103 Works

SBKS - Genes Raw Entity Mentions

Jacob Jett
A set of gene and gene-related entity mentions derived from an NERC dataset analyzing 900 synthetic biology articles published by the ACS. This data is associated with the Synthetic Biology Knowledge System repository (https://web.synbioks.org/). The data in this dataset are raw mentions from the NERC data.

SBKS - Chemical - Cleaned & Grounded Entity Mentions

Jacob Jett
This dataset represents the results of manual cleaning and annotation of the entity mentions contained in the raw dataset (https://doi.org/10.13012/B2IDB-4163883_V1). Each mention has been consolidated and linked to an identifier for a matching concept from the NCBI's taxonomy database.

Data from: Examining competition during the agnathan/gnathostome transition using distance-based morphometrics

Bradley Scott & Philip Anderson
The rise of jawed vertebrates (gnathostomes) and extinction of nearly all jawless vertebrates (agnathans) is one of the most important transitions in vertebrate evolution, but the causes are poorly understood. Competition between agnathans and gnathostomes during the Devonian period is the most commonly hypothesized cause; however, no formal attempts to test this hypothesis have been made. Generally, competition between species increases as morphological similarity increases; therefore, this study uses the largest-to-date morphometric comparison of Silurian...

Bat activity and diversity in agricultural landscapes in Illinois, USA

Louis Hunninck & Joy O'Keefe
This data set documents bat activity (counts per detector-night per phonic group) and bat diversity (number of bat species per detector-night) in relation to distance to the nearest forested corridor in a row crop agriculture dominated landscape and in relation to relative crop pest abundance. This data set was used to assess if bats were homogeneously distributed over a near-uninterrupted agricultural landscape and to assess the importance of forested corridors and the presence of pest...

Dataset for Testing the Keystone Framework by Analyzing Positive Citations to Wakefield's 1998 Paper

Amulya Addepalli, Karen Ann Subin & Jodi Schneider

RCT Tagger Results

Yogeshwar Kansara & Khanh Linh Hoang
The data file contains a list of articles and their RCT Tagger prediction scores, 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 \"Methods for assessing artificial thermal refuges: spatiotemporal analysis more informative than averages\"

George Bakken, Francis Tillman & Joy O'Keefe
This dataset contains temperature measurements in four different bat box designs deployed in central Indiana, USA from May to September 2018. Hourly environmental data (temperature, solar radiation, and wind speed) are also included for days and hours sampled. Bat box temperature data were used as inputs in a free program, GNU Octave, to assess design performance with respect to suitability indices for endothermic metabolism and pup development. Scripts are included in the dataset.

Data for: Quantifying the effects of mixing state on aerosol optical properties

Yu Yao, Jeffrey Curtis, Joseph Ching, Zhonghua Zheng & Nicole Riemer
This dataset contains simulation results from numerical model PartMC-MOSAIC used in the article "Quantifying the effects of mixing state on aerosol optical properties". This article is submitted to the journal Atmospheric Physics and Chemistry. There are total 100 scenario directories in this dataset, denoted from 00-99. Each scenario contains 25 NetCDF files hourly output from PartMC-MOSAIC simulations containing the simulated gas and particle information. The data was produced using version 2.5.0 of PartMC-MOSAIC. Instructions to...

EVEX Campaign Ground Based Radar Data

Erhan Kudeki & Pablo Reyes
Ground based radar data sets collected during the 2013 NASA EVEX Campaign conducted in Roi-Namur island of the Kwajalein Atoll in the Republic of Marshall Islands are deposited in this databank. Radar data were collected with IRIS VHF and ALTAIR VHF/UHF systems.

Dataset associated with Nonindigenous Aquatic Mollusks in Illinois manuscript

Jeremy S. Tiemann, Alison P. Stodola, Sarah A. Douglass, Rachel M. Vinsel & Kevin S. Cummings
This dataset is associated with a larger manuscript published in 2022 in the Illinois Natural History Survey Bulletin to summarize all known records for nonindigenous aquatic mollusks in Illinois, and full sources are referenced within the manuscript. We examined museum holdings, literature accounts, publicly available databases sponsored by the U.S. Geological Survey (USGS) - Nonindigenous Aquatic Species program (http://nas.er.usgs.gov/.) and InvertEBase (invertebase.org). We also included sporadic field survey data of encounters of nonindigenous aquatic species...

Data for changes in neuropeptide prohormone genes among Cetartio-dactyla livestock and wild species associated with evolution and domestication

Bruce Southey & Sandra L. Rodriguez-Zas
This dataset contain information for the paper "Changes in neuropeptide prohormone genes among Cetartio-dactyla livestock and wild species associated with evolution and domestication" Veterinary Sciences, MDPI. Protein sequences were predicted using GeneWise for 98 neuropeptide prohormone genes from publicly available genomes of 118 Cetartiodactyla species. All predictions (CetartiodactylaSequences2022.zip) were manually verified. Sequences were aligned within each prohormone using MAFFT (MDPImultalign2022.zip includes multiple sequence alignment of all species available for each prohormone). Phylogenetic gene trees were...

Camera traps for monitoring insects - supporting information

Qaim Naqvi
Insect and pollinator populations are vitally important to the health of ecosystems, food production, and economic stability, but are declining worldwide. New, cheap, and simple monitoring methods are necessary to inform management actions and should be available to researchers around the world. Here we evaluate the efficacy of commercially available, close-focus automated camera traps to monitor insect-plant interactions. We compared two video settings—scheduled and motion-activated—to a traditional human observation method. Our results show that camera...

Emplacement of massive deposits by sheet flow

Ricardo Hernandez‐Moreira, Sadegh Jafarinik, Sydney Sanders, Christopher G. St. C. Kendall, Gary Parker & Enrica Viparelli
Relatively common to the submarine setting are depositional sequences that begin with a lower erosional boundary, followed in ascending order by a either a graded or an inherently massive basal unit, a relatively coarse parallel laminated unit, a cross laminated unit, a relatively fine parallel laminated unit, and a capping layer of massive mud. These sequences are present in turbidity current, coastal storm and tsunami deposits, and their study is the key to understanding the...

Sorghum leaf blight phenotypes for two recombinant inbred line populations

Tiffany Jamann
Sorghum leaf blight and northern corn leaf blight, both caused by Exserohilum turcicum, are major diseases of sorghum and maize, respectively. Examining the genetic architecture of resistance in sorghum will lead to a better understanding of the relationship between resistance in sorghum and maize, which can ultimately enhance management options in both crops. In 2018 and 2019 we evaluated two sorghum recombinant inbred line (RIL) populations for resistance to E. turcicum. The BTx623 x IS3620C...

Population-level variation in parasite resistance due to differences in immune initiation and rate of response

Amanda Hund, Lauren Fuess, Mariah Kenney, Meghan Maciejewski, Joseph Marini, Kum Chuan Shim & Dan Bolnick
Closely related populations often differ in resistance to a given parasite, as measured by infection success or failure. Yet, the immunological mechanisms of these evolved differences are rarely specified. Does resistance evolve via changes to the host’s ability to recognize that an infection exists, actuate an effective immune response, or attenuate that response? We tested whether each of these phases of the host response contributed to threespine sticklebacks’ recently evolved resistance to their tapeworm Schistocephalus...

Data from: Independent evolution of highly variable, fragmented mitogenomes of parasitic lice

Andrew Sweet, Kevin Johnson & Stephen Cameron
The mitochondrial genomes (mitogenomes) of bilaterian animals are highly conserved structures that usually consist of a single circular chromosome. However, several species of parasitic lice (Insecta: Phthiraptera) possess fragmented mitogenomes, where the mitochondrial genes are present on separate, circular chromosomes. Nevertheless, the extent, causes, and consequences of this structural variation remain poorly understood. Here, we combined new and existing data to better understand the evolution of mitogenome fragmentation in major groups of parasitic lice. We...

The chloroplast genomes of Sanicula (Apiaceae): plastome structure, comparative analyses, and phylogenetic relationships

Chen Yang, Xue-Ying Yao, Zhi-Xiang Chen, Stephen R. Downie & Qi-Zhi Wang
Sanicula (Apiaceae subfamily Saniculoideae) is a taxonomically difficult genus of medicinal value. Its distribution center is in China, where there are 18 species (11 of which are endemic). To provide plastid genome resources, whole chloroplast genomes of five Sanicula species (S. flavovirens, S. giraldii, S. lamelligera, S. odorata, and S. rubriflora) were sequenced and compared to the previously published S. orthacantha plastome. These genomes exhibit a typical quadripartite structure. All contain 129 different genes, including...

The role of behavioral type composition on resource use and growth of a juvenile predator

Michael Nannini
Juvenile largemouth bass have distinct behavioral types that separate along the exploring behavioral axis and differ in diet. We used a mesoxosm experiement to test the hypothesis that groups composed of mixed behavioral types would have more efficient use of prey resources and reduced competition between individuals than experimental populations composed of similar behavioral types. Fish growth, diets and prey composition were quantified over a four-week period in mesocosms containing prey communities that were mixtures...

Code for \"Phage-antibiotic synergy inhibited by temperate and chronic virus competition\"

Zoi Rapti & Sara Clifton
Matlab codes for the article "Phage-antibiotic synergy inhibited by temperate and chronic virus competition". Code can be used to reproduce the article figures, perform the parameter sensitivity analysis and simulate the model.

Trajectory files for \"Percolation transition prescribes protein size-specific barrier to passive transport through the nuclear pore complex.\"

David Winogradoff, Han-Yi Chou, Christopher Maffeo & Aleksei Aksimentiev

Data for: Sense of Belonging Predicts Perceived Helpfulness in Online Peer Help-Giving Interactions

Amos Jeng, Nigel Bosch & Michelle Perry
This dataset was developed as part of an online survey study that explores student characteristics that may predict what one finds helpful in replies to requests for help posted to an online college course discussion forum. 223 college students enrolled in an introductory statistics course were surveyed on their sense of belonging to their course community, as well as how helpful they found 20 examples of replies to requests for help posted to a statistics...

SBKS - Species Not Found Entity Mentions

Jacob Jett
This dataset is derived from the raw entity mention dataset (https://doi.org/10.13012/B2IDB-4950847_V1) for species entities and represents those that were determined to be species (i.e., were not noisy entities) but for which no corresponding concept could be found in the NCBI taxonomy database.

Data for Spatial Accessibility to HIV (Human Immunodeficiency Virus) Testing, Treatment, and Prevention Services in Illinois and Chicago, USA

Jeon-Young Kang, Bita Fayaz Farkhad, Man-pui Sally Chan, Alexander Michels, Dolores Albarracin & Shaowen Wang
This dataset helps to investigate the Spatial Accessibility to HIV Testing, Treatment, and Prevention Services in Illinois and Chicago, USA. The main components are: population data, healthcare data, GTFS feeds, and road network data. The core components are: 1) `GTFS` which contains GTFS (General Transit Feed Specification) data which is provided by Chicago Transit Authority (CTA) from Google's GTFS feeds. Documentation defines the format and structure of the files that comprise a GTFS dataset: https://developers.google.com/transit/gtfs/reference?csw=1....

Data for Spin-selective tunneling from nanowires of the candidate topological Kondo insulator SmB6

Vidya Madhavan & Anuva Aishwarya
This dataset consists of all the files and codes that are part of the manuscript (main text and supplement) titled "Spin-selective tunneling from nanowires of the candidate topological Kondo insulator SmB6". For detailed information on the individual files refer to the specific readme files.

Knowledge, attitudes, and practices of Illinois medical professionals related to ticks and tick-borne disease

Dawn Carson, Heather Kopsco, Peg Gronemeyer, Nohra Mateus-Pinilla, Genee Smith, Emma Sandstrom & Rebecca Smith
An online knowledge, attitudes, and practices survey on ticks and tick-borne diseases was distributed to medical professionals in Illinois during summer 2020 to fall 2021. These are the raw data associated with that survey and the survey questions used. Age, gender, and county of practice have been removed for identifiability. We have added calculated values (columns 165 to end), including: the tick knowledge score, TBD knowledge score, and total knowledge score, which are the sum...

Registration Year

  • 2022

Resource Types

  • Dataset


  • University of Illinois
  • University of Illinois Urbana-Champaign
  • University of Illinois at Urbana Champaign
  • University of Minnesota
  • Arkansas State University
  • Yale University
  • University of Illinois at Urbana-Champaign
  • Victoria University of Wellington
  • University of Jos
  • University of Eastern Finland