cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7878963
title: desmognathus_ocoee_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7878962
title: desmognathus_ocoee_zanfona_1.fasta.gz

description: .
DOI: 10.6084/m9.figshare.22722343
title: matrisome expression matrix

description: Our current study will provide a low-cost, simple, reliable and effective pipeline for tissue insoluble matrisome analysis in the quest to comprehend ECM discovery proteomic studies.
DOI: 10.5517/ccdc.csd.cc2ffqtf
title: CCDC 2247525: Experimental Crystal Structure Determination

description: Related Article: Kazuki Ikeda, Riku Kojima, Kentaro Kawai, Takayasu Murakami, Takashi Kikuchi, Masahiro Kojima, Tatsuhiko Yoshino, Shigeki Matsunaga|2023|J.Am.Chem.Soc.|145|9326|doi:10.1021/jacs.3c02556
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.cc2ffqvg
title: CCDC 2247526: Experimental Crystal Structure Determination

description: Related Article: Kazuki Ikeda, Riku Kojima, Kentaro Kawai, Takayasu Murakami, Takashi Kikuchi, Masahiro Kojima, Tatsuhiko Yoshino, Shigeki Matsunaga|2023|J.Am.Chem.Soc.|145|9326|doi:10.1021/jacs.3c02556
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.cc2ffqwh
title: CCDC 2247527: Experimental Crystal Structure Determination

description: Related Article: Kazuki Ikeda, Riku Kojima, Kentaro Kawai, Takayasu Murakami, Takashi Kikuchi, Masahiro Kojima, Tatsuhiko Yoshino, Shigeki Matsunaga|2023|J.Am.Chem.Soc.|145|9326|doi:10.1021/jacs.3c02556
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: 10.6084/m9.figshare.22722349
title: weka_cereinae_diver_sp.for_figshare.xlsx Supplementary data for PhD thesis - Chapter 3 - diversification analysis using machine learning

description: The present dataset relates to machine learning analysis aiming to predict diversification rates and abiotic and biotic traits of South American cactus group (subtribe Cereinae).
DOI: 10.6084/m9.figshare.22722349.v1
title: weka_cereinae_diver_sp.for_figshare.xlsx Supplementary data for PhD thesis - Chapter 3 - diversification analysis using machine learning

description: The present dataset relates to machine learning analysis aiming to predict diversification rates and abiotic and biotic traits of South American cactus group (subtribe Cereinae).
DOI: 10.5281/zenodo.7878983
title: desmognathus_organi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7878982
title: desmognathus_organi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7878999
title: desmognathus_fuscus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7878998
title: desmognathus_fuscus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7879008
title: desmognathus_pascagoula_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7879007
title: desmognathus_pascagoula_zanfona_1.fasta.gz

description: .
DOI: 10.48366/r585596
title: Comparison on Reasoning

description: A comparison about Reasoning and logic
DOI: 10.5281/zenodo.7879012
title: desmognathus_valentinei_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7879011
title: desmognathus_valentinei_zanfona_1.fasta.gz

description: .
DOI: 10.34740/kaggle/dsv/5558321
title: Nigerian Presidential Election 2023 Tweets
DOI: 10.5281/zenodo.7877934
title: De Novo KOR Antagonists Datasets

description: Datasets used as input, generated or analyzed in the manuscript <strong>De Novo Design of </strong><strong>κ</strong><strong>-Opioid Receptor Antagonists Using a Generative Deep Learning Framework</strong>: 1. Pre-training Dataset #1 (4.6 million compounds from ZINC 20): zinc20_train.csv (494 MB)<br> 2. Pre-training test set (0.5 million compounds from ZINC 20): zinc20_test.csv (55 MB)<br> 3. Pre-training test scaffolds set (0.5 million compounds from ZINC 20): zinc20_test_scaffolds.csv (57 MB)<br> 4. Pre-training Dataset #2 (2,056 compounds from ChEMBL with IC50 data): chembl30_kor_inhibitors.csv (144 KB)<br> 5. 169 compounds prioritized for chemical synthesis on the basis of their similarity to JDTic's interactions with KOR: prioritized_169candidates_from1M_by_SIFt_Tc.csv (17 KB)<br> <br> All datasets are in Simplified Molecular Input Line Entry System (SMILES) format.
DOI: 10.5281/zenodo.7877933
title: De Novo KOR Antagonists Datasets

description: Datasets used as input, generated or analyzed in the manuscript <strong>De Novo Design of </strong><strong>κ</strong><strong>-Opioid Receptor Antagonists Using a Generative Deep Learning Framework</strong>: 1. Pre-training Dataset #1 (4.6 million compounds from ZINC 20): zinc20_train.csv (494 MB)<br> 2. Pre-training test set (0.5 million compounds from ZINC 20): zinc20_test.csv (55 MB)<br> 3. Pre-training test scaffolds set (0.5 million compounds from ZINC 20): zinc20_test_scaffolds.csv (57 MB)<br> 4. Pre-training Dataset #2 (2,056 compounds from ChEMBL with IC50 data): chembl30_kor_inhibitors.csv (144 KB)<br> 5. 169 compounds prioritized for chemical synthesis on the basis of their similarity to JDTic's interactions with KOR: prioritized_169candidates_from1M_by_SIFt_Tc.csv (17 KB)<br> <br> All datasets are in Simplified Molecular Input Line Entry System (SMILES) format.
DOI: 10.6084/m9.figshare.22722379
title: Source data for EvoPlay Fig2-5 and Supplementary data file1-3

description: 1. Source data for EvoPlay Fig2-5 Manuscript: “Self-play reinforcement learning turbocharges protein engineering“ <br> 2. Supplementary_data_file.zip This file contains supplementary data files mentioned in the manuscript, including supplementary data file 1, supplementary data file 2, and supplementary data file 3.
DOI: 10.6084/m9.figshare.22722379.v1
title: Source data for EvoPlay Fig2-5 and Supplementary data file1-3

description: 1. Source data for EvoPlay Fig2-5 Manuscript: “Self-play reinforcement learning turbocharges protein engineering“ <br> 2. Supplementary_data_file.zip This file contains supplementary data files mentioned in the manuscript, including supplementary data file 1, supplementary data file 2, and supplementary data file 3.
DOI: 10.6084/m9.figshare.21767369.v1
title: EvoZero_SM_data_for_github

description: GB1_PhoQ_data and Oracle_wegiht
DOI: 10.34740/kaggle/dsv/5558361
title: Mahanagar Yatayat Dataset
DOI: 10.6084/m9.figshare.19586500
title: Replication Package for "A Comprehensive Evaluation of SZZ Variants Through a Developer-informed Oracle"

description: This is the replication package for "A Comprehensive Evaluation of SZZ Variants Through a Developer-informed Oracle" Abstract: "Automatically linking bug-fixing changes to bug-inducing ones (BICs) is one of the key data-extraction steps behind several empirical studies in software engineering. The SZZ algorithm is the de facto standard to achieve this goal, with several improvements proposed over time. Evaluating the performance of SZZ implementations is, however, far from trivial. In previous works, researchers (i) manually assessed whether the BICs identified by the SZZ implementation were correct or not, or (ii) defined oracles in which they manually determined BICs from bug-fixing commits. However, ideally, the original developers should be involved in defining a labeled dataset to evaluate SZZ implementations. We propose a methodology to define a “developer-informed” oracle for evaluating SZZ implementations, without requiring a manual inspection from the original developers. We use Natural Language Processing (NLP) to identify bug-fixing commits in which developers explicitly reference the commit(s) that introduced the fixed bug. We use the built oracle to extensively evaluate existing SZZ variants defined in the literature. We also introduce and evaluate two new variants aimed at addressing two weaknesses we observed in state-of-the-art implementations (i.e., processing added lines and handling of revert commits)"
DOI: 10.6084/m9.figshare.22647940.v1
title: GB1&PhoQ predicted results and GFP&PAB1 training data

description: 1. GB1_PhoQ_data.zip DOI link the top 384 mutants of generated results and the predicted results of 160000 mutants in 500 repeats on GB1 and PhoQ tasks. <br> 2. GFP_PAB1_training_data.zip This is the training data of EvoPlay in GFP and PAB1 tasks.
DOI: 10.6084/m9.figshare.22722424
title: "Small, fat-filled lipid droplets are sufficiently rigid to indent a nucleus, dilute the lamina, and cause rupture"

description: This is the raw data underlying the Ivanovska, Tobin, et al. paper: "Small, fat-filled lipid droplets are sufficiently rigid to indent a nucleus, dilute the lamina, and cause rupture"
DOI: 10.6084/m9.figshare.22722424.v1
title: "Small, fat-filled lipid droplets are sufficiently rigid to indent a nucleus, dilute the lamina, and cause rupture"

description: This is the raw data underlying the Ivanovska, Tobin, et al. paper: "Small, fat-filled lipid droplets are sufficiently rigid to indent a nucleus, dilute the lamina, and cause rupture"
DOI: 10.6084/m9.figshare.22722514
title: Hurghada TMY data.csv

description: The dataset includes Typical Meteorological Year (TMY) data of Hurghada, Egypt. It includes hourly averaged data of GHI, Dry bulb temperature, Relative humidity, Wind speed, Sky temperature, Dew point temperature. The data source is from EnergyPlus website.
DOI: 10.5281/zenodo.7879205
title: Cantwell basin supplementary data

description: Detrital zircon sample data and locations from the Cantwell basin, Denali National Park and Preserve, Alaska
DOI: 10.5281/zenodo.7879204
title: Cantwell basin supplementary data

description: Detrital zircon sample data and locations from the Cantwell basin, Denali National Park and Preserve, Alaska
DOI: 10.5519/qd.gfcnsq6i
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.5281/zenodo.7877981
title: Generated sequences and fitness data for ProGen2

description: Sequences generated from pretrained and fine-tuned ProGen2 models. Fitness benchmark data for evaluation of ProGen2 models.
DOI: 10.5281/zenodo.7877980
title: Generated sequences and fitness data for ProGen2

description: Sequences generated from pretrained and fine-tuned ProGen2 models. Fitness benchmark data for evaluation of ProGen2 models.
DOI: 10.25345/c5vm4371v
title: MassIVE MSV000091823 - GuohaoWang_WeiLu_12LFQ_HumanBrain_AUDvsCtrl
title: Mass spectrometry-based label-free quantitation analysis to identify the different expressed membrane proteins in AUD and Control samples
DOI: 10.3886/e118861v1-137560
title: Special Education Teachers in California

description: The shortage of special education teachers (SETs) is a challenge in the United States, but less is known about two other issues that affect students with disabilities: racial diversity within the SET workforce and the distribution of SETs. Using data on all teachers in California from 1997 to 2014, we examined the racial composition and distribution of teachers with special education credentials. Our results show that while teachers with special education credentials remain majority White, the number of teachers of color with special education credentials has increased at a rate more than twice that of general education teachers and special education students of color. Much of the distribution of teachers with special education credentials occurs across districts within the same region, while disparities in teacher qualifications are larger by school poverty, racial composition, and student achievement. The results have implications for diversity and educational equity within the special education workforce.
DOI: 10.6084/m9.figshare.22722610
title: ITS amplicon sequences (Sequence Read Archive submission template)

description: Our dataset gathers data collected from a time-course experiment, with four treatments: 1) control trees; 2) trees infected with <em>P. cinnamomi</em>; 3) trees inoculated with the BCA; 4) trees infected with <em>P. cinnamomi </em>and inoculated with the BCA. During the infection process, we measured plant morphological and physiological variables and collected rhizosphere soil samples for bacterial and fungal amplicon sequencing, bacterial RNA-seq and metabolomic analyses.
DOI: 10.6084/m9.figshare.22722610.v1
title: ITS amplicon sequences (Sequence Read Archive submission template)

description: Our dataset gathers data collected from a time-course experiment, with four treatments: 1) control trees; 2) trees infected with <em>P. cinnamomi</em>; 3) trees inoculated with the BCA; 4) trees infected with <em>P. cinnamomi </em>and inoculated with the BCA. During the infection process, we measured plant morphological and physiological variables and collected rhizosphere soil samples for bacterial and fungal amplicon sequencing, bacterial RNA-seq and metabolomic analyses.
DOI: 10.34740/kaggle/dsv/5559806
title: Balochi Language to English Translation Dataset
DOI: 10.6084/m9.figshare.21171076
title: Back angles of the unridden horse on the circle in walk, trot and canter

description: Description of the data is found in the excel file. One of the code output is an earlier version- but factual changes are few.
DOI: 10.6084/m9.figshare.21171076.v1
title: Back angles of the unridden horse on the circle in walk, trot and canter

description: Description of the data is found in the excel file. One of the code output is an earlier version- but factual changes are few.
DOI: 10.6084/m9.figshare.22191400.v3
title: FenFit CT Segmentations and Tabular Data

description: Raw de-identified patient geometry files used in FenFit paper
DOI: 10.5281/zenodo.7879353
title: IDSL.CSA spectra of authentic standards from MTBLS1040 study

description: IDSL.CSA spectra of authentic standards from MTBLS1040 study. These standards were analyzed at seven concentrations. The results show that only at very low level, CSA spectra lack the minimum ions (2) for authentic standards.
DOI: 10.5281/zenodo.7879352
title: IDSL.CSA spectra of authentic standards from MTBLS1040 study

description: IDSL.CSA spectra of authentic standards from MTBLS1040 study. These standards were analyzed at seven concentrations. The results show that only at very low level, CSA spectra lack the minimum ions (2) for authentic standards.
DOI: 10.6084/m9.figshare.22722616
title: Genome-wide insights into intraspecific taxonomy and genetic diversity of argali (Ovis ammon)

description: The genotyping data (in PLINK format) of argali (Ovis ammon) and urial (Ovis vignei) (Illumina OvineHD) supporting the results of the study "Genome-wide insights into intraspecific taxonomy and genetic diversity of argali (Ovis ammon)" by Dotsev et al. (2023)
DOI: 10.34740/kaggle/dsv/5559965
title: #ChatGPT 1000 Daily 🐦 Tweets
DOI: 10.6084/m9.figshare.22722655
title: Supplemental Tables

description: <strong>Abstract</strong> High-density lipoprotein cholesterol (HDL-C) has pleiotropic effects in immunoregulation. We study HDL-C levels in patients who visit the emergency room (ER) with infections and meet the criteria for the European Society for Immunodeficiencies (ESID). During the study period, 1600100 patients applied to the ER, and 4406 patients were identified who met the ESID criteria. There were 631 patients with HDL-C levels, and 54.3% had low HDL-C levels. Patients with low HDL-C have higher inflammation compared to patients with normal HDL-C. The low HDL-C group more frequently required hospitalization than the normal HDL-C group (Y.4 vs. @.6, p=0.007). Age, HDL-C, Hgb, LDH, CRP, and ferritin were associated with hospital admission (p&lt;0.05 for all). HDL-C levels are associated with the need and duration of hospitalization in patients with ESID criteria. Patients with ID and low HDL-C are at increased risk for frequent ER visits and hospitalizations. HDL-C affects patient outcomes and healthcare utilization associated with ID traits.
DOI: 10.6084/m9.figshare.22722655.v1
title: Supplemental Tables

description: <strong>Abstract</strong> High-density lipoprotein cholesterol (HDL-C) has pleiotropic effects in immunoregulation. We study HDL-C levels in patients who visit the emergency room (ER) with infections and meet the criteria for the European Society for Immunodeficiencies (ESID). During the study period, 1600100 patients applied to the ER, and 4406 patients were identified who met the ESID criteria. There were 631 patients with HDL-C levels, and 54.3% had low HDL-C levels. Patients with low HDL-C have higher inflammation compared to patients with normal HDL-C. The low HDL-C group more frequently required hospitalization than the normal HDL-C group (Y.4 vs. @.6, p=0.007). Age, HDL-C, Hgb, LDH, CRP, and ferritin were associated with hospital admission (p&lt;0.05 for all). HDL-C levels are associated with the need and duration of hospitalization in patients with ESID criteria. Patients with ID and low HDL-C are at increased risk for frequent ER visits and hospitalizations. HDL-C affects patient outcomes and healthcare utilization associated with ID traits.
DOI: 10.6084/m9.figshare.22722658
title: Data from: Declines in canopy greenness and tree growth are caused by combined climate extremes during drought-induced dieback

description: Several dieback episodes triggered by droughts are revealing the high vulnerability of Mediterranean forests, manifested as declines in growth, increased defoliation, and rising mortality rates. Understanding forest responses to such climate extreme events is of high priority for predicting their future vegetation dynamics. We examined how remotely sensed measures of vegetation activity (NDVI, Normalized Difference Vegetation Index) and radial growth (BAI, basal area increment) responded to climate extreme events. We considered tree (Pinus sylvestris, Quercus pubescens, Quercus frainetto) and shrub (Juniperus phoenicea) populations from Italy and Spain showing recent dieback phenomena.Two components of drought, namely elevated atmospheric demand (VPD, vapor pressure deficit) and low soil moisture were analyzed in nearby stands showing or not showing dieback symptoms. Dieback stands exhibited lower NDVI values than non-dieback stands. NDVI and BAI were positively related in all sites except for the dieback stand of Q. frainetto that was negatively related. Such NDVI-BAI linkages were related to specific time windows, which could be useful for identifying when climatic conditions have the greatest influence on vegetation. Growth decline occurred in response to increasing VPD, but responses differed among species. J. phoenicea was the most negatively impacted by higher VPD, whereas oaks responded to soil moisture. A high VPD was related to stronger growth reduction in dieback P. sylvestris trees regardless of soil moisture changes. We highlighted that coupling between proxies of forest productivity (NDVI, BAI) allows better understanding and forecasting of drought-induced dieback phenomena in forests and shrublands. Scaling up from tree to stand levels might be feasible when using the maximum growing season NDVI, which can be applied for retrospective modeling of the impact of drought stress on forest productivity and tree growth.
DOI: 10.6084/m9.figshare.22722658.v1
title: Data from: Declines in canopy greenness and tree growth are caused by combined climate extremes during drought-induced dieback

description: Several dieback episodes triggered by droughts are revealing the high vulnerability of Mediterranean forests, manifested as declines in growth, increased defoliation, and rising mortality rates. Understanding forest responses to such climate extreme events is of high priority for predicting their future vegetation dynamics. We examined how remotely sensed measures of vegetation activity (NDVI, Normalized Difference Vegetation Index) and radial growth (BAI, basal area increment) responded to climate extreme events. We considered tree (Pinus sylvestris, Quercus pubescens, Quercus frainetto) and shrub (Juniperus phoenicea) populations from Italy and Spain showing recent dieback phenomena.Two components of drought, namely elevated atmospheric demand (VPD, vapor pressure deficit) and low soil moisture were analyzed in nearby stands showing or not showing dieback symptoms. Dieback stands exhibited lower NDVI values than non-dieback stands. NDVI and BAI were positively related in all sites except for the dieback stand of Q. frainetto that was negatively related. Such NDVI-BAI linkages were related to specific time windows, which could be useful for identifying when climatic conditions have the greatest influence on vegetation. Growth decline occurred in response to increasing VPD, but responses differed among species. J. phoenicea was the most negatively impacted by higher VPD, whereas oaks responded to soil moisture. A high VPD was related to stronger growth reduction in dieback P. sylvestris trees regardless of soil moisture changes. We highlighted that coupling between proxies of forest productivity (NDVI, BAI) allows better understanding and forecasting of drought-induced dieback phenomena in forests and shrublands. Scaling up from tree to stand levels might be feasible when using the maximum growing season NDVI, which can be applied for retrospective modeling of the impact of drought stress on forest productivity and tree growth.
DOI: 10.6084/m9.figshare.3761562.v2571
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: 10.5519/qd.374lxxxr
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (96 records)