cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10391034
title: Dataset of 'Development of a total variation diminishing (TVD) Sea ice transport scheme and its application in in an ocean (SCHISM v5.11) and sea ice (Icepack v1.3.4) coupled model on unstructured grids'

description: As a dataset of the paper "Development of a total variation diminishing (TVD) Sea ice transport scheme and its application in in an ocean (SCHISM v5.11) and sea ice (Icepack v1.3.4) coupled model on unstructured grids" , this dataset includes all configuration files of the idealized case and realistic test on the Arctic Ocean and the source code.
DOI: 10.25625/cosmhy/zygkwk
title: GWAS result PC1 corrected by CS-1.tab

description: :unav
DOI: 10.25625/cosmhy/xaope7
title: GWAS result PC2 corrected by CS-1.tab

description: :unav
DOI: 10.25625/cosmhy/1yehbu
title: GWAS results -ommatidia corrected by Tibia length.tab

description: :unav
DOI: 10.25625/cosmhy/4rebua
title: GWAS result Ommatidia corrected by CS-1.tab

description: :unav
DOI: 10.25625/cosmhy/a8dku9
title: GWAS results -ommatidia corrected by Tibia length-1.tab

description: :unav
DOI: 10.25625/cosmhy/nofwgq
title: Tibia length -162 strains.tab

description: :unav
DOI: 10.25625/cosmhy/2ygzlw
title: GWAS result- wing shape PC1-1.tab

description: :unav
DOI: 10.25625/cosmhy/enpjh6
title: GWAS result-wing shape PC2.tab

description: :unav
DOI: 10.25625/cosmhy/4g8ev4
title: GWAS result Ommatidia corrected by CS.tab

description: :unav
DOI: 10.25625/cosmhy/iiw5xx
title: GWAS result- wing shape PC1.tab

description: :unav
DOI: 10.25625/cosmhy/oiv3en
title: GWAS result- ommatidia number.tab

description: :unav
DOI: 10.25625/cosmhy/ba8oko
title: Ommatidia number data_162strains.tab

description: :unav
DOI: 10.25625/cosmhy/imqxlb
title: Correlation between ommatidia number and CS -Tibia length.tab

description: :unav
DOI: 10.25625/cosmhy/de3hwy
title: GWAS results-Tibia length.tab

description: :unav
DOI: 10.25625/cosmhy/x7dfn3
title: GWAS result PC2 corrected by CS.tab

description: :unav
DOI: 10.25625/cosmhy/r8jcuo
title: GWAS result PC1 corrected by CS.tab

description: :unav
DOI: 10.25625/cosmhy
title: Supplementary files and tables

description: The first excel file: Correlation between ommatidia number and CS -Tibia length is about the Correlation between the ommatidia number and the CS, ommatidia number and tibia length. It shows the R2 values per strain. GWAS result Ommatidia corrected by CS: this file contains the GWAS results from ommatidia number corrected by CS values for a pvalue threshold of 1E-4 (results from Dgrpool https://dgrpool.epfl.ch/ ) GWAS result Ommatidia corrected by tibia length: this file contains the GWAS results from ommatidia number corrected by tibia length values for a pvalue threshold of 1E-4 (results from DGRP website tool) GWAS result PC1 corrected by CS: this file contains the GWAS results from wing shape (mean PC1) corrected by wing size (CS) values for a pvalue threshold of 1E-4 (results from Dgrpool https://dgrpool.epfl.ch/ ) GWAS result PC2 corrected by CS: this file contains the GWAS results from wing shape (mean PC2) corrected by wing size (CS) values for a pvalue threshold of 1E-4 (results from Dgrpool https://dgrpool.epfl.ch/ ) GWAS result- wing shape PC1: this file contains the GWAS results from wing shape (mean of PC1) for a pvalue threshold of 1E-4 (results from DGRP website tool) GWAS result-wing shape PC2: this file contains the GWAS results from wing shape (mean of PC2) for a pvalue threshold of 1E-4 (results from DGRP website tool) GWAS results-Tibia length: this file contains the GWAS results from leg size (tibia length) for a pvalue threshold of 1E-4 (results from DGRP website tool) GWAS result- ommatidia number: this file contains the GWAS results from ommatidia number for a pvalue threshold of 1E-4 (results from DGRP website tool) Ommatidia number data_162strains: phenotypic data of ommatidia number in 162 strains Tibia length -162 strains: phenotypic data of tibia length in 162 strains
DOI: 10.25625/cosmhy/j0kiev
title: Description of the data.docx

description: :unav
DOI: 10.6084/m9.figshare.24846126
title: PRISMA checklist.pdf

description: Completed PRISMA 2020 checklist for my systematic review manuscript titled ‘<b>Primary Health Care as The Main Guarantor of a Healthy Population in The Country and A Global Challenge in The World</b>’. The checklist provides a detailed account of the methods and findings of the systematic review.
DOI: 10.5281/zenodo.10395869
title: RSS-NET baseline results (Part 4)
DOI: 10.5281/zenodo.10395870
title: RSS-NET baseline results (Part 4)
DOI: 10.5281/zenodo.10022934
title: Data from: Variation in thermal sensitivity of diapause development among individuals  and over time predicts life history timing in a univoltine insect

description: Dataset and code associated with the manuscript "Variation in thermal sensitivity of diapause development among individuals and over time predicts life history timing in a univoltine insect." See ReadMe file for additional details.
DOI: 10.5281/zenodo.10022935
title: Data for "Variation in thermal sensitivity of diapause development among individuals  and over time predicts life history timing in a univoltine insect"

description: Dataset and code associated with the manuscript "Variation in thermal sensitivity of diapause development among individuals  and over time predicts life history timing in a univoltine insect." See ReadMe file for additional details.
DOI: 10.5281/zenodo.10277669
title: Data from: Variation in thermal sensitivity of diapause development among individuals  and over time predicts life history timing in a univoltine insect

description: Dataset and code associated with the manuscript "Variation in thermal sensitivity of diapause development among individuals and over time predicts life history timing in a univoltine insect." See ReadMe file for additional details.
DOI: 10.48539/heqb-v308
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Lung, v1.4
DOI: 10.5281/zenodo.10396133
title: invenusta_paracnida_zanfona_1.fasta.gz

description: invenusta_paracnida_zanfona_1.fasta.gz
DOI: 10.5281/zenodo.10396134
title: invenusta_paracnida_zanfona_1.fasta.gz

description: invenusta_paracnida_zanfona_1.fasta.gz
DOI: 10.6073/pasta/4791bb7a25e0a69d27e8436fb9ae893f
title: Water, Soil, Floc, Plant Total Phosphorus, Total Carbon, and Bulk Density data (FCE) from Everglades Protection Area (EPA) from 2004 to 2016

description: These data are a compillation of data from multiple sources including South Florida Water Management District (SFWMD) DBhydro web database, United States Environment Protection Agency Regional, Environmental Monitoring and Assessment (REMAP), Everglades Soil Mapping (ESM), and Florida Coastal Everglades Long Term Ecological Research (FCE-LTER). The matrix of these data were compiled for soil, surface water, floc, and plants where the nutrients are counted for total phosphorus, total carbon, and bulk density. When downloading the data from DBhydro, only regularly collected samples (SAMP) were included these data. As per DBhydro metadata, the regular samples were collected monthly by grab method throughout the year from 2004 to 2016 for SFWMD monitoring stations across the EPA. All flagged and field quality controlled values were excluded to avoid the duplication of data. In order to maintain the quality assurance/ quality control (QA/QC) the method detection limit for water TP was fixed at 2 µg/L by the SFWMD. This data set were used to assess the decadal trend of TP concentration in surface water and soil in EPA. Available data from 2004 to 2014 was collected for soils and from 2004 to 2016 for water to understand a decade of trends. Both Geographic Information System (GIS) and statistical data analysis were applied to determine changes in water quality and soil chemistry. These data are the basis for Shishir Sarker's Master's thesis.
DOI: 10.34740/kaggle/dsv/7218160
title: Balochi Language to English Translation Dataset
DOI: 10.5281/zenodo.10396167
title: laminaria_sinclairii_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10396168
title: laminaria_sinclairii_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10394482
title: Application of flow cytometry using advanced chromatin analyses for assessing changes in the sperm structure and DNA integrity in a porcine model

description: Chromatin status is critical for sperm fertility. We tested a multivariate approach for studying pig sperm chromatin, aiming to capture the chromatin structure's complexity with a set of quick and simple techniques, not only DNA damage. Sperm doses from 36 boars (3 ejaculates/boar) were analyzed at days 0 and 11 (cooled storage). Analyses were: CASA (motility) and flow cytometry to assess sperm functionality and chromatin structure by SCSA (DNA fragmentation %DFI and chromatin maturity %HDS), monobromobimane (mBBr, tiol status/disulfide bridges between protamines), chromomycin A3 (CMA3, protamination) and 8-hydroxy-2'-deoxyguanosine (8-oxo-dG, DNA oxidative damage). Data were analyzed by linear models for effects of boar and storage, correlations, and multivariate analysis as hierarchical clustering and principal component analysis (PCA). Storage reduced sperm quality parameters, mainly motility, with no critical oxidative stress increases, while chromatin status worsened slightly (%DFI and 8-oxo-dG  increased while mBBr MFI and disulfide bridges decreased). Boar significantly affected most chromatin variables except for CMA3, with storage affecting most except %HDS. At day 0, sperm chromatin variables clustered closely, except for CMA3, and %HDS and 8-oxo-dG correlated with many variables (notably, mBBr). After storage, the relation between %HDS and 8-oxo-dG remained, but correlations among other techniques disappeared, and mBBr variables clustered separately. The PCA suggested a considerable influence of mBBr on sample variance, especially regarding storage, with SCSA and 8-oxo-dG affecting between-sample variability. Overall, CMA3 was the least informative, in contrast with results in other species. The combination of DNA fragmentation, DNA oxidation, chromatin compaction, and tiol status seems a good candidate for obtaining a complete picture of the pig sperm nucleus status, raising many questions for future molecular studies and deserving further research to establish its usefulness as fertility predictors in multivariate models. The meaning of CMA3 should be clarified.
DOI: 10.5281/zenodo.10394483
title: Application of flow cytometry using advanced chromatin analyses for assessing changes in the sperm structure and DNA integrity in a porcine model

description: Chromatin status is critical for sperm fertility. We tested a multivariate approach for studying pig sperm chromatin, aiming to capture the chromatin structure's complexity with a set of quick and simple techniques, not only DNA damage. Sperm doses from 36 boars (3 ejaculates/boar) were analyzed at days 0 and 11 (cooled storage). Analyses were: CASA (motility) and flow cytometry to assess sperm functionality and chromatin structure by SCSA (DNA fragmentation %DFI and chromatin maturity %HDS), monobromobimane (mBBr, tiol status/disulfide bridges between protamines), chromomycin A3 (CMA3, protamination) and 8-hydroxy-2'-deoxyguanosine (8-oxo-dG, DNA oxidative damage). Data were analyzed by linear models for effects of boar and storage, correlations, and multivariate analysis as hierarchical clustering and principal component analysis (PCA). Storage reduced sperm quality parameters, mainly motility, with no critical oxidative stress increases, while chromatin status worsened slightly (%DFI and 8-oxo-dG  increased while mBBr MFI and disulfide bridges decreased). Boar significantly affected most chromatin variables except for CMA3, with storage affecting most except %HDS. At day 0, sperm chromatin variables clustered closely, except for CMA3, and %HDS and 8-oxo-dG correlated with many variables (notably, mBBr). After storage, the relation between %HDS and 8-oxo-dG remained, but correlations among other techniques disappeared, and mBBr variables clustered separately. The PCA suggested a considerable influence of mBBr on sample variance, especially regarding storage, with SCSA and 8-oxo-dG affecting between-sample variability. Overall, CMA3 was the least informative, in contrast with results in other species. The combination of DNA fragmentation, DNA oxidation, chromatin compaction, and tiol status seems a good candidate for obtaining a complete picture of the pig sperm nucleus status, raising many questions for future molecular studies and deserving further research to establish its usefulness as fertility predictors in multivariate models. The meaning of CMA3 should be clarified.
DOI: 10.5281/zenodo.10396169
title: Heptazine dataset of spectra

description: Dataset for heptazines project supervised by Lucas Frederic and Clemence Allain
DOI: 10.5281/zenodo.10396170
title: Heptazine dataset of spectra

description: Dataset for heptazines project supervised by Lucas Frederic and Clemence Allain
DOI: 10.5281/zenodo.10396178
title: Heptazine dataset of spectra

description: Dataset for heptazines project supervised by Lucas Frederic and Clemence Allain
DOI: 10.15468/qs5wqd
title: Microorganismos en cultivos de mango (Mangifera indica) intercalados con hortalizas, en el departamento del Magdalena, Colombia.

description: La Universidad del Magdalena en alianza con Minciencias, desarrolló el proyecto "Impacto de cultivos intercalados sobre la dinámica sanitaria y la sostenibilidad productiva y ambiental de mango (Mangifera indica) cultivar Azúcar, en el departamento del Magdalena, Colombia". En el proyecto se establecieron 3 fincas distribuidas cada una en tres modelos productivos de hortalizas intercaladas con una aromática y el cultivo principal (Mango) en las cuales se realizaron muestreos de los microorganismos asociados a los modelos.
El presente conjunto de datos corresponde a 73 registros biológicos correspondientes a microorganismos recolectados durante junio del 2023 en parcelas en jurisdicción de los municipio de Santa Marta, centro poblado Tigrera del departamento del Magdalena.
DOI: 10.5281/zenodo.10396209
title: crypturellus_boucardi_zanfona_01.fasta.gz

description: .
DOI: 10.5281/zenodo.10396210
title: crypturellus_boucardi_zanfona_01.fasta.gz

description: .
DOI: 10.6084/m9.figshare.24128883
title: Supplemental tables and figures for "<b>Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning</b>" (Riedling et al. 2023).

description: All the training data and secondary metabolite bioactivities and references can be found in the supplemental tables.
DOI: 10.6084/m9.figshare.24128883.v1
title: Supplemental tables and figures for "<b>Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning</b>" (Riedling et al. 2023).

description: All the training data and secondary metabolite bioactivities and references can be found in the supplemental tables.
DOI: 10.5281/zenodo.10396225
title: euphonia_xanthogaster_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10396224
title: euphonia_xanthogaster_zanfona_1.fasta.gz

description: .
DOI: 10.34740/kaggle/dsv/7218392
title: pharmacy_economic
DOI: 10.5281/zenodo.10396004
title: RSS-NET baseline results (Part 5)
DOI: 10.5281/zenodo.10396003
title: RSS-NET baseline results (Part 5)
DOI: 10.5281/zenodo.10396252
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Burton Clyde Cebulski, http://www.wikidata.org/entity/Q123862235. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q123862235
DOI: 10.5281/zenodo.10396253
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Burton Clyde Cebulski, http://www.wikidata.org/entity/Q123862235. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q123862235
DOI: 10.6084/m9.figshare.23869845.v1
title: All Data

description: Greenhouse gas, sediment parameter data<br>These data and related items of information have not been formally disseminated by NOAA, and do not represent any agency determination, view, or policy
DOI: 10.25345/c54f1mv7n
title: MassIVE MSV000093676 - Temporal Dynamics of Cyanobacterial Bloom Community Composition and Toxin Production from Urban Lakes
title: These data are raw mass spec files and corresponding mzXML files for time series mass spec data from three urban lakes at Roger Williams Park in Providence, RI. Data files are described by lake location (Pleasure, Polo, Cunliff) and date of sample collection. The Microcystis _Cells file is a positive control of a cultivated strain from the UTEX culture collection (M. aeruginosa UTEX #LB2385) - a known microcystin-LR producer. Information on LC-MS/MS method can be found in the published work.
DOI: 10.6073/pasta/a3ba2abf24e645e6205d737bab0d7d74
title: DIC and DOC 13C tracer data from Shark River Slough and Harney River (FCE), Everglades, South Florida in November 2011

description: As part of the larger NSF WSC funded project, an SF6 tracer study was conducted in November of 2011 by working groups form ENP, FIU and Univ. of Hawaii. This work included the release of the tracer (SF6), which was sampled in a lagrangian approach as the tracer “patch” moved from the fresh water portion of the system to the mangrove ecotone along the Shark and Harney Rivers. The goal of this study was to measure carbon export through the system. Annie Palya used our new CRDS system to measure the isotopic composition (d13C) of the DOM & DIC (analyzed at RSMAS) during this study, as carbon isotopes may help to resolve different sources of carbon. This analytical approach is relatively new, and will be important for understanding the C-dynamics within the FCE.
DOI: 10.5281/zenodo.10396270
title: Entropy of N atoms trapped in 1D hamornic oscillator.

description: Data contains the values of the logarithms of entropies for a 1D Bose gas trapped in the harmonic oscillator for different number of atoms.

Columns : Number of atoms | exact value of the logarithm of the entropy | approximated value (from the Ramanujan-Hardy formula for number of partirions)
DOI: 10.5281/zenodo.10396271
title: Entropy of N atoms trapped in 1D hamornic oscillator.

description: Data contains the values of the logarithms of entropies for a 1D Bose gas trapped in the harmonic oscillator for different number of atoms.

Columns : Number of atoms | exact value of the logarithm of the entropy | approximated value (from the Ramanujan-Hardy formula for number of partirions)
DOI: 10.5281/zenodo.10396302
title: microcambeva_bendego_zanfona_01.fasta.gz

description: .
DOI: 10.5281/zenodo.10396303
title: microcambeva_bendego_zanfona_01.fasta.gz

description: .
DOI: 10.5281/zenodo.10396308
title: mechanitis_polymnia_zanfona_1.fasta.gz

description: mechanitis_polymnia_zanfona_1.fasta.gz
DOI: 10.5281/zenodo.10396309
title: mechanitis_polymnia_zanfona_1.fasta.gz

description: mechanitis_polymnia_zanfona_1.fasta.gz
DOI: 10.5281/zenodo.10396312
title: mitrocomella_polydiademata_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10396313
title: mitrocomella_polydiademata_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10396244
title: RSS-NET baseline results (Part 6)
DOI: 10.5281/zenodo.10396245
title: RSS-NET baseline results (Part 6)
DOI: 10.5281/zenodo.10391061
title: FOCAL Dataset: Ford-OLIVES Collaboration on Active Learning

description: In this dataset, we introduce the FOCAL (Ford-OLIVES Collaboration on Active Learning) dataset which enables the study of the impact of annotation-cost within a video active learning setting. Annotation-cost refers to the time it takes an annotator to label and quality-assure a given video sequence. A practical motivation for active learning research is to minimize annotation-cost by selectively labeling informative samples that will maximize performance within a given budget constraint. However, previous work in video active learning lacks real-time annotation labels for accurately assessing cost minimization and instead operates under the assumption that annotation-cost scales linearly with the amount of data to annotate. This assumption does not take into account a variety of real-world confounding factors that contribute to  a nonlinear cost such as the effect of an assistive labeling tool and the variety of interactions within a scene such as occluded objects, weather, and motion of objects. FOCAL addresses this discrepancy by providing real annotation-cost labels for 126 video sequences across 69 unique city scenes with a variety of weather, lighting, and seasonal conditions. These videos have a wide range of interactions that are at the intersection of infrastructure-assisted autonomy and autonomous vehicle communities. We show through a statistical analysis of the FOCAL dataset that cost is more correlated with a variety of factors beyond just the length of a video sequence. We also introduce a set of conformal active learning algorithms that take advantage of the sequential structure of video data in order to achieve a better trade-off between annotation-cost and performance while also reducing floating point operations (FLOPS) overhead by at least 77.67%. We show how these approaches better reflect how annotations on videos are done in practice through a sequence selection framework. We further demonstrate the advantage of these approaches by introducing two performance-cost metrics and show that the best conformal active learning method is cheaper than the best traditional active learning method by 113 hours.  
This work took place at the OLIVES Lab @ Georgia Tech. 
The codebase associated with this work can be found at this Github.
Please refer to our lab-wide github for more information regarding the code associated with our other papers.
description: The data presented here is a processed version of the full FOCAL dataset in YOLO object detection format.
 

The associated github for this dataset can be located at: https://github.com/olivesgatech/FOCAL_Dataset.
 

The images and labels in Yolo format are located in the file focal_yolo.tar.gz.
 

Information regarding the annotation cost of every sequence in the dataset is located in the associated excel file.
 

Every image has the format:   nameofsequence _ nameofimage.jpg
 

The folder called split ids contains files that delineate which sequences belonged to the train, test, and val sets throughout the creation of the paper.
DOI: 10.6084/m9.figshare.24129012
title: Supplementary figures, tables, and code used to train models and produce input files for "<b>Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning</b>" (Riedling et al. 2023).

description: All biosynthetic gene cluster and secondary metabolite bioactivities used to train the models can be found in supplemental tables 1 and 2. The Jupyter notebooks fungal_only_trained_model and NP_prediction_bacterial_and_fungal contain the code necessary to train the models. The Jupyter notebooks titled Running_predictions contain the code to make predictions on SM bioactivity from antiSMASH and RGI input. The Jupyter notebooks require the additional Python scripts so keep all scripts in the same directory as the notebooks. The scripts to extract the features from the antiSMASH and RGI files are included in the notebooks.