cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25505/fiz.icsd.cc29ds1k
title: CSD 2127438: Experimental Crystal Structure Determination

description: Related Article: Zhikang Chen, Kewang Zhang, Zijian Li, Fangfang Zhang, Zhihua Yang, Shilie Pan|2022|Inorg.Chem.|61|2713|doi:10.1021/acs.inorgchem.1c03772
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25505/fiz.icsd.cc2c81b1
title: CSD 2182472: Experimental Crystal Structure Determination

description: Related Article: Linnera, Jarno, Karttunen, Antti J.|2019|Phys.Rev.B,Condens.Mat.|100|144307|
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.14457/nida.the.2018.93
title: การใช้เหมืองข้อมูล (Data Mining) ในการวิเคราะห์และสร้างตัวแบบความสัมพันธ์ระหว่างคุณภาพสังคมและความสุขของประชาชนในจังหวัดจันทบุรี
DOI: 10.14457/nida.the.2016.159
title: ปัจจัยส่วนประสมทางการตลาดที่มีผลต่อการตัดสินใจซื้อน้ำดื่มบรรจุขวดของผู้บริโภคในเขตกรุงเทพมหานคร
DOI: 10.14457/nida.the.2012.48
title: ปัจจัยที่มีความสัมพันธ์กับความครอบคลุมทางสังคม (Social Inclusion) ของประชาชนในเขตกรุงเทพมหานคร
DOI: 10.14457/nida.the.2010.100
title: ปัจจัยที่มีความสัมพันธ์กับการตัดสินใจเลือกซื้อผลิตภัณฑ์ฉลากลดคาร์บอน กรณีศึกษานักศึกษาปริญญาโท สถาบันบัณฑิตพัฒนบริหารศาสตร์
DOI: 10.14457/nida.the.2010.101
title: ปัจจัยที่มีผลต่อการตัดสินใจเข้าร่วมโครงการส่งเสริมการแสดงความรับผิดชอบของผู้ประกอบการอุตสาหกรรมต่อสังคม (CSR-DIW)
DOI: 10.14457/nida.the.2010.102
title: ปัจจัยและกลยุทธ์การขอขึ้นทะเบียนฉลากลดคาร์บอนในประเทศไทย
DOI: 10.6084/m9.figshare.20722891.v3
title: Untrackable distal ejecta on planetary surfaces

description: These are <strong>slope</strong> and <strong>MMI</strong> image zips, <strong>Metadata(</strong><em>shape</em> files and <em>modeling</em> resultant files (<em>landing positions</em>) which corresponding to each figure), and one modeling code example.
DOI: 10.34740/kaggle/dsv/4771378
title: OntoUML/UFO Catalog
DOI: 10.6084/m9.figshare.21779609
title: Bottom-up and top-down controls on Alteromonas macleodii lead to different dissolved organic matter compositions

description: Bottom-up (e.g. substrate) and top-down (e.g. viral lysis) controls affect the abundance and diversity of marine bacterial communities. However, the effects of bottom-up and top-down controls on the molecular composition of dissolved organic matter (DOM) have not been evaluated in parallel. In this study, we investigated the DOM composition of the model bacterium <em>Alteromonas macleodii</em> ATCC 27126 growing on different substrates (glucose, laminarin, extracts from a <em>Synechococcus</em> culture, oligotrophic seawater and eutrophic seawater). We also characterized the DOM when <em>A. macleodii</em> was exposed to a lytic phage. The ultra-high resolution mass spectrometry showed that when growing on different substrates <em>A. macleodii </em>prefer to use reduced, saturated organic molecules (i.e. nitrogen-containing molecules (O4 formular species)) and released or preserved oxidized, unsaturated molecules (i.e. sulfur-containing formulas (O6 formular species)). When infected with the lytic phage, <em>A. macleodii</em> produced organic molecules with higher hydrogen saturation, and more nitrogen- or sulfur-containing molecules (N2O, N3O and NOS formular species). Our results provide molecular evidence that bottom-up (i.e. varying substrates) and top-down (i.e. viral lysis) controls leave different molecular fingerprints in the produced organic matter, which lead to different biogeochemical impacts in the ocean.
DOI: 10.5281/zenodo.7482720
title: On Learning Meaningful Code Changes via Neural Machine Translation

description: Paper: On Learning Meaningful Code Changes via Neural Machine Translation Authors: Michele Tufano, Jevgenija Pantiuchina, Cody Watson, Gabriele Bavota, and Denys Poshyvanyk ICSE 2019 - 41st ACM/IEEE International Conference on Software Engineering, May 25-31, 2019, Montréal, QC, Canada
DOI: 10.5281/zenodo.7482719
title: On Learning Meaningful Code Changes via Neural Machine Translation

description: Paper: On Learning Meaningful Code Changes via Neural Machine Translation Authors: Michele Tufano, Jevgenija Pantiuchina, Cody Watson, Gabriele Bavota, and Denys Poshyvanyk ICSE 2019 - 41st ACM/IEEE International Conference on Software Engineering, May 25-31, 2019, Montréal, QC, Canada
DOI: 10.57833/cidacs/0eopou
title: Pesquisa Pulso Empresa: Impacto da Covid-19 nas Empresas

description: Conjunto de dados que representa os resultados da Pesquisa Pulso Empresa realizada pelo Instituto Brasileiro de Geografia e Estatística (IBGE) em 2020. Esta pesquisa objetivou estimar os impactos da pandemia da Covid-19 na economia brasileira, tendo como unidade de investigação as empresas não financeiras representativas das atividades de Indústria, Construção, Comércio e Serviços. A coleta dos dados foi realizada quinzenalmente (6 quinzenas - início na 1ª quinzena de junho e término na 2ª quinzena de agosto) por meio de entrevista telefônica assistida por computador em todo território nacional. Sua abrangência geográfica é nacional, com resultados divulgados para Brasil e Grandes Regiões, por atividades econômicas (Indústria, Construção, Comércio e Serviços), segundo faixas de porte de empresas: até 49 pessoas ocupadas; de 50 a 499 pessoas ocupadas; e 500 ou mais pessoas ocupadas.
DOI: 10.6084/m9.figshare.16989109.v2
title: Data & code

description: Data
DOI: 10.34740/kaggle/dsv/4771458
title: 💥📰 Daily Breaking News Twitter Dataset
DOI: 10.6084/m9.figshare.21358005
title: Data and Code.rar

description: Processing and analysis of bus data in Huangdao District, Qingdao in 2018 to optimise the departure schedule. The aim is to reduce the cost of travel for passengers and increase the revenue of the bus company.
DOI: 10.6084/m9.figshare.21358005.v1
title: Data and Code.rar

description: Processing and analysis of bus data in Huangdao District, Qingdao in 2018 to optimise the departure schedule. The aim is to reduce the cost of travel for passengers and increase the revenue of the bus company.
DOI: 10.34740/kaggle/dsv/4771484
title: 🇺🇦 Ukraine Conflict Twitter Dataset
DOI: 10.5281/zenodo.7482755
title: Bugs2Fix

description: Dataset of bugs and fixes extracted from GitHub
DOI: 10.5281/zenodo.7482754
title: Bugs2Fix

description: Dataset of bugs and fixes extracted from GitHub
DOI: 10.6084/m9.figshare.21780107
title: 2022 World Cup Group Stage.xlsx

description: 2022 FIFA World Cup group stage
DOI: 10.6084/m9.figshare.21746173
title: Protein features for SVM from A mitochondrion-free eukaryote contains proteins capable of import into an exogenous mitochondrion-related organelle

description: The endobiotic flagellate <i>Monocercomonoides exilis</i> is the only known eukaryote to have lost mitochondria and all its associated proteins in its evolutionary past. This final stage of the mitochondrial evolutionary pathway may serve as a model to explain events at their very beginning such as the initiation of protein import. We have assessed the capability of proteins from this eukaryote to enter emerging mitochondria using a specifically designed <i>in vitro</i> assay. Hydrogenosomes (reduced mitochondria) of <i>Trichomonas vaginalis</i> were incubated with a soluble protein pool derived from a cytosolic fraction of <i>M. exilis</i>, and proteins entering hydrogenosomes were subsequently detected by mass spectrometry. The assay detected 19 specifically and reproducibly imported proteins, and in 14 cases the import was confirmed by the overexpression of their tagged version in <i>T. vaginalis</i>. In most cases, only a small portion of the signal reached the hydrogenosomes, suggesting specific but inefficient transport. Most of these proteins represent enzymes of carbon metabolism, and none exhibited clear signatures of proteins targeted to hydrogenosomes or mitochondria, which is consistent with their inefficient import. The observed phenomenon may resemble a primaeval type of protein import which might play a role in the establishment of the organelle and shaping of its proteome in the initial stages of endosymbiosis.
DOI: 10.6084/m9.figshare.21746173.v1
title: Protein features for SVM from A mitochondrion-free eukaryote contains proteins capable of import into an exogenous mitochondrion-related organelle

description: The endobiotic flagellate <i>Monocercomonoides exilis</i> is the only known eukaryote to have lost mitochondria and all its associated proteins in its evolutionary past. This final stage of the mitochondrial evolutionary pathway may serve as a model to explain events at their very beginning such as the initiation of protein import. We have assessed the capability of proteins from this eukaryote to enter emerging mitochondria using a specifically designed <i>in vitro</i> assay. Hydrogenosomes (reduced mitochondria) of <i>Trichomonas vaginalis</i> were incubated with a soluble protein pool derived from a cytosolic fraction of <i>M. exilis</i>, and proteins entering hydrogenosomes were subsequently detected by mass spectrometry. The assay detected 19 specifically and reproducibly imported proteins, and in 14 cases the import was confirmed by the overexpression of their tagged version in <i>T. vaginalis</i>. In most cases, only a small portion of the signal reached the hydrogenosomes, suggesting specific but inefficient transport. Most of these proteins represent enzymes of carbon metabolism, and none exhibited clear signatures of proteins targeted to hydrogenosomes or mitochondria, which is consistent with their inefficient import. The observed phenomenon may resemble a primaeval type of protein import which might play a role in the establishment of the organelle and shaping of its proteome in the initial stages of endosymbiosis.
DOI: 10.6084/m9.figshare.21746176
title: MS identification results from A mitochondrion-free eukaryote contains proteins capable of import into an exogenous mitochondrion-related organelle

description: The endobiotic flagellate <i>Monocercomonoides exilis</i> is the only known eukaryote to have lost mitochondria and all its associated proteins in its evolutionary past. This final stage of the mitochondrial evolutionary pathway may serve as a model to explain events at their very beginning such as the initiation of protein import. We have assessed the capability of proteins from this eukaryote to enter emerging mitochondria using a specifically designed <i>in vitro</i> assay. Hydrogenosomes (reduced mitochondria) of <i>Trichomonas vaginalis</i> were incubated with a soluble protein pool derived from a cytosolic fraction of <i>M. exilis</i>, and proteins entering hydrogenosomes were subsequently detected by mass spectrometry. The assay detected 19 specifically and reproducibly imported proteins, and in 14 cases the import was confirmed by the overexpression of their tagged version in <i>T. vaginalis</i>. In most cases, only a small portion of the signal reached the hydrogenosomes, suggesting specific but inefficient transport. Most of these proteins represent enzymes of carbon metabolism, and none exhibited clear signatures of proteins targeted to hydrogenosomes or mitochondria, which is consistent with their inefficient import. The observed phenomenon may resemble a primaeval type of protein import which might play a role in the establishment of the organelle and shaping of its proteome in the initial stages of endosymbiosis.
DOI: 10.6084/m9.figshare.21746176.v1
title: MS identification results from A mitochondrion-free eukaryote contains proteins capable of import into an exogenous mitochondrion-related organelle

description: The endobiotic flagellate <i>Monocercomonoides exilis</i> is the only known eukaryote to have lost mitochondria and all its associated proteins in its evolutionary past. This final stage of the mitochondrial evolutionary pathway may serve as a model to explain events at their very beginning such as the initiation of protein import. We have assessed the capability of proteins from this eukaryote to enter emerging mitochondria using a specifically designed <i>in vitro</i> assay. Hydrogenosomes (reduced mitochondria) of <i>Trichomonas vaginalis</i> were incubated with a soluble protein pool derived from a cytosolic fraction of <i>M. exilis</i>, and proteins entering hydrogenosomes were subsequently detected by mass spectrometry. The assay detected 19 specifically and reproducibly imported proteins, and in 14 cases the import was confirmed by the overexpression of their tagged version in <i>T. vaginalis</i>. In most cases, only a small portion of the signal reached the hydrogenosomes, suggesting specific but inefficient transport. Most of these proteins represent enzymes of carbon metabolism, and none exhibited clear signatures of proteins targeted to hydrogenosomes or mitochondria, which is consistent with their inefficient import. The observed phenomenon may resemble a primaeval type of protein import which might play a role in the establishment of the organelle and shaping of its proteome in the initial stages of endosymbiosis.
DOI: 10.6084/m9.figshare.20619273
title: List of Words for Negative Affect Priming Task.xlsx

description: This is a list of words for stimuli in the Negative Affective Priming Task. The population of the research is young adulthood in Indonesia's urban area.
DOI: 10.6084/m9.figshare.20619273.v3
title: List of Words for Negative Affect Priming Task.xlsx

description: This is a list of words for stimuli in the Negative Affective Priming Task. The population of the research is young adulthood in Indonesia's urban area.
DOI: 10.6084/m9.figshare.20619273.v2
title: List of Words for Negative Affect Priming Task.xlsx

description: This is a list of words for stimuli in the Negative Affective Priming Task. The population of the research is young adulthood in Indonesia's urban area.
DOI: 10.6084/m9.figshare.12027183
title: A novel approach for identifying urban employment centers using mobile phone data: A case study of Shanghai

description: Employment density in raster format that used to identify urban subcenters.
DOI: 10.6084/m9.figshare.21780140
title: The data of stretchable strain sensor with small but sufficient adhesion to skin

description: These data show the material properties of Ecoflex and the electrical and mechanical performance of the sensor.
DOI: 10.6084/m9.figshare.20003408
title: horseradish genome

description: Horseradish genome FASTA
DOI: 10.6084/m9.figshare.20003408.v4
title: horseradish genome

description: Horseradish genome FASTA
DOI: 10.6084/m9.figshare.20003408.v3
title: horseradish genome

description: Horseradish genome FASTA
DOI: 10.5281/zenodo.7339391
title: Identifying neprilysin-inhibiting FDA approved drugs as possible risk factors for Alzheimer's disease

description: Although Alzheimer’s disease is the most common type of dementia, unfortunately, safe and effective treatments that could slow the progress of this progressive neurodegenerative disease are still lacking. This amplifies the importance of preventing this disease and, thus, identifying its risk factors. It has already been known that various drugs may increase the risk for Alzheimer’s disease. Here, we searched for approved drugs that may increase this risk through inhibiting neprilysin. Neprilysin is the rate-limiting enzyme in the amyloid beta clearance pathway and is even able to catalyze unphysiologically large amount of amyloid beta. Inhibitors of neprilysin may increase the risk of Alzheimer’s disease and exacerbate its progress via increasing the amounts of the accumulated amyloid beta and its secondary products. In this study, after predicting the blood-brain barrier (BBB) penetration of approved drugs and their metabolites, we used various computational tools to identify potential inhibitors of neprilysin among them. These tools included various structure-based approaches like docking with AutoDockZn, PLANTS, FlexX, Fitted, Molegro, and Flare and rescoring with these scoring functions: Convex-PL, GNINA, JamdaScorer, KORP-PL, RF-Score-VS, Rank Score, dG, VScore. The reliability of these methods was assessed by investigating the correlations of their predictions with experimental measurements. We also used these ligand-based approaches: 2D-QSAR modelling and similarity comparison based on feature trees. These <em>in silico</em> tools suggested that several drugs deserve to be further investigated beacuase of their considerable binding affinity to neprilysin and BBB penetration: aripiprazole, etoricoxib, nabumetone, fentiazac, clorotepine, pitolisant, and chloroquine. Other drugs whose BBB penetration were not predicted to be much high yet their chronic or common use may lead to consequential inhibition of neprilysin can be added to this list, like glyburide, lisinopril, cilazapril, fosinopril, prucalopride, ibersartan, valsartan, and montelukast. Further investigations, including <em>in vitro</em>, animal, and human investigations, can help mitigate the huge and rising societal and economic burden of Alzheimer’s disease globally.
DOI: 10.5281/zenodo.7339390
title: Identifying neprilysin-inhibiting FDA approved drugs as possible risk factors for Alzheimer's disease

description: Although Alzheimer’s disease is the most common type of dementia, unfortunately, safe and effective treatments that could slow the progress of this progressive neurodegenerative disease are still lacking. This amplifies the importance of preventing this disease and, thus, identifying its risk factors. It has already been known that various drugs may increase the risk for Alzheimer’s disease. Here, we searched for approved drugs that may increase this risk through inhibiting neprilysin. Neprilysin is the rate-limiting enzyme in the amyloid beta clearance pathway and is even able to catalyze unphysiologically large amount of amyloid beta. Inhibitors of neprilysin may increase the risk of Alzheimer’s disease and exacerbate its progress via increasing the amounts of the accumulated amyloid beta and its secondary products. In this study, after predicting the blood-brain barrier (BBB) penetration of approved drugs and their metabolites, we used various computational tools to identify potential inhibitors of neprilysin among them. These tools included various structure-based approaches like docking with AutoDockZn, PLANTS, FlexX, Fitted, Molegro, and Flare and rescoring with these scoring functions: Convex-PL, GNINA, JamdaScorer, KORP-PL, RF-Score-VS, Rank Score, dG, VScore. The reliability of these methods was assessed by investigating the correlations of their predictions with experimental measurements. We also used these ligand-based approaches: 2D-QSAR modelling and similarity comparison based on feature trees. These <em>in silico</em> tools suggested that several drugs deserve to be further investigated beacuase of their considerable binding affinity to neprilysin and BBB penetration: aripiprazole, etoricoxib, nabumetone, fentiazac, clorotepine, pitolisant, and chloroquine. Other drugs whose BBB penetration were not predicted to be much high yet their chronic or common use may lead to consequential inhibition of neprilysin can be added to this list, like glyburide, lisinopril, cilazapril, fosinopril, prucalopride, ibersartan, valsartan, and montelukast. Further investigations, including <em>in vitro</em>, animal, and human investigations, can help mitigate the huge and rising societal and economic burden of Alzheimer’s disease globally.
DOI: 10.5281/zenodo.6609700
title: Digital elevation data of Nakadake first crater, Aso Volcano, Japan, in March and May 2015

description: We here present two digital elevation models (DEMs) for the Nakadake first crater, Aso Volcano, Japan (Kazama et al., 2015). The DEMs were created using the software of Agisoft PhotoScan (version: 1.1.5), and synthesized from photographs taken with DJI Phantom 2 Vision FC200 and PENTAX Optio WG-2. Two zip files (1503.zip and 1505.zip) correspond to the DEMs as of March and May 2015, originating from the photo data taken on March 26-27 and May 8, 2015, respectively. In synthesizing the DEMs, the absolute coordinate of the ground surface was fixed by seven ground control points (GCPs) located around the crater; the GCPs' coordinates had been determined with GNSS surveys in advance. In each zip file (15??.zip), 15??.xyz indicates the raw topographic data, and its each line contains longitude [deg], latitude [deg] and elevation [m]. The DEM resolution is 0.000005 deg (~= 50 cm) for longitude and latitude, and 0.000001 m for elevation. Both 15??.stl and 15??.pdf are the three-dimensional shape of the DEM data, and they can be shown using typical 3D viewers and Adobe Acrobat Reader, respectively. Both 15??.jpg and 15??.kmz are the orthophotographs of the Nakadake crater; in particular, 15??.kmz can be projected to maps using map softwares such as Google Earth Pro. Note that the DEM coordinate may contain random and/or systematic errors greater than the DEM resolution. According to the PhotoScan software, the coordinate errors of the GCPs were estimated to be (longitude, latitude, elevation) = (0.62, 4.01, 6.87) and (4.27, 3.94, 1.78) meters for 1503.xyz and 1505.xyz, respectively. Acknowledgments: Aso Volcano Disaster Prevention Council helped us taking photographs at the Nakadake first crater.
description: {"references": ["Kazama et al. (2015): Estimation of temporal gravity changes associated with variations in the crater bottom topography of Aso Volcano. Programme and abstracts the Volcanological Society of Japan, 2015, 148, doi:10.18940/vsj.2015.0_148"]}
DOI: 10.6084/m9.figshare.20236509
title: Single-nucleus and bulk ATAC-seq of liver from rat fed high fat diet

description: <strong>Background:</strong> Non-alcoholic fatty liver disease (NAFLD) develops from fatty liver to steatohepatitis during which multiple cell types may play different roles. Aiming to understand the tissue composition of cell types, their gene expression and global gene regulation in the development of NAFLD, we performed single-nucleus and bulk ATAC-seq on the liver of rats fed with a high-fat diet (HFD). <strong>Methods:</strong> Male Spontaneously Hypertensive Rats were fed a normal diet or a HFD. Rats fed HFD for 4 weeks developed fatty liver, and those fed HFD for 8 weeks further developed steatohepatitis. Under the washout condition, where 4 weeks of HFD is followed by 4 weeks of a normal diet, fatty liver was partially ameliorated. For each dietary condition, we performed single-nucleus ATAC-seq on one animal and bulk ATAC-seq on four animals. <strong>Results:</strong> In accordance with the pathological progression from fatty liver to steatohepatitis, the proportion of inflammatory macrophages dramatically increased. By machine learning, we divided the global gene expression into modules, such that transcription factors in a module regulate the genes in the same module. Consequently, many of the modules rediscovered known regulatory relationship between the transcription factors and biological processes. For the discovered biological processes, we searched core genes, which were defined as genes central regarding co-expression and protein-protein interaction. A large part of the core genes overlapped with previously implicated NAFLD genes. <strong>Conclusions:</strong> Single-nucleus ATAC-seq combined with data-driven statistical analysis help elucidate the global gene regulation <em>in vivo</em> as a combination of modules and discover core genes of the relevant biological processes.