cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6904891
title: Raw Data of SwissADME Test Result

description: This data contains raw data which is the result of analysis from SwissADME webtool.
DOI: 10.5281/zenodo.6904890
title: Raw Data of SwissADME Test Result

description: This data contains raw data which is the result of analysis from SwissADME webtool.
DOI: 10.5281/zenodo.5785222
title: YB1 dephosphorylation attenuates atherosclerosis by promoting CCL2 mRNA decay

description: Y-box binding protein 1 (YB1) is an RNA binding protein (RBP) that has been reported to play important roles in inflammation and atherosclerotic plaque formation. To explore the molecular mechanism of phosphorylated YB1 (pYB1) in atherosclerosis <em>in vitro</em>, we constructed YB1 phosphorylation site (Ser-100) mutant stable smooth muscle cell line (3ds-V5) and performed RNA profile screening through RNA-seq. We found inflammatory pathways and CCL2 was significantly decreased in the 3dS-V5 YB1 mutant compared with the control group (YB1-V5).
DOI: 10.5281/zenodo.5785221
title: YB1 dephosphorylation attenuates atherosclerosis by promoting CCL2 mRNA decay

description: Y-box binding protein 1 (YB1) is an RNA binding protein (RBP) that has been reported to play important roles in inflammation and atherosclerotic plaque formation. To explore the molecular mechanism of phosphorylated YB1 (pYB1) in atherosclerosis <em>in vitro</em>, we constructed YB1 phosphorylation site (Ser-100) mutant stable smooth muscle cell line (3ds-V5) and performed RNA profile screening through RNA-seq. We found inflammatory pathways and CCL2 was significantly decreased in the 3dS-V5 YB1 mutant compared with the control group (YB1-V5).
DOI: 10.5281/zenodo.6899434
title: Jang and Santamarian Hydrate-bearing Sediments and Frozen Ground

description: Hydrate-bearing Sediments and Frozen Ground Data availability
DOI: 10.5281/zenodo.6899433
title: Jang and Santamarian Hydrate-bearing Sediments and Frozen Ground

description: Hydrate-bearing Sediments and Frozen Ground Data availability
DOI: 10.6084/m9.figshare.17032418
title: Construction of a single cell landscape of mouse liver, kidney, and heart allografts

description: Raw data and processed data of bulk RNA part in the article.RNA-seq data (array) of mouse liver allograft from day7 to day 60 post-allograft.g1:Liver allograft C57BL/6 to C3H(day7)g2:Liver allograft C57BL/6 to C3H(day14)g3:Liver allograft C57BL/6 to C3H(day28)<br>g4:Liver allograft C57BL/6 to C3H(day60)<br>g5:Liver allograft C3H to C3H(day7,control group)<br>
DOI: 10.6084/m9.figshare.17032418.v1
title: Construction of a single cell landscape of mouse liver, kidney, and heart allografts

description: Raw data and processed data of bulk RNA part in the article.RNA-seq data (array) of mouse liver allograft from day7 to day 60 post-allograft.g1:Liver allograft C57BL/6 to C3H(day7)g2:Liver allograft C57BL/6 to C3H(day14)g3:Liver allograft C57BL/6 to C3H(day28)<br>g4:Liver allograft C57BL/6 to C3H(day60)<br>g5:Liver allograft C3H to C3H(day7,control group)<br>
DOI: 10.6084/m9.figshare.20306409
title: CCPLS paper

description: Expression matrix of Seq-Scope dataset.
DOI: 10.6084/m9.figshare.20306409.v1
title: CCPLS paper

description: Expression matrix of Seq-Scope dataset.
DOI: 10.6084/m9.figshare.20372310
title: Dataset_Migrating for Conflict.xlsx

description: This data depicts information on 42 foreign fighters involved in the Eastern Ukraine conflict between 2014 and early 2022 as well as a checklist for coded factors that influenced their decision in becoming fighters. The information was collected from open-source interviews.
DOI: 10.6084/m9.figshare.20373774
title: Strategi Pemulihan Ekonomi melalui Sinergi Pemasaran Digital “LapakUMKM.Com”

description: <em>Covid-19</em> <em>menimbulkan</em> <em>berbagai</em> <em>permasalahan</em> <em>bagi</em> <em>UMKM</em> <em>di</em> <em>Tulungagung</em> <em>Jumlah UMKM di Tulungagung sebanyak 129.173 yang didominasi oleh usaha mikro</em> <em>dan lebih dari 60 persen terdampak covid-19</em> <em>seperti penurunan omset penjualan, kebutuhan modal, terhambatnya distribusi, sulitnya akses bahan baku, dan produksi menurun.</em> <em>Di sisi lain ada kesempatan yang juga muncul yaitu pelaku UMKM bisa memanfaatkan teknologi informasi dan komunikasi.</em> <em>Dari permasalahan tersebut maka solusi yang akan diberikan adalah dengan melakukan strategi pemulihan ekonomi melalui sinergi berbagai pihak melalui platform pemasaran digital “Lapakumkm.com”.</em> <em>Dengan adanya lapakumkm.com sangat membantu dalam pemberdayaan UMKM di Kabupaten Tulungagung, terlebih dalam menghadapi pandemic covid-19 ini. Inilah yang menjadi salah satu pintu UMKM untuk meningkatkan laba penjualan, membangun strategi, serta memperluas akses pemasaran secara online. Pemerintah melalui Dinas</em> <em>yang membidangi UMKM</em> <em>mendukung sepenuhnya dengan penyediaan akses digital marketing dan sinergitas para pihak terkait kepada pelaku UMKM melalui platform digital lapakumkm.com.</em>
DOI: 10.6084/m9.figshare.20373774.v1
title: Strategi Pemulihan Ekonomi melalui Sinergi Pemasaran Digital “LapakUMKM.Com”

description: <em>Covid-19</em> <em>menimbulkan</em> <em>berbagai</em> <em>permasalahan</em> <em>bagi</em> <em>UMKM</em> <em>di</em> <em>Tulungagung</em> <em>Jumlah UMKM di Tulungagung sebanyak 129.173 yang didominasi oleh usaha mikro</em> <em>dan lebih dari 60 persen terdampak covid-19</em> <em>seperti penurunan omset penjualan, kebutuhan modal, terhambatnya distribusi, sulitnya akses bahan baku, dan produksi menurun.</em> <em>Di sisi lain ada kesempatan yang juga muncul yaitu pelaku UMKM bisa memanfaatkan teknologi informasi dan komunikasi.</em> <em>Dari permasalahan tersebut maka solusi yang akan diberikan adalah dengan melakukan strategi pemulihan ekonomi melalui sinergi berbagai pihak melalui platform pemasaran digital “Lapakumkm.com”.</em> <em>Dengan adanya lapakumkm.com sangat membantu dalam pemberdayaan UMKM di Kabupaten Tulungagung, terlebih dalam menghadapi pandemic covid-19 ini. Inilah yang menjadi salah satu pintu UMKM untuk meningkatkan laba penjualan, membangun strategi, serta memperluas akses pemasaran secara online. Pemerintah melalui Dinas</em> <em>yang membidangi UMKM</em> <em>mendukung sepenuhnya dengan penyediaan akses digital marketing dan sinergitas para pihak terkait kepada pelaku UMKM melalui platform digital lapakumkm.com.</em>
DOI: 10.6084/m9.figshare.20373810
title: Dataset used in Trevine et al - Phylogeny of Tachymenini.

description: Dataset used in Trevine et al - Phylogeny of Tachymenini. Files labeled as TE were used in the Total Evidence analyses, whereas the ones labeled as CM were used in the Concatenated Molecular analyses.
DOI: 10.6084/m9.figshare.20373810.v1
title: Dataset used in Trevine et al - Phylogeny of Tachymenini.

description: Dataset used in Trevine et al - Phylogeny of Tachymenini. Files labeled as TE were used in the Total Evidence analyses, whereas the ones labeled as CM were used in the Concatenated Molecular analyses.
DOI: 10.34740/kaggle/dsv/3986950
title: WallStreetBets 2022
DOI: 10.15151/esrf-es-771280983
title: UK Midlands BAG

description: The UK Midlands BAG consists of groups located at the Universities of Birmingham, Leicester, Warwick, Nottingham, Keele, and Wolverhampton. We represent a diverse spectrum of research interests, from microbiology, cancer biology, blood disorders, immunology to fundamental biological processes such as membrane transport, DNA repair and mechanisms of enzyme catalysis. Our groups use X-ray crystallography in conjunction with other structural biology, biophysical and biochemical techniques to elucidate molecular mechanisms of protein-protein and protein-ligand interactions. Our cooperation in this block allocation group is mirrored by the consortium of institutions that are stakeholders in the Midlands Regional CryoEM Facility at the University of Leicester.
DOI: 10.15151/esrf-es-771428444
title: Structural Biology of Macromolecules and Macromolecular complexes from India

description: Structural biology research groups located in India constitute the INDIA-BAG and will utilize MX, SAXS and CryoEM to study different biological macromolecules. Together, these groups address multiple pathways in animals, plants, bacteria and fungi. These studies will provide fundamental mechanistic insight regarding different processes critical for the survival and propagation of the relevant organism. Many groups in the BAG study proteins from pathogens to identify novel intervention points that can be the targeted with small molecule inhibitors to inhibit the growth of the corresponding infectious agents. There are more than 50 groups that are part of this BAG and the allocated beamtime will be available for over 500 young researchers. A brief description of all the research groups is provided in the global summary and a summary of the research contributions involving data collected at ESRF is provided in the last BAG report.
DOI: 10.15151/esrf-es-858580819
title: The Israeli BAG

description: The BAG is quite large with 24 principal investigators covering almost all groups in Israel. The scientific topics are diverse and so different that depicting them in a short Abstract is extremely difficult. In this context BAG members are studying the parameters that govern protein assemblage, structural impacts of signaling processes in different cascades. There are several projects that are directed towards molecular recognition with implementation towards drug design. In addition, we still have the ribosome project and the design of unique antibiotics with specific functional interactions from the mycinamycins family and their resistance related mechanism compared with other macrolides and the photosystem and how it converts light into energy. Since Covid-19 is still a relevant topic as are other viral infections BAG members are and have been involved in the understanding of the infection process and the means to hinder it.
DOI: 10.15151/esrf-es-856091028
title: Structural study of nickel insertion into the CODH enzyme by maturases.

description: Synthetic gas (syngas) is an alternative source of energy to paliate¬¬¬¬ the coming fossil fuel shortage. Syngas can be converted into synthetic fuels or commodity products, using the reaction of water gaz shift reaction. Some Hydrogenic carboxydotrophic bacteria e.g. Carboxydothermus hydrogenoformans are able to use CO as the sole energy source and provide Bio-WGSR. In this case, the reaction is catalyzed by a multienzyme complex: the oxidation of CO to CO2, catalyzed by a Nickel-dependent carbon monoxide dehydrogenase called CODH. In the case of ChCODH, little is known about the biogenesis of its catalytic site, except that nickel insertion is a key step in the enzyme activation. The crucial step of Ni atom insertion, known as CODH activation, requires two nickel-binding proteins: the nickel-dependent ATPase CooC and an additional nickel chaperones CooT. Our team is studying the maturation process of CODH for the optimization of bio-WGSR.
DOI: 10.15151/esrf-es-845372715
title: Exploiting the bending of GaAs nanowires due to optical excitation using Laser pump and X-ray probe measurement

description: The flexoelastic response of bent GaAs nanowires is planned to identify experimentally by measuring the change of the bending radius of single bent nanowires by a pump and probe experiment at beamline ID09 equipped with a fs laser. After the excitation of electrons the redistribution of charge carriers in the conduction band from the compressed to the expanded regions of the bent lattice will screen the radial electric field and will modify the radial strain gradient visible by a change of bending radius.
DOI: 10.5281/zenodo.6905361
title: Volatile organic compounds (VOIs) in seawater and sediment pore water collected in Funka Bay and Bering and Chukchi Seas

description: The data of volatile organic compounds (VOIs) in seawater and sediment pore water collected in the Funka Bay, Hokkaido, Japan, and the Bering and Chukchi Seas. Funka Bay's samples were collected in 2018-2019. Bering and Chukchi Seas' samples were collected in July of 2017 and 2018. The article entitled "Marine sediment as a likely source of methyl and ethyl iodides in subpolar and polar seas" by Ooki et al. published by Communications Earth & Environment used these datasets. The datasets are also provided as supplementary data1-4 in the article. Details of datasets are described in the article. Please cite this article when you use these datasets.
DOI: 10.5281/zenodo.6905360
title: Volatile organic compounds (VOIs) in seawater and sediment pore water collected in Funka Bay and Bering and Chukchi Seas

description: The data of volatile organic compounds (VOIs) in seawater and sediment pore water collected in the Funka Bay, Hokkaido, Japan, and the Bering and Chukchi Seas. Funka Bay's samples were collected in 2018-2019. Bering and Chukchi Seas' samples were collected in July of 2017 and 2018. The article entitled "Marine sediment as a likely source of methyl and ethyl iodides in subpolar and polar seas" by Ooki et al. published by Communications Earth & Environment used these datasets. The datasets are also provided as supplementary data1-4 in the article. Details of datasets are described in the article. Please cite this article when you use these datasets.
DOI: 10.5255/ukda-sn-855842
title: Knowledge, Attitudes and Practice Survey on Antimicrobials and Antimicrobial Resistance Amongst Indian Veterinary Students and Graduates, 2021-2022

description: Antimicrobial resistance (AMR) is an urgent global one health challenge and irrational and over use of antimicrobials in livestock production and human medicine is contributing to this problem. This online questionnaire was part of a large interdisciplinary research project on the drivers for AMR and the role of livestock and poultry production in India (see www.liverpool.ac.uk/infection-and-global-health/research/darpi/) involving multiple UK and Indian partners, with this specific survey led by the University of Liverpool, University of Edinburgh and the Karnataka Veterinary, Animal and Fisheries Sciences University. This study was designed to help us understand how and what veterinary students are taught, their knowledge and attitudes around AMR and antimicrobial use. Participates were invited to take part in this study if they had recently graduated or were near to the completion of their veterinary course and will be a future prescriber and therefore represent a important stakeholder.
DOI: 10.7303/syn33359004
title: Full-body mobility data to validate inertial measurement unit algorithms in healthy and neurological cohorts
DOI: 10.5281/zenodo.6905592
title: Weighted Altmetric Scores to Facilitate Literature Analyses

description: Following is the dataset used for the experimental analysis as part of the published conference paper, titled: <em>Weighted Altmetric Scores to Facilitate </em><em>Literature Analyses.</em>
DOI: 10.5281/zenodo.6905591
title: Weighted Altmetric Scores to Facilitate Literature Analyses

description: Following is the dataset used for the experimental analysis as part of the published conference paper, titled: <em>Weighted Altmetric Scores to Facilitate </em><em>Literature Analyses.</em>
DOI: 10.6084/m9.figshare.20374410
title: Breast Cancer Data Set.zip

description: Features are computed from a digitized image of a fine needle aspirate (FNA) of a breast mass. They describe characteristics of the cell nuclei present in the image.
DOI: 10.6084/m9.figshare.20372779
title: Additional file 1 of Mental health indicators and their lifestyle associations in German students: a gender-specific multivariable analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.20372779.v1
title: Additional file 1 of Mental health indicators and their lifestyle associations in German students: a gender-specific multivariable analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.19766268
title: Additional file 2 of Quantifying heterologous gene expression during ectopic MazF production in Escherichia coli

description: Additional file 2. Flow cytometry data for figures.
DOI: 10.6084/m9.figshare.19766268.v1
title: Additional file 2 of Quantifying heterologous gene expression during ectopic MazF production in Escherichia coli

description: Additional file 2. Flow cytometry data for figures.
DOI: 10.6084/m9.figshare.20374427
title: Additional file 1 of Distributed lag interrupted time series model for unclear intervention timing: effect of a statement of emergency during COVID-19 pandemic

description: Additional file 1. Observed and estimated human mobility index (HMI) in osaka and Ehime.
DOI: 10.6084/m9.figshare.20374427.v1
title: Additional file 1 of Distributed lag interrupted time series model for unclear intervention timing: effect of a statement of emergency during COVID-19 pandemic

description: Additional file 1. Observed and estimated human mobility index (HMI) in osaka and Ehime.
DOI: 10.6084/m9.figshare.20374430
title: Additional file 1 of Pan-cancer integrative analysis of whole-genome De novo somatic point mutations reveals 17 cancer types

description: Additional file 1: Table S1. Complete list of candidate genes with their corresponding P-value for each cancer type separately. Table S2. Complete list of samples with their cancer type and identified subtypes. Table S3. Contribution of each cancer type in proposed cancer subtypes. Table S4. Top 100 significant genes with their corresponding P-value for each subtype separately. Table S5. Top 100 significant gene-motifs with their corresponding P-value for each subtype separately. Table S6: Full list of all enriched gene ontology associated with our identified subtypes. Sheet2: Full list of all enrich pathways associated with our identified subtypes. Table S7. Similarity of Cosmic Signatures and Pan-cancer subtypes.
DOI: 10.6084/m9.figshare.20374430.v1
title: Additional file 1 of Pan-cancer integrative analysis of whole-genome De novo somatic point mutations reveals 17 cancer types

description: Additional file 1: Table S1. Complete list of candidate genes with their corresponding P-value for each cancer type separately. Table S2. Complete list of samples with their cancer type and identified subtypes. Table S3. Contribution of each cancer type in proposed cancer subtypes. Table S4. Top 100 significant genes with their corresponding P-value for each subtype separately. Table S5. Top 100 significant gene-motifs with their corresponding P-value for each subtype separately. Table S6: Full list of all enriched gene ontology associated with our identified subtypes. Sheet2: Full list of all enrich pathways associated with our identified subtypes. Table S7. Similarity of Cosmic Signatures and Pan-cancer subtypes.
DOI: 10.6084/m9.figshare.20374442.v1
title: Additional file 2 of Sample size recalculation based on the prevalence in a randomized test-treatment study

description: Additional file 2.
DOI: 10.6084/m9.figshare.20374442
title: Additional file 2 of Sample size recalculation based on the prevalence in a randomized test-treatment study

description: Additional file 2.
DOI: 10.21227/ys89-k082
title: RainVID&SS

description: We create a RainVID&SS benchmark on which the performance gain of subsequent processes with and without deraining pre-process can be evaluated. We argue that the gain can be a metric of deraining methods from a computer perspective
DOI: 10.5281/zenodo.5895957
title: Supplementary materials for "The importance of biological variables in SDMs of species with strict interactions: a case study with a hairworm and its hosts"

description: Species distribution model (SDM) has conventionally been based mainly on abiotic factors, i.e., temperature and precipitation variables. Although recent studies have shown that incorporating biotic factors may improve the model performance, only few empirical studies could effectively incorporate biotic factors in SDMs. Here we used a parasite and host system to investigate whether incorporating biotic information can improve SDM. Specifically, SDM of the parasite based on hosts’ distributions can be helpful because the distribution of the parasite may depend on the dispersal ability of the hosts. We evaluated the most important layer, including the SDMs of its three hosts, for predicting the distribution of the parasitic horsehair worm <em>Chordodes formosanus</em>.<br> We retrieved presence points for three host species and the parasite. We first built the three hosts’ SDMs. We subsequently built SDMs for the parasite with MaxEnt implemented in ENMeval by using bioclim variables (chosen according to VIF values) and the aforementioned host SDMs built at 30 seconds scale. In addition, we evaluated niche overlap among hosts and parasite according to five similarity indices (Schoener’s D, I statistic, relative rank, Pearson correlation coefficient and the rank correlation coefficient rho).<br> According to percentage and permutation importance, the presence of the Taiwanese giant mantis, <em>Titanodula formosana</em>, was the main variable that explained the distribution of <em>C. formosanus</em>. In addition, habitat suitability models showed high similarity between hosts and the parasite, according to niche overlap estimations.<br> Accounting for biological interaction is critical for SDM as shown here that the distribution of the main final host effectively predicts the distribution of the parasite. Additionally, SDMs can be helpful to prioritize host sampling and by consequence parasite sampling, too. SDMs are reliable tools for host and parasite conservation management and it is hoped their use will help to improve biological and ecological knowledge of parasites.
DOI: 10.5281/zenodo.5889559
title: Supplementary materials for "The importance of biological variables in SDMs of species with strict interactions: a case study with a hairworm and its hosts"

description: Species distribution model (SDM) has conventionally been based mainly on abiotic factors, i.e., temperature and precipitation variables. Although recent studies have shown that incorporating biotic factors may improve the model performance, only few empirical studies could effectively incorporate biotic factors in SDMs. Here we used a parasite and host system to investigate whether incorporating biotic information can improve SDM. Specifically, SDM of the parasite based on hosts’ distributions can be helpful because the distribution of the parasite may depend on the dispersal ability of the hosts. We evaluated the most important layer, including the SDMs of its three hosts, for predicting the distribution of the parasitic horsehair worm <em>Chordodes formosanus</em>.<br> We retrieved presence points for three host species and the parasite. We first built the three hosts’ SDMs. We subsequently built SDMs for the parasite with MaxEnt implemented in ENMeval by using bioclim variables (chosen according to VIF values) and the aforementioned host SDMs built at 30 seconds scale. In addition, we evaluated niche overlap among hosts and parasite according to five similarity indices (Schoener’s D, I statistic, relative rank, Pearson correlation coefficient and the rank correlation coefficient rho).<br> According to percentage and permutation importance, the presence of the Taiwanese giant mantis, <em>Titanodula formosana</em>, was the main variable that explained the distribution of <em>C. formosanus</em>. In addition, habitat suitability models showed high similarity between hosts and the parasite, according to niche overlap estimations.<br> Accounting for biological interaction is critical for SDM as shown here that the distribution of the main final host effectively predicts the distribution of the parasite. Additionally, SDMs can be helpful to prioritize host sampling and by consequence parasite sampling, too. SDMs are reliable tools for host and parasite conservation management and it is hoped their use will help to improve biological and ecological knowledge of parasites.
DOI: 10.34740/kaggle/dsv/3987156
title: MangoMassNet-552 Dataset
DOI: 10.6084/m9.figshare.20374479.v1
title: Data.xlsx

description: Data of the characteristics of street networks and other built environments.