cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21571560.v1
title: occurrences of Palearctic fossil caudates from Biogeographic history of Palearctic caudates revealed by a critical appraisal of their fossil record quality and spatio-temporal distribution

description: Appendix S1. List of occurrences of Palearctic fossil caudates. Each line corresponds to a taxon/locality occurrence. Previous taxonomic identifications are between brackets.
DOI: 10.5281/zenodo.7335287
title: Dataset for "Surf-Net: A deep-learning-based method for extracting surface-wave dispersion curves"

description: dataset for the article "Surf-Net: A deep-learning-based method for extracting surface-wave dispersion curves"<br> corrLSynV8.h5: the generated synthetic waveform<br> dispersion.tar : the dispersion curves set for the generated synthetic waveform; the dispersion curves extracted in Northeast China; the dispersion curves extracted in Southeast China
DOI: 10.5281/zenodo.7335286
title: Dataset for "Surf-Net: A deep-learning-based method for extracting surface-wave dispersion curves"

description: dataset for the article "Surf-Net: A deep-learning-based method for extracting surface-wave dispersion curves"<br> corrLSynV8.h5: the generated synthetic waveform<br> dispersion.tar : the dispersion curves set for the generated synthetic waveform; the dispersion curves extracted in Northeast China; the dispersion curves extracted in Southeast China
DOI: 10.6084/m9.figshare.21548022
title: supplemental materials--raw data and analysis from Great Gray Owls hunting voles under snow hover to defeat an acoustic mirage

description: raw data associated with this study (zip file)
DOI: 10.6084/m9.figshare.21548022.v2
title: supplemental materials--raw data and analysis from Great Gray Owls hunting voles under snow hover to defeat an acoustic mirage

description: raw data associated with this study (zip file)
DOI: 10.6084/m9.figshare.21548022.v1
title: supplemental materials--raw data and analysis from Great gray owls hunting voles under snow hover to defeat an acoustic mirage

description: raw data associated with this study (zip file)
DOI: 10.34740/kaggle/dsv/4540567
title: 🇺🇦 Ukraine Conflict Twitter Dataset
DOI: 10.6084/m9.figshare.21586248
title: Efficacy of optical coherence tomography in the triage of women with minor abnormal cervical cytology before colposcopy

description: <strong>Objectives:</strong> To evaluate the efficacy of Optical Coherence Tomography (OCT) for detecting cervical lesions in women with minor abnormal cytology results (atypical squamous cells of undetermined significance (ASC-US) and low-grade squamous intraepithelial lesion (LSIL)). <strong>Methods:</strong> A prospective study was conducted at gynecologic clinic from Mar 2021 to Sep 2021. The recruited women with cervical cytological findings of ASC-US or LSIL were inspected with OCT before colposcopy-directed cervical biopsy. The diagnostic performance of OCT, alone and in combination with high-risk human papillomavirus (hrHPV) testing were evaluated to detect cervical intraepithelial neoplasia of grade 2 or worse (CIN2+)/CIN3 or worse (CIN3+). The rate of colposcopy referral and the immediate risk of CIN3+ of OCT were calculated. <strong>Results:</strong> A total of 349 women with minor abnormal cervical cytology results were enrolled. For detection of CIN2+/CIN3+, the sensitivity and NPV of OCT were lower than those of hrHPV testing (CIN2+: 71.3% vs. 95.4%, 89.0% vs. 91.1%, <em>P</em> &lt; 0.001; CIN3+: 75% vs. 93.8%, 96.5% vs. 95.6%, <em>P</em> &lt; 0.001), but the specificity, accuracy and PPV were higher than those of hrHPV testing (CIN2+: 77.5% vs. 15.6%, 75.9% vs. 35.5%, 51.2% vs. 27.3%, <em>P</em> &lt; 0.001; CIN3+: 69.4% vs. 13.6%, 69.9% vs. 20.9%, 19.8% vs. 9.9%, <em>P</em> &lt; 0.001). OCT combined with hrHPV testing (CIN2+: 80.9%; CIN3+: 72.6%) showed higher specificity than that of OCT alone (<em>P</em> &lt; 0.001). The colposcopy referral rate base on OCT classification was lower than that based on hrHPV testing (34.7% vs. 87.1%, <em>P</em> &lt; 0.001). Patients with hrHPV-positive ASC-US and hrHPV-negative LSIL cytology, the immediate CIN3+ risk in OCT negative cases was less than 4%. <strong>Conclusions:</strong> OCT alone or combination with hrHPV testing shows good performance for detecting CIN2+/CIN3+ in patients with ASC-US/LSIL cytology. OCT is an effective method for colposcopy triage in women with hrHPV-positive ASC-US and hrHPV-negative LSIL cytology.
DOI: 10.6084/m9.figshare.21586248.v1
title: Efficacy of optical coherence tomography in the triage of women with minor abnormal cervical cytology before colposcopy

description: <strong>Objectives:</strong> To evaluate the efficacy of Optical Coherence Tomography (OCT) for detecting cervical lesions in women with minor abnormal cytology results (atypical squamous cells of undetermined significance (ASC-US) and low-grade squamous intraepithelial lesion (LSIL)). <strong>Methods:</strong> A prospective study was conducted at gynecologic clinic from Mar 2021 to Sep 2021. The recruited women with cervical cytological findings of ASC-US or LSIL were inspected with OCT before colposcopy-directed cervical biopsy. The diagnostic performance of OCT, alone and in combination with high-risk human papillomavirus (hrHPV) testing were evaluated to detect cervical intraepithelial neoplasia of grade 2 or worse (CIN2+)/CIN3 or worse (CIN3+). The rate of colposcopy referral and the immediate risk of CIN3+ of OCT were calculated. <strong>Results:</strong> A total of 349 women with minor abnormal cervical cytology results were enrolled. For detection of CIN2+/CIN3+, the sensitivity and NPV of OCT were lower than those of hrHPV testing (CIN2+: 71.3% vs. 95.4%, 89.0% vs. 91.1%, <em>P</em> &lt; 0.001; CIN3+: 75% vs. 93.8%, 96.5% vs. 95.6%, <em>P</em> &lt; 0.001), but the specificity, accuracy and PPV were higher than those of hrHPV testing (CIN2+: 77.5% vs. 15.6%, 75.9% vs. 35.5%, 51.2% vs. 27.3%, <em>P</em> &lt; 0.001; CIN3+: 69.4% vs. 13.6%, 69.9% vs. 20.9%, 19.8% vs. 9.9%, <em>P</em> &lt; 0.001). OCT combined with hrHPV testing (CIN2+: 80.9%; CIN3+: 72.6%) showed higher specificity than that of OCT alone (<em>P</em> &lt; 0.001). The colposcopy referral rate base on OCT classification was lower than that based on hrHPV testing (34.7% vs. 87.1%, <em>P</em> &lt; 0.001). Patients with hrHPV-positive ASC-US and hrHPV-negative LSIL cytology, the immediate CIN3+ risk in OCT negative cases was less than 4%. <strong>Conclusions:</strong> OCT alone or combination with hrHPV testing shows good performance for detecting CIN2+/CIN3+ in patients with ASC-US/LSIL cytology. OCT is an effective method for colposcopy triage in women with hrHPV-positive ASC-US and hrHPV-negative LSIL cytology.
DOI: 10.5281/zenodo.7336684
title: Synthetic brain tumor MRI samples - 2022-val

description: Synthetic brain tumor MRI samples - 2022-val
DOI: 10.5281/zenodo.7336683
title: Synthetic brain tumor MRI samples - 2022-val

description: Synthetic brain tumor MRI samples - 2022-val
DOI: 10.6084/m9.figshare.21586261
title: Supplementary Figures and Tables from Reconstructing horizontal gene flow network to understand prokaryotic evolution

description: Horizontal gene transfer (HGT) is a major source of phenotypic innovation and a mechanism of niche adaptation in prokaryotes. Quantification of HGT is critical to decipher its myriad roles in microbial evolution and adaptation. Advances in genome sequencing and bioinformatics have augmented our ability to understand the microbial world, particularly the direct or indirect influence of HGT on diverse life forms. Methods for detecting HGT can be classified into phylogenetic-based and parametric or composition-based approaches. Here, we exploited the complementary strengths of both the approaches to construct a high confidence horizontal gene flow network. Our network is unique in its ability to detect the transfer of native genes of a genome to genomes from other taxa, thus establishing donor and recipient organisms (taxa), rather than through a post hoc analysis as is the practice with several other approaches. The scale-free horizontal gene flow network presented here provides new insights into modes of transfer for the exchange of genetic information and also illuminates differential gene flow across phyla.
DOI: 10.6084/m9.figshare.21586261.v1
title: Supplementary Figures and Tables from Reconstructing horizontal gene flow network to understand prokaryotic evolution

description: Horizontal gene transfer (HGT) is a major source of phenotypic innovation and a mechanism of niche adaptation in prokaryotes. Quantification of HGT is critical to decipher its myriad roles in microbial evolution and adaptation. Advances in genome sequencing and bioinformatics have augmented our ability to understand the microbial world, particularly the direct or indirect influence of HGT on diverse life forms. Methods for detecting HGT can be classified into phylogenetic-based and parametric or composition-based approaches. Here, we exploited the complementary strengths of both the approaches to construct a high confidence horizontal gene flow network. Our network is unique in its ability to detect the transfer of native genes of a genome to genomes from other taxa, thus establishing donor and recipient organisms (taxa), rather than through a post hoc analysis as is the practice with several other approaches. The scale-free horizontal gene flow network presented here provides new insights into modes of transfer for the exchange of genetic information and also illuminates differential gene flow across phyla.
DOI: 10.21227/wbg6-yp21
title: SCE_DATA

description: The data set sentences are evenly distributed
DOI: 10.21227/rhdy-6v68
title: RES_DATA

description: The data set sentences are evenly distributed in length
DOI: 10.6084/m9.figshare.21586275
title: Supplementary_Material.docx

description: Supplementary Material
DOI: 10.6084/m9.figshare.21586275.v1
title: Supplementary_Material.docx

description: Supplementary Material
DOI: 10.6084/m9.figshare.21583272
title: Linear and thermo-optically generated nonlinear optical response of bovine serum albumin and its constituent amino acids in continuous wave z-scan

description: The dataset includes the results of z-scan results of BSA and 12 of its constituent amino acids. The Dataset1 includes the Raw data files in CSV format, the Dataset2 includes Excel files of the processed data and calculations, the Dataset3 includes the data related to Fig 5 in the article, the Dataset4 includes the data related to Fig 6 and Fig 7 and Dataset5 includes the excel files of z-scan results of 5 samples at different concentrations
DOI: 10.6084/m9.figshare.21583272.v1
title: Linear and thermo-optically generated nonlinear optical response of bovine serum albumin and its constituent amino acids in continuous wave z-scan

description: The dataset includes the results of z-scan results of BSA and 12 of its constituent amino acids. The Dataset1 includes the Raw data files in CSV format, the Dataset2 includes Excel files of the processed data and calculations, the Dataset3 includes the data related to Fig 5 in the article, the Dataset4 includes the data related to Fig 6 and Fig 7 and Dataset5 includes the excel files of z-scan results of 5 samples at different concentrations
DOI: 10.6084/m9.figshare.21586297
title: Aprison_Table S1 from The serotonin circuit that coordinates germline proliferation and egg laying with other reproductive functions in <i>Caenorhabditis elegans</i>

description: All primary data for the paper
DOI: 10.6084/m9.figshare.21586297.v1
title: Aprison_Table S1 from The serotonin circuit that coordinates germline proliferation and egg laying with other reproductive functions in <i>Caenorhabditis elegans</i>

description: All primary data for the paper
DOI: 10.6084/m9.figshare.21586318.v1
title: Study site map;Experiment deployment;Figure effect of predation on observed functional diversity;Table:variation of environmental variables;manyglm univariate test results from Biotic interactions shape trait assembly of marine communities across time and latitude

description: location of 12 study sites across the latitudinal gradient;Summary of field deployment of experimental panels;Figure effect of predation on observed functional diversity;Mean and variation (coefficient of variation - CV) of environmental variables within sites in each region, within a single region, and among all regions;CWMs responses to region*assembly stage and region*assembly stage*treatment interactions captured with univariate tests from the manyglm. Significant CWMs under adjusted P-values (&lt;0.05) are in bold.
DOI: 10.6084/m9.figshare.21586318
title: Study site map;Experiment deployment;Figure effect of predation on observed functional diversity;Table:variation of environmental variables;manyglm univariate test results from Biotic interactions shape trait assembly of marine communities across time and latitude

description: location of 12 study sites across the latitudinal gradient;Summary of field deployment of experimental panels;Figure effect of predation on observed functional diversity;Mean and variation (coefficient of variation - CV) of environmental variables within sites in each region, within a single region, and among all regions;CWMs responses to region*assembly stage and region*assembly stage*treatment interactions captured with univariate tests from the manyglm. Significant CWMs under adjusted P-values (&lt;0.05) are in bold.
DOI: 10.6084/m9.figshare.21586324.v1
title: Supplementary Data from Cannabinoid receptor 2 evolutionary gene loss makes parrots more susceptible to neuroinflammation

description: Table S21: Putative presence or absence of given immune gene (based on GO term: “negative regulation of inflammatory response“, GO:0050728) based on Avian Immunome database (AVIMM, Mueller et. al. 2020). Chicken gene annotation is used. Gene – gene name abbreviation, Description – full gene name. Putative presence or absence of given gene is shown for each species by the name of database where sequence was retrieved or NA, respectively. Data in AVIMM were retrieved from the following public repositories: ENSEMBL, Uniprot or The Bird 10,000 Genomes project (b10k). The following avian species were included: parrots (Melopsittacus undulatus, Eolophus roseicapillus, Probosciger aterrimus, Amazona guildingii, Agapornis roseicollis, Nestor notabilis) and passerines (Corvus moneduloides, Ficedula albicollis, Hirundo rustica, Lepidothrix coronata, Lonchura striata, Molothrus ater, Parus major, Passer domesticus, Serinus canaria, Sturnus vulgaris, Taeniopygia guttata, Zonotrichia albicollis, Zosterops hypoxanthus). Reference: Mueller RC, Mallig N, Smith J et al. Avian Immunome DB: an example of a user-friendly interface for extracting genetic information. BMC Bioinformatics 2020;21:1–16.. Table S22: Gene expression data. RT-qPCR Cp values for individual genes investigated; E1-3 = experiment 1-3.
DOI: 10.6084/m9.figshare.21586324
title: Supplementary Data from Cannabinoid receptor 2 evolutionary gene loss makes parrots more susceptible to neuroinflammation

description: Table S21: Putative presence or absence of given immune gene (based on GO term: “negative regulation of inflammatory response“, GO:0050728) based on Avian Immunome database (AVIMM, Mueller et. al. 2020). Chicken gene annotation is used. Gene – gene name abbreviation, Description – full gene name. Putative presence or absence of given gene is shown for each species by the name of database where sequence was retrieved or NA, respectively. Data in AVIMM were retrieved from the following public repositories: ENSEMBL, Uniprot or The Bird 10,000 Genomes project (b10k). The following avian species were included: parrots (Melopsittacus undulatus, Eolophus roseicapillus, Probosciger aterrimus, Amazona guildingii, Agapornis roseicollis, Nestor notabilis) and passerines (Corvus moneduloides, Ficedula albicollis, Hirundo rustica, Lepidothrix coronata, Lonchura striata, Molothrus ater, Parus major, Passer domesticus, Serinus canaria, Sturnus vulgaris, Taeniopygia guttata, Zonotrichia albicollis, Zosterops hypoxanthus). Reference: Mueller RC, Mallig N, Smith J et al. Avian Immunome DB: an example of a user-friendly interface for extracting genetic information. BMC Bioinformatics 2020;21:1–16.. Table S22: Gene expression data. RT-qPCR Cp values for individual genes investigated; E1-3 = experiment 1-3.
DOI: 10.6084/m9.figshare.21586329
title: Prognosis of Sentinel Lymph Node Dissection Alone vs. Axillary Lymph Node Dissection in Early-Stage Metaplastic Carcinoma of Breast

description: None
DOI: 10.6084/m9.figshare.21586329.v1
title: Prognosis of Sentinel Lymph Node Dissection Alone vs. Axillary Lymph Node Dissection in Early-Stage Metaplastic Carcinoma of Breast

description: None
DOI: 10.15151/esrf-es-925342259
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from iRTSV/CEA (Grenoble), CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2329 proposal and can be grouped in different topics as follows: host-pathogen interaction, new drug targets, fundamental cellular mechanisms, membrane proteins, intrinsically disordered proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, SAXS, NMR (and cryo-EM), together with other biophysical studies) with the aim to fully understand the complexity of the biological macromolecular systems on study. Some teams are dedicated to serial crystallography and its developments, for which the ESRF-EBS has become the perfect tool.
DOI: 10.15151/esrf-es-925343611
title: The Netherlands BAG

description: The Netherlands BAG includes groups situated at five Dutch universities (Utrecht, Groningen, Amsterdam, Wageningen and Eindhoven) and at the Netherlands Cancer Institute in Amsterdam, with a total of twelve PIs. The structural biology research carried out in these groups is highly diverse, including prokaryotic and eukaryotic proteins with a strong focus on targets and processes of biomedical relevance. Central to many projects are protein receptors and their interactions with other proteins and with small molecule modulators. An additional major research area concerns structure-based protein engineering and design aiming at the characterization and engineering of new enzymes for green chemistry and new-to-nature reactions. Projects deal with membrane and soluble proteins, cell surface receptors, and protein-protein, protein-ribonucleotide, protein-drug and enzyme-ligand complexes.
DOI: 10.15151/esrf-es-925653639
title: Development of novel small molecules to target cellular pathways

description: Small molecules represent powerful tools to dissect physiological and pathological states of signaling pathways, yet require characterization through X-ray crystallography. This proposal encompasses the investigation of new classes of small molecules that target difficult proteins and non-typical binding sites. This includes the development of supramolecular compounds or cyclic peptides to address “non-druggable" proteins. The main collaborative research fields are tackling Ras protein signaling with structure-guided ligand design, developing inhibitors of the Ras-binding protein PDEd, screening of a novel sp3-enriched fragment library or targeting genetic regulators. Cellular signaling will also be addressed through the structural analysis of deubiquitinating enzymes or regulators of the kinetochore. Finally, we plan to crystallize membrane proteins including GPCRs in order to understand their biological function, characterize their ligand specificity and develop novel regulators.
DOI: 10.15151/esrf-es-953232571
title: Robust Metal-Organic Frameworks for Efficient Ammonia Storage

description: To meet the global carbon neutral goals, the demand for clean energy and low carbon footprint industrial processes is growing rapidly. There is particular interest on development of NH3 stores as reversible hydrogen source due to its excellent gravimetric/volumetric hydrogen density. We seek to develop novel ammonia storage systems and request 4 days on ID22 to study the preferred binding sites and locations of adsorbed gas molecules within three porous Cu-MOFs (MFM-100, MFM-101 and MFM-102). The high resolution and in situ gas loading apparatus of ID22 make it ideal for analysing the phase transition, dynamic behaviour and host-guest interactions associated with these processes in these porous MOFs as demonstrated by our recent research collaborations with ID22 scientists. This proposal will provide key structural information on how NH3 are captured and stabilised within the pores of these porous MOFs.
DOI: 10.6084/m9.figshare.19348058
title: Pseudomized Twitter data- Origin and Destination Attachment indexes and Profile information

description: For more details, please refer to the following work: <br> <strong>Title:</strong> Origin and destination attachment: study of cultural integration on Twitter <br> Authors: Jisu Kim, Alina Sîrbu, Giulio Ressetti, Fosca Giannotti, and Hillel Rapoport <br> https://doi.org/10.1140/epjds/s13688-022-00363-5 <br> To cite: Kim, J., Sîrbu, A., Giannotti, F. <em>et al.</em> Origin and destination attachment: study of cultural integration on Twitter. <em>EPJ Data Sci.</em> <strong>11</strong>, 55 (2022). https://doi.org/10.1140/epjds/s13688-022-00363-5 <br> <br> <br> <br>
DOI: 10.6084/m9.figshare.19348058.v5
title: Pseudomized Twitter data- Origin and Destination Attachment indexes and Profile information

description: For more details, please refer to the following work: <br> <strong>Title:</strong> Origin and destination attachment: study of cultural integration on Twitter <br> Authors: Jisu Kim, Alina Sîrbu, Giulio Ressetti, Fosca Giannotti, and Hillel Rapoport <br> https://doi.org/10.1140/epjds/s13688-022-00363-5 <br> To cite: Kim, J., Sîrbu, A., Giannotti, F. <em>et al.</em> Origin and destination attachment: study of cultural integration on Twitter. <em>EPJ Data Sci.</em> <strong>11</strong>, 55 (2022). https://doi.org/10.1140/epjds/s13688-022-00363-5 <br> <br> <br> <br>
DOI: 10.5281/zenodo.7336856
title: In-depth study of the formation processes of single atmospheric particles in the southeastern margin of Tibetan Plateau

description: The Tibetan Plateau (TP) is the most sensitive and obvious indicator of climate change in the entire Asian continent, however, real-time observations on the characteristics of full aerosol compositions are still limited within the plateau, which hinders our comprehensively understanding of the distribution characteristics and formation mechanism of aerosols in high-altitude regions. In this study, a single particle aerosol mass spectrometer was deployed to investigate the highly time resolved chemical components and atmospheric processing on the size distribution and mixing state of individual particles in the southeastern margin of the TP during the pre-monsoon season.
DOI: 10.6084/m9.figshare.21399906.v1
title: cIAP1/TRAF2 interplay promotes tumor growth through the activation of STAT3

description: Raw Western blot data used in figures and Raw data of TRAF2 interactome
DOI: 10.6084/m9.figshare.21399906
title: cIAP1/TRAF2 interplay promotes tumor growth through the activation of STAT3

description: Raw Western blot data used in figures and Raw data of TRAF2 interactome
DOI: 10.5517/ccdc.csd.cc2djq0p
title: CCDC 2220592: Experimental Crystal Structure Determination

description: Related Article: José Carlos Netto-Ferreira|2022|CSD Communication|||
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.