many questions remain regarding its structure-activity relationships. Results:...

Data from: Evolution of the bamboos (Bambusoideae; Poaceae): a full plastome phylogenomic analysis

William P. Wysocki, Lynn G. Clark, Eduardo Ruiz-Sanchez, Lakshmi Attigala & Melvin R. Duvall
Background: Bambusoideae (Poaceae) comprise three distinct and well-supported lineages: tropical woody bamboos (Bambuseae), temperate woody bamboos (Arundinarieae) and herbaceous bamboos (Olyreae). Phylogenetic studies using chloroplast markers have generally supported a sister relationship between Bambuseae and Olyreae. This suggests either at least two origins of the woody bamboo syndrome in this subfamily or its loss in Olyreae. Results: Here a full chloroplast genome (plastome) phylogenomic study is presented using the coding and noncoding regions of 13...

Data from: Wnt/PCP controls spreading of Wnt/β-catenin signals by cytonemes in vertebrates

Benjamin Mattes, Yonglong Dang, Gediminas Greicius, Lilian Tamara Kaufmann, Benedikt Prunsche, Jakob Rosenbauer, Johannes Stegmaier, Ralf Mikut, Suat Özbek, Gerd Ulrich Nienhaus, Alexander Schug, David M. Virshup & Steffen Scholpp
Signaling filopodia, termed cytonemes, are dynamic actin-based membrane structures that regulate the exchange of signaling molecules and their receptors within tissues. However, how cytoneme formation is regulated remains unclear. Here, we show that Wnt/PCP autocrine signaling controls the emergence of cytonemes, and that cytonemes subsequently control paracrine Wnt/β-catenin signal activation. Upon binding of the Wnt family member Wnt8a, the receptor tyrosine kinase Ror2 gets activated. Ror2/PCP signaling leads to induction of cytonemes, which mediate transport...


Joshua Wurman & Karen Kosiba

Scopus API Scripts for Data Reuse Project

William Mischo
To generate the bibliographic and survey data to support a data reuse study conducted by several Library faculty and accepted for publication in the Journal of Academic Librarianship, the project team utilized a series of web-based online scripts that employed several different endpoints from the Scopus API. The related dataset: "Data for: An Examination of Data Reuse Practices within Highly Cited Articles of Faculty at a Research University" contains survey design and results.

Temperate and chronic virus competition

Zoi Rapti
All code in Matlab .m scripts or functions (version R2019b) Affiliated with article “Temperate and chronic virus competition leads to low lysogen frequency” published in the Journal of Theoretical Biology (2021) Codes simulate and plot the solutions of an Ordinary Differential Equations model and generate bifurcation diagrams.

Data for \"Crop-specific exposure to extreme temperature and moisture for the globe for the last half century\"

Nicole Jackson, Megan Konar, Peter Debaere & Justin Sheffield
Global assessments of climate extremes typically do not account for the unique characteristics of individual crops. A consistent definition of the exposure of specific crops to extreme weather would enable agriculturally-relevant hazard quantification. We introduce the Agriculturally-Relevant Exposure to Shocks (ARES) model, a novel database of both the temperature and moisture extremes facing individual crops by explicitly accounting for crop characteristics. Specifically, we estimate crop-specific temperature and moisture shocks during the growing season for a...

Data for Dynamics of data availability in disease modeling: An example evaluating the trade-offs of ultra-fine-scale factors to human West Nile virus disease models in the Chicago area, USA

Johnny Uelmen
West Nile virus data, aggregated by 55 1-km hexagons, within the NWMAD jurisdiction Cook County, IL. The data incorporates deidentified human illness, mosquito infection and abundance, socio-economic data, and other abiotic and biotic predictors by epi-weeks 18-38 for the years 2005-2016.

Crayfish behavior and isotope data from six Wisconsin lakes in summer 2018

Amaryllis Adey & Eric Larson
Adey_Larson_Behavior.csv: Results of behavioral assays for rusty crayfish Faxonius rusticus collected from six lakes in Vilas County, Wisconsin in summer 2018. Crayfish_ID is an individual crayfish ID or identifier that matches to individuals in Adey_Larson_Isotope. Collection is how organisms were collected (trapped = baited trapping, snorkel = by hand). Lake is the study lake crayfish were collected from. Length is crayfish carapace length in mm. CPUE is crayfish catch-per-unit effort from baited trapping in that...

Global multi-model projections of urban daily temperatures

Zhonghua Zheng, Lei Zhao & Keith Oleson
This dataset contains the emulated global multi-model urban daily temperature projections under RCP 8.5 scenario. The dataset is derived from the study "Large model structural uncertainty in global projections of urban heat waves" (XXXX). Details about this dataset and the local urban climate emulator are described in the article. This dataset documents the global urban daily temperatures of 17 CMIP5 Earth system models for 2006-2015 and 2061-2070. This dataset may be useful for multiple communities...

Raw data and code for the paper \"Semi-natural wildflower-strip field borders provide winter refuge for pest natural enemies: a case study on organic farms\"

Scott Clem & Alexandra Harmon-Threatt
These are the data sets associated with our publication "Semi-natural wildflower-strip field borders provide winter refuge for pest natural enemies: a case study on organic farms." For this project, we compared the communities of overwintering arthropod natural enemies in organic cultivated fields and wildflower-strip field borders at five different sites in central Illinois. Abstract: Strips of wildflowers along field borders are frequently used in midwestern U.S. sustainable agriculture. These properties help diversify otherwise monocultural landscapes...

Data for: High stream flows dilute environmental DNA (eDNA) concentrations and reduce detectability

Amanda Curtis, Jeremy Tiemann, Sarah Douglass, Mark Davis & Eric Larson
We studied we examined the role of stream flow on environmental DNA (eDNA) concentrations and detectability of an invasive clam (Corbicula fluminea), while also accounting for other abiotic and biotic variables. This data includes the eDNA concentrations, quadrat estimates of clam density, and abiotic variables.

Use of legumes and yeast as novel dietary protein sources in extruded canine diets

Maria Cattai de Godoy
- The objective of this study was to evaluate macronutrient apparent total tract digestibility (ATTD), gastrointestinal tolerance, and fermentative end-products in extruded, canine diets.
- Five diets were formulated to be isocaloric and isonitrogenous with either garbanzo beans (GBD), green lentils (GLD), peanut flour (PFD), dried yeast (DYD), or poultry by-product meal (CON) as the primary protein sources. Ten adult, intact, female beagles (mean age: 4.2 ± 1.1 yr, mean 28 weight: 11.9 ± 1.3...

Data from: \"Inferring Species Trees from Gene-Family with Duplication and Loss using Multi-Copy Gene-Family Tree Decomposition\"

James Willson, Mrinmoy Saha Roddur, Liu Baqiao, Paul Zaharias & Tandy Warnow
Data sets from "Inferring Species Trees from Gene-Family with Duplication and Loss using Multi-Copy Gene-Family Tree Decomposition." It contains trees and sequences simulated with gene duplication and loss under a variety of different conditions. Note: - trees.tar.gz contains the simulated gene-family trees used in our experiments (both true trees from SimPhy as well as trees estimated from alignements). - sequences.tar.gz contains simulated sequence data used for estimating the gene-family trees as well as the concatenation...

Becoming A Trans Inclusive Library - Patron Survey

Spencer D. C. Keralis & Syamil Yakin
This data set contains survey results from a 2021 survey of University of Illinois University Library patrons who identify as transgender or gender non-conforming conducted as part of the Becoming a Trans Inclusive Library Project to assess the experiences of transgender patrons seeking information and services in the University Library. Survey instruments are available in the IDEALS repository: http://hdl.handle.net/2142/110081.

Data from: Learning coagulation processes with combinatorially-invariant neural networks

Justin Wang, Jeffrey H Curtis, Nicole Riemer & Matthew West
This dataset contains all the necessary information to recreate the study presented in the paper entitled "Learning coagulation processes with combinatorially-invariant neural networks". This consists of (1) the aggregated output files used for machine learning, (2) the machine learning codes used to learn the presented models, (3) the PartMC model source code that was used to generate the simulation data and (4) the Python scripts used construct the scenario library for training and testing simulations....

WikiCSSH - Computer Science Subject Headings from Wikipedia

Kanyao Han, Pingjing Yang, Shubhanshu Mishra & Jana Diesner
# WikiCSSH If you are using WikiCSSH please cite the following: > Han, Kanyao; Yang, Pingjing; Mishra, Shubhanshu; Diesner, Jana. 2020. “WikiCSSH: Extracting Computer Science Subject Headings from Wikipedia.” In Workshop on Scientific Knowledge Graphs (SKG 2020). https://skg.kmi.open.ac.uk/SKG2020/papers/HAN_et_al_SKG_2020.pdf > Han, Kanyao; Yang, Pingjing; Mishra, Shubhanshu; Diesner, Jana. 2020. "WikiCSSH - Computer Science Subject Headings from Wikipedia". University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-0424970_V1 Download the WikiCSSH files from: https://doi.org/10.13012/B2IDB-0424970_V1 More details about the WikiCSSH project can...

Error Analysis

Yogeshwar Kansara, Linh Hoang & Jodi Schneider
The data file contains a list of articles given low score by the RCT Tagger and an error analysis of them, which were used in a project associated with the manuscript "Evaluation of an automated probabilistic RCT Tagger applied to published Cochrane reviews".

Articles With PubMed Identifiers

Yogeshwar Kansara & Linh Hoang
The data file contains a list of articles that have PubMed identifiers, which were used in a project associated with the manuscript "Evaluation of an automated probabilistic RCT Tagger applied to published Cochrane reviews".

Articles With PubMed Identifiers

Yogeshwar Kansara & Khanh Linh Hoang
The data file contains a list of articles with PMIDs information, which were used in a project associated with the manuscript "Evaluation of publication type tagging as a strategy to screen randomized controlled trial articles in preparing systematic reviews".

Data for Intra- and inter-annual variability of nitrification in the rhizosphere of field-grown bioenergy sorghum

Mark Burnham, Sandra Simon, DK Lee, Angela Kent, Evan DeLucia & Wendy Yang
These data were collected in 2018 and 2019 at the University of Illinois Energy Farm (N 40.063607, W 88.206926). During each growing season, bulk and rhizosphere soil were collected from replicate Sorghum bicolor nitrogen use efficiency trial plots at three separate time points (approximately July 1, August 1, and September 1). We measured soil moisture, pH, soil nitrate and ammonium, potential nitrification, potential denitrification, and extracted and sequenced the V4 region of the 16S rRNA...

Registration Year

  • 2022
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Resource Types

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  • University of Illinois
  • University of Illinois at Urbana Champaign
  • University of Illinois Urbana-Champaign
  • University of Minnesota
  • University of Illinois System
  • University of Illinois at Urbana-Champaign
  • University of Florida
  • University of Utah
  • Iowa State University
  • University of Michigan-Ann Arbor