cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6824188
title: Outputs of the Jupyter Notebook - Concatenating a gridded rainfall reanalysis dataset into a time series

description: The dataset contains the outputs of the notebook "Concatenating a gridded rainfall reanalysis dataset into a time series" published in The Environmental Data Science Book. <strong>Contributions</strong> <em>Notebook</em> Timothy Lam (author), University of Exeter, @timo0thy Marlene Kretschmer (author), University of Reading, @MarleneKretschmer Samantha Adams (author), Met Office Informatics Lab, @svadams Rachel Prudden (author), Met Office Informatics Lab, @RPrudden Elena Saggioro (author), University of Reading, @ESaggioro Nick Homer (reviewer), University of Edinburgh, @NHomer Alejandro Coca-Castro (reviewer), The Alan Turing Institute, @acocac <em>Dataset originator/creator</em> NOAA National Center for Environmental Prediction (creator) <em>Dataset authors</em> Eugenia Kalnay, Director, NCEP Environmental Modeling Center <em>Dataset documentation</em> E. Kalnay, M. Kanamitsu, R. Kistler, W. Collins, D. Deaven, L. Gandin, M. Iredell, S. Saha, G. White, J. Woollen, Y. Zhu, M. Chelliah, W. Ebisuzaki, W. Higgins, J. Janowiak, K. C. Mo, C. Ropelewski, J. Wang, A. Leetmaa, R. Reynolds, Roy Jenne, and Dennis Joseph. The ncep/ncar 40-year reanalysis project. Bulletin of the American Meteorological Society, 77(3):437 – 472, 1996. URL: https://journals.ametsoc.org/view/journals/bams/77/3/1520-0477_1996_077_0437_tnyrp_2_0_co_2.xml, doi:10.1175/1520-0477(1996)077&lt;0437:TNYRP&gt;2.0.CO;2. <em>Pipeline documentation</em> Marlene Kretschmer, Samantha V. Adams, Alberto Arribas, Rachel Prudden, Niall Robinson, Elena Saggioro, and Theodore G. Shepherd. Quantifying causal pathways of teleconnections. Bulletin of the American Meteorological Society, 102(12):E2247 – E2263, 2021. URL: https://journals.ametsoc.org/view/journals/bams/102/12/BAMS-D-20-0117.1.xml, doi:10.1175/BAMS-D-20-0117.1.
DOI: 10.6084/m9.figshare.20293992
title: Reference compounds for characterizing cellular injury in high-content cellular morphology assays

description: This data accompanies the manuscript "Reference compounds for characterizing cellular injury in high-content cellular morphology assays". <br> Abstract: Robust, generalizable approaches to identify compounds efficiently with undesirable mechanisms of action in complex cellular assays remain elusive. Such a process would be useful for hit triage during high-throughput screening and, ultimately, predictive toxicology during drug development. We generated cell painting and cellular health profiles for 218 prototypical cytotoxic and nuisance compounds in U-2 OS cells in a concentration-response format. A diversity of compounds causing cellular damage produced bioactive cell painting morphologies, including cytoskeletal poisons, genotoxins, nonspecific electrophiles, and redox-active compounds. Further, we show that lower quality lysine acetyltransferase inhibitors and nonspecific electrophiles can be distinguished from more selective counterparts. We propose that the purposeful inclusion of cytotoxic and nuisance reference compounds such as those profiled in this <em>Resource</em> will help with assay optimization and compound prioritization in complex cellular assays like cell painting. <br> This dataset is composed of four parts: (1) List of extracted features from cell painting experiments. (2) Processed live-cell imaging data. (3) Processed intracellular glutathione data. (4) ALARM NMR and UPLC-MS data for KAT inhibitors.
DOI: 10.6084/m9.figshare.3761562.v2277
title: Online Labour Index: Measuring the Online Gig Economy for Policy and Research

description: Data repository for the data underlying the Online Labour Index. See http://ilabour.oii.ox.ac.uk online-labour-index/ for details.
DOI: 10.5517/ccdc.csd.cc28bhmr
title: CCDC 2095464: Experimental Crystal Structure Determination

description: Related Article: Dalia I saleh, Dalal Alhashmialameer, Samy F. Mahmoud, Safaa Eldin H. Etaiw|2022|J.Mol.Struct.|1267|133597|doi:10.1016/j.molstruc.2022.133597
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bj4hj
title: CCDC 2160467: Experimental Crystal Structure Determination

description: Related Article: Qi-Yao Li, Mao-Fan Li, Xiao-Xian Chen, Ya-Ping Gong, De-Xuan Liu, Wei-Jian Xu, Wei-Xiong Zhang|2022|CrystEngComm|24|4864|doi:10.1039/D2CE00754A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.6824311
title: Data of Mitochondrial respirometric data of adult males of Octopus maya: supporting the method to evaluate heart metabolic activity

description: Mitochondrial respirometry is key to understanding how environmental factors model energetic cellular processes. Until now, no reports have shown temperature effects and other environmental variables on cephalopod mitochondria activity because of the lack of a method to evaluate mitochondrial respiratory parameters on those groups of species. In this sense and for the first time, it showed the mitochondrial respirometry data of adult Octopus maya’s heart. Following the protocol is illustrated a step-by-step procedure to get the corresponding respiratory parameters.
DOI: 10.5281/zenodo.6328578
title: Data of Mitochondrial respirometric data of adult males of Octopus maya: supporting the method to evaluate heart metabolic activity

description: Mitochondrial respirometry is key to understanding how environmental factors model energetic cellular processes. Until now, no reports have shown temperature effects and other environmental variables on cephalopod mitochondria activity because of the lack of a method to evaluate mitochondrial respiratory parameters on those groups of species. In this sense and for the first time, it showed the mitochondrial respirometry data of adult Octopus maya’s heart. Following the protocol is illustrated a step-by-step procedure to get the corresponding respiratory parameters.
DOI: 10.6084/m9.figshare.20294010
title: Dehalobacterium formicoaceticum strain EZ94 - GenoScreen PacBio+Illumina hybrid assembly with 16S rRNA genes

description: This is an initial draft genome assembly of Dehalobacterium formicoaceticum strain EZ94 - performed by GenoScreen using PacBio+Illumina sequencing and a hybrid assembly. It resulted in an assembly that included 16S rRNA genes, that were not found in the final assembly.
DOI: 10.6084/m9.figshare.20294010.v1
title: Dehalobacterium formicoaceticum strain EZ94 - GenoScreen PacBio+Illumina hybrid assembly with 16S rRNA genes

description: This is an initial draft genome assembly of Dehalobacterium formicoaceticum strain EZ94 - performed by GenoScreen using PacBio+Illumina sequencing and a hybrid assembly. It resulted in an assembly that included 16S rRNA genes, that were not found in the final assembly.
DOI: 10.25810/z71b-yh58
title: Electronic repository of raw computational chemistry results from the article "Spectroscopy of Retinoic Acid at the Air-Water Interface"

description: This repository contains the log files for conformer search and calculations of retinoic acid properties, including harmonic vibrational transitions and TD-DFT. The TD-DFT calculations are found only in the "wb97xd" folder. The conformer search results are in the subfolders of the "b3lyp" folder. The files denoted s00000#.log are directly the conformer search results (# denotes any number). The Conf#.log files are the calculations done on the geometries that were left after applying an energetic cutoff on the conformer search. 

Calculations that include two explicit water molecules have "2h2o" in their file name. Calculations with a PCM used, include "pcm" in the file name.

Some log files ended with an error. A second or third calculation was needed to properly converge the geometry optimizations in those cases, and have appended a number at the end of the file name to denote whether it was a second or third attempt to finish the calculation.

Calculations for the retinoic acid dimer are located in the "wb97xd/allt_dimer" folder and the files with "cp" in their filename include Counterpoise correction to the geometry optimization.
DOI: 10.5281/zenodo.6823140
title: MD simulation trajectory of SDPE/SDG/CHOL bilayer and related files

description: Simulation trajectory pre-equiblirated SDPE/SDG/CHOL bilayer and related files from all-atom molecular dynamics simulations. Simulations have been performed with GROMACS-2018.7 with Lipid17 forcefield and TIP3P water model. The trajectory is 0-1000 ns, and we have disregarded the first 100 ns in our analysis. The system in the trajectory consists of 74 SDPE, 12 SDG, 42 CHOL and 6400 water molecules. Temperature 310 K, pressure 1 bar. Publication: https://doi.org/10.1016/j.bbamem.2022.183961
DOI: 10.5281/zenodo.6823139
title: MD simulation trajectory of SDPE/SDG/CHOL bilayer and related files

description: Simulation trajectory pre-equiblirated SDPE/SDG/CHOL bilayer and related files from all-atom molecular dynamics simulations. Simulations have been performed with GROMACS-2018.7 with Lipid17 forcefield and TIP3P water model. The trajectory is 0-1000 ns, and we have disregarded the first 100 ns in our analysis. The system in the trajectory consists of 74 SDPE, 12 SDG, 42 CHOL and 6400 water molecules. Temperature 310 K, pressure 1 bar. Publication: https://doi.org/10.1016/j.bbamem.2022.183961
DOI: 10.5066/p963m863
title: Analytical and diagnostic validation of a molecular test to detect and discriminate IHNV genogroups U and M

description: Infectious hematopoietic necrosis virus (IHNV) is an acute pathogen of salmonids in North America, Europe and Asia that is phylogenetically classified into five major virus genogroups (U, M, L, E and J). The geographic range of the U and M genogroup isolates overlap in the North American Columbia River Basin and Washington Coast region, where these genogroups pose different risks depending on the species of Pacific salmon (Oncorhynchus spp.). For certain management decisions, there is a need to both test for IHNV presence and rapidly determine the genogroup. Herein, we report the development and validation of a U/M multiplex reverse transcription, real-time PCR (RT-rPCR) assay targeting the IHNV nucleocapsid (N) protein gene. The new U/M RT-rPCR is a rapid, sensitive, and repeatable assay capable of specifically discriminating between North American U and M genogroup IHNV isolates. However, one M genogroup isolate obtained from commercially cultured Idaho rainbow trout (O. mykiss) showed reduced sensitivity with the RT-rPCR test, suggesting caution may be warranted before applying RT-rPCR as the sole surveillance test in areas associated with the Idaho trout industry. The new U/M assay had high diagnostic sensitivity (DSe greater than 94%) and specificity (DSp greater than 97%) in free-ranging adult Pacific salmon, when assessed relative to cell culture (reference standard) and the previously validated universal N RT-rPCR. The good diagnostic performance of the new U/M assay indicates the new test is suitable for surveillance, diagnosis, and confirmation of IHNV in Pacific salmon from the Pacific Northwest regions where the U and M genogroups overlap.
DOI: 10.5066/p9oqlk18
title: Digital photographs using a remotely piloted unoccupied aerial system and derived point clouds for bluffs in St. Joseph, MI, July 8, 2019 and July 13, 2021

description: Images were collected using a remotely piloted unoccupied aerial system (UAS) over the bluffs of the eastern shore of Lake Michigan in St. Joseph rural residential area, Berrien County, MI. Images were collected in two separate surveys conducted on July 8, 2019, and July 13, 2021, using a DJI Phantom 3 and 4 PRO commercial UAS respectively operated by the University of Toledo. The images cover an extent between the intersection of Lakeshore Dr. with Lakeshore Road to the north, and South Lakeshore Dr. to the south. The purpose of the survey was to monitor active bluff erosion in the area. The images are presented here in zipped files grouped by type of collection, nadir and oblique. The images were collected in JPG format and include [...]
DOI: 10.5281/zenodo.6824293
title: Code and Data associated with "Discovery of positive and purifying selection in metagenomic time series of hypermutator microbial populations"

description: Code and data sufficient to reproduce analyses in "Discovery of positive and purifying selection in metagenomic time series of hypermutator microbial populations".
DOI: 10.5281/zenodo.4783367
title: Code and Data associated with "Discovery of positive and purifying selection in metagenomic time series of hypermutator microbial populations"

description: Code and data sufficient to reproduce analyses in "Discovery of positive and purifying selection in metagenomic time series of hypermutator microbial populations".
DOI: 10.6084/m9.figshare.20294124
title: GSA Advisors' Experiences

description: Study examining gender and sexuality alliance advisors' experiences and training in their role
DOI: 10.6084/m9.figshare.20294124.v1
title: GSA Advisors' Experiences

description: Study examining gender and sexuality alliance advisors' experiences and training in their role
DOI: 10.5517/ccdc.csd.cc2bxyfn
title: CCDC 2172772: Experimental Crystal Structure Determination

description: Related Article: Lata Panicker|2022|J.Mol.Struct.|1267|133631|doi:10.1016/j.molstruc.2022.133631
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.6794924
title: Acoustic models of Brazilian Portuguese Speech based on Neural Transformers - Pretraining Datasets raw audios from CORAA

description: This repository contains all the pretraining datasets used in the paper: Acoustic models of Brazilian Portuguese Speech based on Neural Transformers by Marcelo Gauy and Marcelo Finger. These datasets are part of a collection of datasets from the TaRSila project (see https://sites.google.com/view/tarsila-c4ai). The audios published here were in part also published with annotations and transcriptions as the CORAA dataset (see https://github.com/nilc-nlp/CORAA). Here we publish the original raw audios from the following datasets (without transcriptions) - ALIP, C-Oral, SP2010, NURC-Recife, NURC-São Paulo and Programa Certas Palavras. In total, the datasets contain about 800 hours of Brazilian Portuguese Speech. The audios have been converted to mp3 to facilitate the upload. ALIP, C-Oral and SP2010 are integrally contained in one file each. Programa Certas Palavras and NURC-Recife are split in 3 parts each, while NURC-SP is split in 7 parts of roughly equal size. More information on the datasets can be found in the paper Acoustic models of Brazilian Portuguese Speech based on Neural Transformers as well as on the original references which created these datasets.
description: {"references": ["Acoustic models of Brazilian Portuguese Speech based on Neural Transformers - Gauy, Marcelo e Finger, Marcelo 2022", "MENDES, R.B. (2013) Projeto SP2010: Amostra da fala paulistana. Dispon\u00edvel em .", "Gon\u00e7alves, S. C. L. Projeto ALIP (Amostra Lingu\u00edstica do Interior Paulista) e banco de dados Iboruna: 10 anos de contribui\u00e7\u00e3o com a descri\u00e7\u00e3o do portugu\u00eas brasileiro. ESTUDOS LINGU\u00cdSTICOS (S\u00c3O PAULO. 1978), v. 48, p. 276-297, 2019.", "RASO, T. ; MELLO, H. . The C-ORAL-BRASIL I: Reference Corpus for Informal Spoken Brazilian Portugues. Lecture Notes on Artificial Intelligence, v. 7243, p. 362-368, 2012.", "Oliviera Jr., M. (2016). NURC Digital Um protocolo para a digitaliza\u00e7\u00e3o, anota\u00e7\u00e3o, arquivamento e dissemina\u00e7\u00e3o do material do Projeto da Norma Urbana Lingu\u00edstica Culta (NURC). CHIMERA: Revista De Corpus De Lenguas Romances Y Estudios Ling\u00fc\u00edsticos, 3(2), 149\u2013174. Recuperado a partir de https://revistas.uam.es/chimera/article/view/6519.", "A linguagem falada culta na cidade de S\u00e3o Paulo: materiais para seu estudo - Castilho, Ataliba Teixeira de e Pretti, Dino 1986", "Acervo Certas Palavras- Cat\\'{a}logo 1981-1996 - Teixeira, Carmem Silva P. 1997"]}
DOI: 10.5281/zenodo.6794923
title: Acoustic models of Brazilian Portuguese Speech based on Neural Transformers - Pretraining Datasets raw audios from CORAA

description: This repository contains all the pretraining datasets used in the paper: Acoustic models of Brazilian Portuguese Speech based on Neural Transformers by Marcelo Gauy and Marcelo Finger. These datasets are part of a collection of datasets from the TaRSila project (see https://sites.google.com/view/tarsila-c4ai). The audios published here were in part also published with annotations and transcriptions as the CORAA dataset (see https://github.com/nilc-nlp/CORAA). Here we publish the original raw audios from the following datasets (without transcriptions) - ALIP, C-Oral, SP2010, NURC-Recife, NURC-São Paulo and Programa Certas Palavras. In total, the datasets contain about 800 hours of Brazilian Portuguese Speech. The audios have been converted to mp3 to facilitate the upload. ALIP, C-Oral and SP2010 are integrally contained in one file each. Programa Certas Palavras and NURC-Recife are split in 3 parts each, while NURC-SP is split in 7 parts of roughly equal size. More information on the datasets can be found in the paper Acoustic models of Brazilian Portuguese Speech based on Neural Transformers as well as on the original references which created these datasets.
description: {"references": ["Acoustic models of Brazilian Portuguese Speech based on Neural Transformers - Gauy, Marcelo e Finger, Marcelo 2022", "MENDES, R.B. (2013) Projeto SP2010: Amostra da fala paulistana. Dispon\u00edvel em .", "Gon\u00e7alves, S. C. L. Projeto ALIP (Amostra Lingu\u00edstica do Interior Paulista) e banco de dados Iboruna: 10 anos de contribui\u00e7\u00e3o com a descri\u00e7\u00e3o do portugu\u00eas brasileiro. ESTUDOS LINGU\u00cdSTICOS (S\u00c3O PAULO. 1978), v. 48, p. 276-297, 2019.", "RASO, T. ; MELLO, H. . The C-ORAL-BRASIL I: Reference Corpus for Informal Spoken Brazilian Portugues. Lecture Notes on Artificial Intelligence, v. 7243, p. 362-368, 2012.", "Oliviera Jr., M. (2016). NURC Digital Um protocolo para a digitaliza\u00e7\u00e3o, anota\u00e7\u00e3o, arquivamento e dissemina\u00e7\u00e3o do material do Projeto da Norma Urbana Lingu\u00edstica Culta (NURC). CHIMERA: Revista De Corpus De Lenguas Romances Y Estudios Ling\u00fc\u00edsticos, 3(2), 149\u2013174. Recuperado a partir de https://revistas.uam.es/chimera/article/view/6519.", "A linguagem falada culta na cidade de S\u00e3o Paulo: materiais para seu estudo - Castilho, Ataliba Teixeira de e Pretti, Dino 1986", "Acervo Certas Palavras- Cat\\'{a}logo 1981-1996 - Teixeira, Carmem Silva P. 1997"]}
DOI: 10.34740/kaggle/dsv/3935458
title: US counties COVID 19 dataset
DOI: 10.5066/p99zfsn7
title: Wolf noninvasive methods trial from 2019-2021 in the Superior National Forest metadata

description: This dataset contains gray wolf (Canis lupus) study area section counts of pack wolves by method (observing radiocollared wolves and their packmates via aerial telemetry and also noninvasive methods including ground snow tracking, aerial snow tracking, camera trapping, community scientist reports) from a three winter noninvasive methods trial during 2019-2021 in the USGS Wolf Project study area (2,060 square kilometers) of the Superior National Forest, USA, an area that also includes the Boundary Waters Canoe Area Wilderness. Also, included are the total section counts by year during the three winter noninvasive trial and also the prior winter (2018) before the noninvasive trial. Also, included are the annual counts since the study [...]
DOI: 10.48527/yd1rt3/rui6xp
title: Mapa Sonoro Desportos_Tenis_Futebol_Skate_Parque dos Amores.jpg

description: Mapa do percurso sonoro no Parque dos Amores com os eventos registados em destaque. Ponto de partida GPS coordenadas 40°38'05.3"N 8°39'06.3"W. A linha gradiente representa o caminho virtual. A linha pontilhada representa saltos espaço-temporais
DOI: 10.48527/yd1rt3/tlmqrt
title: Desportos_Tenis_Futebol_Skate_Parque dos Amores.mp3

description: :unav
DOI: 10.48527/yd1rt3
title: Desporto no Parque dos Amores

description: Representação das paisagens sonoras captadas no Parque dos Amores em Aveiro. É editado com base em diferentes registos sonoros da prática de ténis, futebol e skate feitos por Antoine Curinier.
DOI: 10.5281/zenodo.6824342
title: Doodleverse/Segmentation Zoo Res-UNet models for identifying water in Sentinel-2 MNDWI images of coasts.

description: <strong>Doodleverse/Segmentation Zoo Res-UNet models for identifying water in Sentinel-2 MNDWI images of coasts.</strong> <strong>Based on SWED*** data</strong> https://openmldata.ukho.gov.uk/ These Residual-UNet model data are based on images of coasts and associated labels. Models have been fitted to the following types of data 1. MNDWI (1 band): mndwi MNDWI = (Green - SWIR) / (Green + SWIR)<br> Green = pixel values from the green band<br> SWIR = pixel values from the short-wave infrared band Reference: Xu, H. "Modification of Normalised Difference Water Index (NDWI) to Enhance Open Water Features in Remotely Sensed Imagery." International Journal of Remote Sensing 27, No. 14 (2006): 3025-3033." (ESRI, 2018) Classes are: {0: null, 1: water}. These files are used in conjunction with Segmentation Zoo* For each model, there are 3 files with the same root name: 1. <strong>'.json' </strong>config file: this is the file that was used by Segmentation Gym** to create the weights file. It contains instructions for how to make the model and the data it used, as well as instructions for how to use the model for prediction. It is a handy wee thing and mastering it means mastering the entire Doodleverse. 2.<strong> '.h5'</strong> weights file: this is the file that was created by the Segmentation Gym** function `train_model.py`. It contains the trained model's parameter weights. It can called by the Segmentation Gym** function `seg_images_in_folder.py` or the Segmentation Zoo* function `select_model_and_batch_process_folder.py` to segment a folder of images 3.<strong> '_modelcard.json'</strong> model card file: this is a json file containing fields that collectively describe the model origins, training choices, and dataset that the model is based upon. There is some redundancy between this file and the `config` file (described above) that contains the instructions for the model training and implementation. The model card file is not used by the program but is important metadata so it is important to keep with the other files that collectively make the model and is such is considered part of the model References * https://github.com/Doodleverse/segmentation_zoo ** https://github.com/Doodleverse/segmentation_gym *** https://www.sciencedirect.com/science/article/abs/pii/S0034425722001584