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Reiley, Bryan (2020): Avian fitness consequences and habitat selection. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-3482175_V1
Nest survival and Fledgling production data for Bell's Vireo and Willow Flycatcher nests.
Bell's Vireo;Willow Flycatcher;habitat selection;fitness;
Scheidler, Andrew; Kinnett-Hopkins, Dominique; Learmonth, Yvonne; Motl, Robert; Lopez-Ortiz, Citlali (2017): Targeted ballet program mitigates ataxia and improves agility in moderate-to-advanced multiple sclerosis. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-6858418_V2
TBP assessment raw data files of pre- and post- motion capture velocity and center of pressure force plate data. Labels are self-explanatory. The .mat files refer to data exported from the force plate for the time-to-stabilization assessments while the .txt files are the data collected for smoothness of gait assessments. These files do not relate to one another and are from separate assessments. Version2's files are the result from using Python code Data_Bank_Cleaner.py on version1's. Please find more information in READ_ME_databank.txt.
Multiple Sclerosis; Rehabilitation; Balance; Ataxia; Ballet; Dance; Targeted Ballet Program
Ferrer, Astrid (2020): Data for: Contribution of fungal and invertebrate communities to mass loss and wood depolymerization in tropical terrestrial and aquatic habitats. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-1530066_V1
Supplemental data sets for the Manuscript entitled "Contribution of fungal and invertebrate communities to mass loss and wood depolymerization in tropical terrestrial and aquatic habitats"
Coiba Island; wood decomposition; cellulose; hemicellulose; lignin breakdown; aquatic fungi
McCoy, Annette; Lopp, Christine; Kooy, Sarah; Migliorisi, Alessandro; Austin, Scott; Wilkins, Pamela (2020): Supplemental Data Normal Regression of the Internal Umbilical Remnant Structures in Standardbred Foals. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-2680911_V1
Raw measurement data for umbilical remnants (umbilical vein, umbilical arteries and urachus) in support of Equine Veterinary Journal publication "Normal Regression of the Internal Umbilical Remnant Structures in Standardbred Foals."
equine; umbilicus; ultrasound
Larsen, Ryan; Charles, Hillman; Kramer, Arthur; Cohen, Neal; Barbey, Aron (2020): Dataset for "Body mass and cardiorespiratory fitness are associated with altered brain metabolism". University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-9371397_V1
Baseline data from a multi-modal intervention study conducted at the University of Illinois at Urbana-Champaign. Data include results from a cardiorespiratory fitness assessment (maximal oxygen consumption, VO2max), a body composition assessment (Dual-Energy X-ray Absorptiometry, DXA), and Magnetic Resonance Spectroscopy Imaging. Data set includes data from 435 participants, ages 18-44 years.
Magnetic Resonance Spectroscopy; N-acetyl aspartic acid (NAA); Body Mass Index; cardiorespiratory fitness; body composition
Rhoads, Bruce ; Lindroth, Evan (2020): Bank Elevation Dataset. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-6100626_V1
Data on bank elevations determined from lidar data for the Upper Sangamon River, Illinois, the Mission River, Texas, and the White River in Indiana
bank elevations, rivers, meandering, lowland
Sweet, Andrew; Johnson, Kevin; Cameron, Stephen (2020): Data from: Mitochondrial genomes of Columbicola feather lice are highly fragmented, indicating repeated evolution of minicircle-type genomes in parasitic lice . University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-2211060_V2
Data files associated with the assembly of mitochondrial minicircles from five species of parasitic lice. This includes data from four species in the genus Columbicola and from the human louse (Pediculus humanus). The files include FASTA sequences for all five species, reference sequences for read mapping approaches, resulting contigs produced by various assembly approaches, and alignments of human louse minicircles mapped to published sequences of the same species.
mitochondria; FASTA; nucleotide sequences; alignment; Columbicola; Pediculus
Clem, Scott; Sparbanie, Taylor; Luro, Alec; Harmon-Threatt, Alexandra (2020): Data for: Anthophilous hover flies (Diptera: Syrphidae) may visually discriminate neonicotinoid insecticides in sucrose solution: a choice experiment. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-0490928_V1
These data were collected for an experiment examining effects of neonicotinoid (clothianidin) presence on hover fly (Diptera: Syrphidae) behavior. Hover flies of two species (Eristalis arbustorum and Toxomerus marginatus) were offered a choice to feed on artificial flowers laced with sucrose solution that was either contaminated (CLO) or not contaminated (CON) with clothianidin. Two different concentrations of clothianidin in 0.5 M sucrose solution were tested: 2.5 ppb and 150 ppb. We conducted four sets of 10 trials, each trial set examining a different combination of species and clothianidin dose. Across 6 hours of video for each trial we recorded 1) number of visits to each flower that resulted in feeding, and 2) amount of time spent feeding during each visit. We found that while neither species fed significantly longer on either of the solutions, E. arbustorum appeared to avoid flowers with clothianidin particularly at high rates. In the paper, we attribute this avoidance response, partially, to hover fly-visible spectral differences between the two flower choices and discuss potential implications for field and lab-based studies. In the enclosed zip file we have included all data for this project and code scripts from R. * Note: Data folder contains 4 files (instead of 6 as mentioned in Readme): e.tenax_photoreceptors.csv; hoverfly_data_UPDATE.csv; number_visits_UPDATE.csv; and Original 2018 hover fly choice test data_Clem2020.xlsx
Syrphidae; hoverfly; Eristalis; Toxomerus; Choice Experiment; Neonicotinoid; Clothianidin
Bradshaw, Therin M.; Blake-Bradshaw, Abigail G.; Fournier, Auriel M.V.; Lancaster, Joseph D. ; O'Connell, John; Jacques, Christopher N.; Eicholtz, Michael W.; Hagy, Heath M (2020): Marsh bird occupancy of wetlands managed for waterfowl in the Midwestern USA - Analysis Inputs. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-5152821_V1
Data inputs, and scripts for the analysis detailed in Bradshaw et al, published in PlosONE 2020.
Marsh birds; wetlands
de Moya, Robert (2019): Heteroptera Transcriptome Set. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-7784896_V1
These are the alignments of transcriptome data used for the analysis of members of Heteroptera. This dataset is analyzed in "Deep instability in the phylogenetic backbone of Heteroptera is only partly overcome by transcriptome-based phylogenomics" published in Insect Systematics and Diversity.
Heteroptera; Hemiptera; Phylogenomics; transcriptome
Zahniser, James; Dietrich, Christopher (2020): NEXUS data file for phylogenetic analysis of Deltocephalinae (Hemiptera: Cicadellidae) . University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-7290912_V1
The Delt_Comb.NEX text file contains the original data used in the phylogenetic analyses of Zahniser & Dietrich, 2013 (European Journal of Taxonomy, 45: 1-211). The text file is marked up according to the standard NEXUS format commonly used by various phylogenetic analysis software packages. The file will be parsed automatically by a variety of programs that recognize NEXUS as a standard bioinformatics file format. The first nine lines of the file indicate the file type (Nexus), that 152 taxa were analyzed, that a total of 3971 characters were analyzed, the format of the data, and specification for two symbols used in the dataset. There are four datasets separated into blocks, one each for: 28S rDNA gene, Histone H3 gene, morphology, and insertion/deletion characters scored based on the alignment of the 28S rDNA dataset. Descriptions of the morphological characters and more details on the species and specimens included in the dataset are provided in the publication using this dataset. A text file, Delt_morph_char.txt, is available here that states the morphological characters and characters states that were scored in the Delt_Comb.NEX dataset. The original DNA sequence data are available from NCBI GenBank under the accession numbers indicated in publication. Chromatogram files for each sequencing read are available from the first author upon request.
phylogeny; DNA sequence; morphology; parsimony analysis; Insecta; Hemiptera; Cicadellidae; leafhopper; evolution; 28S rDNA; histone H3; bayesian analysis
Williams, Benjamin R.; Benson, Thomas J. (2020): Habitat Use of Spring Migrating Dabbling Ducks in the Wabash River Valley. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-7017235_V1
This data describes habitat use, availability, landscape level influences, and daily movement of dabbling ducks in the Wabash River Valley of southeastern Illinois and southwestern Indiana. It contains triangulated locations of individual ducks, associated habitat assignments of those locations, flood survey data to determine water availability, and randomly generated points to assess landscape level questions.
waterfowl; ducks; dabbling; mallard; teal; habitat
Miao, Guofang; Guan, Kaiyu (2020): Sun-induced chlorophyll fluorescence of two Nebraska maize sites in 2017. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-5893373_V1
This dataset includes two data files that provide the time series (Jul. - Sep. 2017) data of sun-induced chlorophyll fluorescence (SIF_760) collected under sunny conditions at two maize sites (one rainfed and the other irrigated) in Nebraska in 2017. Data contain 392 SIF_760 records at the rainfed site and 707 records at the irrigated site. The timestamp uses local standard time. Data are available for the sunny conditions from 8 am to 5 pm (corresponding to 9 am to 6 pm local time) throughout the study period.
sun-induced chlorophyll fluorescence (SIF); maize; gross primary production(GPP); light use efficiency(LUE); SIF yield
Wang, Yu; Burgess, Steven J. ; de Becker, Elsa ; Long, Stephen P. (2019): Data and code for: Photosynthesis in the fleeting shadows: An overlooked opportunity for increasing crop productivity?. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-9453481_V1
This dynamic photosynthesis model of soybean canopy is developed by Yu Wang (firstname.lastname@example.org), IGB, University of Illinois. If you want to know more details, please check the following publication Yu Wang, Steven J. Burgess, Elsa de Becker, Stephen P. Long. Photosynthesis in the fleeting shadows: An overlooked opportunity for increasing crop productivity? The Plant Journal.
Matlab; Soybean canopy; photosynthesis model
Yang, Pan; Zhao, Qiankun; Cai, Ximing (2019): Land productivity and land availability for growing bioenergy crop in the Contiguous US. Center for Advanced Bioenergy and Bioproducts Innovation (CABBI). University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-4584681_V1
The dataset consists of two types of data: the estimate of land productivity (the maximum productivity, MP) and the estimate of land that has low productivity for any major crops planted in the Contiguous United States and then may be available for growing bioenergy crops (the marginal land, ML). All data items are in GeoTiff format, under the World Geodetic System (WGS) 84 project, and with a resolution of 0.0020810045 degree (~250 m). The MP values are calculated based on machine learning model estimated yields of major crops in the CONUS, and its expected value (MP_mean.tif), and associated uncertainty (MP_IDP.tif). The ML availability data have two versions: a deterministic version and a version with uncertainty. The deterministic MLs are determined as the land pixels with expected MP values falling in the range defined in the following criteria, and the MLs with uncertainty are determined as the probability that the MP value of a land pixel falls in the range defined in the following criteria: Criteria_____Description S1________ Current crop and pasture land with MP <= P50 S2________ Current crop and pasture land with MP <= P25 S3________ S1 + current grass and shrub land with P25 < MP < P50 S4________ S2 + current grass and shrub land with P10 < MP < P25 Economic__ Current crop and pasture land with potential profitability < 0 Here P10, P25 and P50 are the 10th, 25th and 50th percentile of crop MP values
Land productivity;marginal land;land use
de Moya, Robert (2019): Feather Louse Orthology set. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-0440388_V1
This is the data set associated with the manuscript titled "Extensive host-switching of avian feather lice following the Cretaceous-Paleogene mass extinction event." Included are the gene alignments used for phylogenetic analyses and the cophylogenetic input files.
phylogenomics, cophylogenetics, feather lice, birds
Zhang, Chuanyi; Ochoa, Idoia (2019): VCF files used for VEF: a Variant Filtering tool based on Ensemble methods. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-9401259_V1
VCF files used to analyze a novel filtering tool VEF, presented in the article "VEF: a Variant Filtering tool based on Ensemble methods".
VCF files; filtering; VEF
Smith, Rebecca (2019): Spatial and Temporal Invasion Dynamics of Aedes albopictus (Diptera: Culicidae) in Illinois. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-7540359_V1
Supporting secondary data used in a manuscript currently in submission regarding the invasion dynamics of the asian tiger mosquito, Aedes albopictus, in the state of Illinois
Choi, Sang Hyun; Rao, Vikyath; Gernat, Tim; Hamilton, Adam; Robinson, Gene; Goldenfeld, Nigel (2019): Honeybee trophallaxis event data for The origin of heavy tails in honeybee and human interaction times. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-2712449_V1
Filtered trophallaxis interactions for two honeybee colonies, each containing 800 worker bees and one queen. Each colony consists of bees that were administered a juvenile hormone analogy, a vehicle treatment, or a sham treatment to determine the effect of colony perturbation on the duration of trophallaxis interactions. Columns one and two display the unique identifiers for each bee involved in a particular trophallaxis exchange, and columns three and four display the Unix timestamp of the beginning/end of the interaction (in milliseconds), respectively.<br /><b>Note</b>: the queen interactions were omitted from the uploaded dataset for reasons that are described in submitted manuscript. Those bees that performed poorly are also omitted from the final dataset.
honey bee; trophallaxis; social network
Choi, Sang Hyun; Rao, Vikyath D.; Gernat, Tim; Hamilton, Adam R.; Robinson, Gene E.; Goldenfeld, Nigel (2019): Honeybee F2F event data for The origin of heavy tails in honeybee and human interaction times. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-4021786_V1
Dataset for F2F events of honeybees. F2F events are defined as face-to-face encounters of two honeybees that are close in distance and facing each other but not connected by the proboscis, thus not engaging in trophallaxis. The first and the second columns show the unique id's of honeybees participating in F2F events. The third column shows the time at which the F2F event started while the fourth column shows the time at which it ended. Each time is in the Unix epoch timestamp in milliseconds.
Rapti, Zoi (2019): Control of bacterial infections via antibiotic-induced proviruses . University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-9721455_V1
Software (Matlab .m files) for the article: Lying in Wait: Modeling the Control of Bacterial Infections via Antibiotic-Induced Proviruses. The files can be used to reproduce the analysis and figures in the article.
Matlab codes; antibiotic-induced dynamics
Fraebel, David T.; Kuehn, Seppe (2019): Sequencing data for migration rate selection experiments (0.2% agar, 1mM sugar). University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-2128477_V1
BAM files for evolved strains from migration rate selection experiments conducted in low viscosity (0.2% w/v) agar plates containing M63 minimal medium with 1mM of mannose, melibiose, N-acetylglucosamine or galactose
Yang, Ning; Gao, Jiarong; Lewis, Fred; Yau, Peter; Collins, James; Sweedler, Jonathan; Newmark, Phillip (2019): Data for A novel rotifer derived alkaloid paralyzes schistosome larvae and prevents infection. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-1599850_V1
The data set here include data from NMR, LC-MS/MS, MALDI-MS, H/D exchange MS experiments used in paper "A novel rotifer derived alkaloid paralyzes schistosome larvae and prevents infection".
de Moya, Robert (2019): Bemisia tabaci ortholog set. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-5333299_V1
This is the published ortholog set derived from whole genome data used for the analysis of members of the B. tabaci complex of whiteflies. It includes the concatenated alignment and individual gene alignments used for analyses (Link to publication: https://www.mdpi.com/1424-2818/11/9/151).
Sashittal, Palash; El-Kebir, Mohammed (2019): SharpTNI Results. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-9734610_V1
Results generated using SharpTNI on data collected from the 2014 Ebola outbreak in Sierra Leone.