cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8250364
title: dCK inhibition is synthetic lethal with BRCA2 deficiency

description: BRCA2 is a well-established cancer driver in several human malignancies. While the remarkable success of PARP inhibitors proved the clinical potential of targeting BRCA deficiencies, the emergence of resistance mechanisms underscores the importance of seeking novel Synthetic Lethal (SL) targets for future drug development efforts. In this work, we performed a BRCA2-centric SL screen with a collection of plant-derived compounds from South America. We identified the steroidal alkaloid Solanocapsine as a selective SL inducer, and we were able to substantially increase its potency by deriving multiple analogs. The use of two complementary chemoproteomic approaches led to the identification of the nucleotide salvage pathway enzyme deoxycytidine kinase (dCK) as Solanocapsine’s target responsible for its BRCA2-linked SL induction. Additional confirmatory evidence was obtained by using the highly specific dCK inhibitor (DI-87), which induces SL in multiple BRCA2-deficient and KO contexts. Interestingly, dCK-induced SL is mechanistically different from the one induced by PARP inhibitors. dCK inhibition generates substantially lower levels of DNA damage, and cytotoxic phenotypes are associated exclusively with mitosis, thus suggesting that the fine-tuning of nucleotide supply in mitosis is critical for the survival of BRCA2-deficient cells. Moreover, by using a xenograft model of contralateral tumors, we show that dCK impairment suffices to trigger SL in-vivo. Taken together, our findings unveil dCK as a promising new target for BRCA2-deficient cancers, thus setting the ground for future therapeutic alternatives to PARP inhibitors.
DOI: 10.5281/zenodo.8250363
title: dCK inhibition is synthetic lethal with BRCA2 deficiency

description: BRCA2 is a well-established cancer driver in several human malignancies. While the remarkable success of PARP inhibitors proved the clinical potential of targeting BRCA deficiencies, the emergence of resistance mechanisms underscores the importance of seeking novel Synthetic Lethal (SL) targets for future drug development efforts. In this work, we performed a BRCA2-centric SL screen with a collection of plant-derived compounds from South America. We identified the steroidal alkaloid Solanocapsine as a selective SL inducer, and we were able to substantially increase its potency by deriving multiple analogs. The use of two complementary chemoproteomic approaches led to the identification of the nucleotide salvage pathway enzyme deoxycytidine kinase (dCK) as Solanocapsine’s target responsible for its BRCA2-linked SL induction. Additional confirmatory evidence was obtained by using the highly specific dCK inhibitor (DI-87), which induces SL in multiple BRCA2-deficient and KO contexts. Interestingly, dCK-induced SL is mechanistically different from the one induced by PARP inhibitors. dCK inhibition generates substantially lower levels of DNA damage, and cytotoxic phenotypes are associated exclusively with mitosis, thus suggesting that the fine-tuning of nucleotide supply in mitosis is critical for the survival of BRCA2-deficient cells. Moreover, by using a xenograft model of contralateral tumors, we show that dCK impairment suffices to trigger SL in-vivo. Taken together, our findings unveil dCK as a promising new target for BRCA2-deficient cancers, thus setting the ground for future therapeutic alternatives to PARP inhibitors.
DOI: 10.5519/qd.homg9cfu
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (3899 records)
DOI: 10.5519/qd.umvcizge
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (6 records)
DOI: 10.5517/ccdc.csd.cc2090fs
title: CCDC 1855704: Experimental Crystal Structure Determination

description: Related Article: Roberto D’Amato, Anna Donnadio, Mariolino Carta, Claudio Sangregorio, Davide Tiana, Riccardo Vivani, Marco Taddei, Ferdinando Costantino|2018|ACS Sustain.Chem.Eng.|7|394|doi:10.1021/acssuschemeng.8b03765
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.cc2090gt
title: CCDC 1855705: Experimental Crystal Structure Determination

description: Related Article: Roberto D’Amato, Anna Donnadio, Mariolino Carta, Claudio Sangregorio, Davide Tiana, Riccardo Vivani, Marco Taddei, Ferdinando Costantino|2018|ACS Sustain.Chem.Eng.|7|394|doi:10.1021/acssuschemeng.8b03765
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: 10.5519/qd.c4i6say0
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5281/zenodo.6371848
title: Salinity of irrigation water selects distinct bacterial communities associated with Date palm (Phoenix dactylifera L.) root

description: Saline water irrigation has been used extensively in date palm (<em>Phoenix dactylifera </em>L.) agriculture as an alternative to non-saline freshwater due to water scarcity in hyper-arid environments. However, how saline water irrigation affects date palm root-associated bacterial communities is unknown. Here, we investigated the effect of irrigation sources (non-saline vs saline water) on date palm root-associated bacterial communities and their diversity using 16S rRNA gene metabarcoding. The bacterial richness, Shannon diversity and evenness didn’t differ significantly between the irrigation sources. Soil electrical conductivity (EC) and irrigation water pH were negatively related to Shannon diversity and evenness respectively, while soil organic matter displayed a positive correlation with Shannon diversity. Of total, 40.5% OTUs were unique to non-saline water irrigation and 26% to saline water irrigation. The multivariate analyses displayed strong structuring of bacterial communities according to irrigation sources, and both soil EC and irrigation water pH were the major factors affecting communities. The genera <em>Bacillus</em>, <em>Micromonospora</em> and <em>Mycobacterium</em> were dominated while saline water irrigation whereas contrasting pattern was observed for <em>Rhizobium</em>, <em>Streptomyces</em> and <em>Acidibacter</em>. This study suggests that while saline water irrigation date palm root select specific bacterial taxa, potentially playing a crucial role in alleviating salinity stress of the host.
DOI: 10.5281/zenodo.6078291
title: Salinity of irrigation water selects distinct bacterial communities associated with Date palm (Phoenix dactylifera L.) root

description: Saline water irrigation has been used extensively in date palm (<em>Phoenix dactylifera </em>L.) agriculture as an alternative to non-saline freshwater due to water scarcity in hyper-arid environments. However, how saline water irrigation affects date palm root-associated bacterial communities is unknown. Here, we investigated the effect of irrigation sources (non-saline vs saline water) on date palm root-associated bacterial communities and their diversity using 16S rRNA gene metabarcoding. The bacterial richness, Shannon diversity and evenness didn’t differ significantly between the irrigation sources. Soil electrical conductivity (EC) and irrigation water pH were negatively related to Shannon diversity and evenness respectively, while soil organic matter displayed a positive correlation with Shannon diversity. Of total, 40.5% OTUs were unique to non-saline water irrigation and 26% to saline water irrigation. The multivariate analyses displayed strong structuring of bacterial communities according to irrigation sources, and both soil EC and irrigation water pH were the major factors affecting communities. The genera <em>Bacillus</em>, <em>Micromonospora</em> and <em>Mycobacterium</em> were dominated while saline water irrigation whereas contrasting pattern was observed for <em>Rhizobium</em>, <em>Streptomyces</em> and <em>Acidibacter</em>. This study suggests that while saline water irrigation date palm root select specific bacterial taxa, potentially playing a crucial role in alleviating salinity stress of the host.
DOI: 10.5281/zenodo.6333932
title: Dízi Fingering Dataset: Acoustic Impedance and Audio Spectra, with Sound Files

description: This database presents acoustic impedance spectra measured on a G-key Dízi (Chinese transverse flute): a total of 35 fingerings (both standard and alternative fingerings) for 24 semi-chromatic notes ranging from D5 to G7 (i.e. the instrument’s typical playing range), for both with the membrane attached and without. Accompanying each fingering entry is the sound recording and corresponding audio spectra. An interactive graphical version of this database is also presented at https://acoustics.sutd.edu.sg/dizi-impedance/ The impedance measurements (using the “three-microphone two-calibration” technique) were conducted at the Acoustics Lab, School of Physics, UNSW, Sydney Australia. The authors are grateful to John Smith and Joe Wolfe for hosting us. The acoustic impedance measurement hardware and software was developed by Paul Dickens and we used a version of the software subsequently modified by Noel Hanna.
DOI: 10.5281/zenodo.6333669
title: Dízi Fingering Dataset: Acoustic Impedance and Audio Spectra, with Sound Files

description: This database presents acoustic impedance spectra measured on a G-key Dízi (Chinese transverse flute): a total of 35 fingerings (both standard and alternative fingerings) for 24 semi-chromatic notes ranging from D5 to G7 (i.e. the instrument’s typical playing range), for both with the membrane attached and without. Accompanying each fingering entry is the sound recording and corresponding audio spectra. An interactive graphical version of this database is also presented at https://acoustics.sutd.edu.sg/dizi-impedance/ The impedance measurements (using the “three-microphone two-calibration” technique) were conducted at the Acoustics Lab, School of Physics, UNSW, Sydney Australia. The authors are grateful to John Smith and Joe Wolfe for hosting us. The acoustic impedance measurement hardware and software was developed by Paul Dickens and we used a version of the software subsequently modified by Noel Hanna.
DOI: 10.34820/fk2/xq7rtd/wbjpne
title: Data 1 Analisis Lambang - Lambang Kota Praja Indonesia.pdf

description: Lambang Kotapraja Pasca Kolonial
DOI: 10.34820/fk2/xq7rtd
title: Data 1 Analisis Lambang - Lambang Kota Praja Indonesia

description: Data ini adalah data visual aset dari lambang-lambang kota yang diberikan otonomi (kotapraja) oleh pemerintah Hindia Belanda dan diberikan lambang sebagai identitas kota. Lambang-lambang ini digunakan dalam kegiatan pemerintahan dalam kurun waktu tahun 1905-1942.
DOI: 10.6084/m9.figshare.19389995.v1
title: Acinetobacter baumannii outer membrane protein A induces pulmonary epithelial barrier dysfunction and bacterial translocation through the TLR2/IQGAP1 axis

description: Supplementary materialsFigure S1Figure S2
DOI: 10.6084/m9.figshare.19389995
title: Acinetobacter baumannii outer membrane protein A induces pulmonary epithelial barrier dysfunction and bacterial translocation through the TLR2/IQGAP1 axis

description: Supplementary materialsFigure S1Figure S2
DOI: 10.18112/openneuro.ds002034.v1.0.2
title: Real-time EEG feedback on alpha power lateralization leads to behavioral improvements in a covert attention task
DOI: 10.25345/c5b853m8f
title: MassIVE Reanalysis RMSV000000619.1 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of MSV000088554/PXD026440 A Comparative Study of Human Testes and Epididymis through the Proteomics and RNA-seq Methods [BioReplicate: Epididymis_Rep1_SolutionB]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.6084/m9.figshare.19390340.v1
title: Supplementary Material for: Morphologic Mapping of the Sublingual Microcirculation in Healthy Volunteers

description: <b><i>Purpose:</i></b> Monitoring the sublingual and oral microcirculation (SM-OM) using hand-held vital microscopes (HVMs) has provided valuable insight into the (patho)physiology of diseases. However, the microvascular anatomy in a healthy population has not been adequately described yet. <b><i>Methods:</i></b> Incident dark field-based HVM imaging was used to visualize the SM-OM. First, the SM was divided into four different fields; Field-a (between incisors-lingua), Field-b (between the canine-first premolar-lingua), Field-c (between the first-second premolar-lingua), Field-d (between the second molar-wisdom teeth-lingua). Second, we investigated the buccal area, lower and upper lip. Total/functional vessel density (TVD/FCD), focus depth (FD), small vessel mean diameters (SVMDs), and capillary tortuosity score (CTS) were compared between the areas. <b><i>Results:</i></b> Fifteen volunteers with a mean age of 29 ± 6 years were enrolled. No statistical difference was found between the sublingual fields in terms of TVD (<i>p</i> = 0.30), FCD (<i>p</i> = 0.38), and FD (<i>p</i> = 0.09). SVMD was similar in Field-a, Field-b, and Field-c (<i>p</i> = 0.20–0.30), and larger in Field-d (<i>p</i> &lt; 0.01, <i>p</i> = 0.015). The CTS of the buccal area was higher than in the lips. <b><i>Conclusion:</i></b> The sublingual area has a homogenous distribution in TVD, FCD, FD, and SVMD. This study can be a description of the normal microvascular anatomy for future researches regarding microcirculatory assessment.
DOI: 10.6084/m9.figshare.19390340
title: Supplementary Material for: Morphologic Mapping of the Sublingual Microcirculation in Healthy Volunteers

description: <b><i>Purpose:</i></b> Monitoring the sublingual and oral microcirculation (SM-OM) using hand-held vital microscopes (HVMs) has provided valuable insight into the (patho)physiology of diseases. However, the microvascular anatomy in a healthy population has not been adequately described yet. <b><i>Methods:</i></b> Incident dark field-based HVM imaging was used to visualize the SM-OM. First, the SM was divided into four different fields; Field-a (between incisors-lingua), Field-b (between the canine-first premolar-lingua), Field-c (between the first-second premolar-lingua), Field-d (between the second molar-wisdom teeth-lingua). Second, we investigated the buccal area, lower and upper lip. Total/functional vessel density (TVD/FCD), focus depth (FD), small vessel mean diameters (SVMDs), and capillary tortuosity score (CTS) were compared between the areas. <b><i>Results:</i></b> Fifteen volunteers with a mean age of 29 ± 6 years were enrolled. No statistical difference was found between the sublingual fields in terms of TVD (<i>p</i> = 0.30), FCD (<i>p</i> = 0.38), and FD (<i>p</i> = 0.09). SVMD was similar in Field-a, Field-b, and Field-c (<i>p</i> = 0.20–0.30), and larger in Field-d (<i>p</i> &lt; 0.01, <i>p</i> = 0.015). The CTS of the buccal area was higher than in the lips. <b><i>Conclusion:</i></b> The sublingual area has a homogenous distribution in TVD, FCD, FD, and SVMD. This study can be a description of the normal microvascular anatomy for future researches regarding microcirculatory assessment.
DOI: 10.21227/n6x3-jn84
title: Silhouette-based 3D Human Pose Estimation Using a Single Wrist-mounted 360° Camera

description: In this paper, we propose a framework for 3D human pose estimation using a single 360° camera mounted on the user's wrist. Perceiving a 3D human pose with such a simple setup has remarkable potential for various applications (e.g., daily-living activity monitoring, motion analysis for sports training). However, no existing method has tackled this task due to the difficulty of estimating a human pose from a single camera image in which only a part of the human body is captured, and because of a lack of training data. We propose a method for translating wrist-mounted 360° camera images into 3D human poses. Since we are the first to try this task, we cannot use existing datasets. To address this issue, we use synthetic data to build our own dataset. This solution, however, creates a different problem, that of a domain gap between synthetic data for training and real image data for inference. To resolve this problem, we propose silhouette-based synthetic data generation created for this task. Extensive experiments comparing our method with several baseline methods demonstrated the effectiveness of our silhouette-based pose estimation approach.
DOI: 10.6084/m9.figshare.19390490
title: Source data_JNI.xlsx

description: Source data
DOI: 10.6084/m9.figshare.19390490.v1
title: Source data_JNI.xlsx

description: Source data
DOI: 10.5281/zenodo.6369728
title: Time-resolved ARPES RAW data of bulk WSe2 for a quantitative comparison of time-of-flight momentum microscopes and hemispherical analyzers: RAW MM data

description: Time- and angle-resolved photoemission spectroscopy data of bulk WSe2 using a laser-based XUV source and a time-of-flight momentum microscope analyzer. The dataset here comprises part of the machine RAW data used to construct the processed data stored in the datasets at <pre>https://doi.org/10.5281/zenodo.4067968</pre> Analysis scripts and conversion tools into NeXus format can be found at https://github.com/nomad-coe/nomad-parser-nexus/tree/master/tests/data/tools/dataconverter/readers/mpes
DOI: 10.5281/zenodo.6369727
title: Time-resolved ARPES RAW data of bulk WSe2 for a quantitative comparison of time-of-flight momentum microscopes and hemispherical analyzers: RAW MM data

description: Time- and angle-resolved photoemission spectroscopy data of bulk WSe2 using a laser-based XUV source and a time-of-flight momentum microscope analyzer. The dataset here comprises part of the machine RAW data used to construct the processed data stored in the datasets at <pre>https://doi.org/10.5281/zenodo.4067968</pre> Analysis scripts and conversion tools into NeXus format can be found at https://github.com/nomad-coe/nomad-parser-nexus/tree/master/tests/data/tools/dataconverter/readers/mpes
DOI: 10.6084/m9.figshare.19390472
title: Genetic Breeding Simulation Datasets

description: Genetic breeding simulation analysis based on salmon data.
DOI: 10.6084/m9.figshare.19390472.v1
title: Genetic Breeding Simulation Datasets

description: Genetic breeding simulation analysis based on salmon data.
DOI: 10.6084/m9.figshare.19388687
title: GeneticStructure_Kinship_GWAS_GS_GM_ExampleDataset

description: Datasets are come from Aquaculture Molecular Breeding Platform (AMBP) , and used to conduct Population characterizing and Genetic breeding analysis.<br>
DOI: 10.6084/m9.figshare.19388687.v1
title: GeneticStructure_Kinship_GWAS_GS_GM_ExampleDataset

description: Datasets are come from Aquaculture Molecular Breeding Platform (AMBP) , and used to conduct Population characterizing and Genetic breeding analysis.<br>
DOI: 10.34740/kaggle/dsv/3333170
title: Polish-Ukrainian translations from Tatoeba
DOI: 10.48370/ofd/l4apvv/97ui0c
title: Aulonothroscus laticollis.jpg

description: :unav
DOI: 10.48370/ofd/l4apvv
title: Aulonothroscus laticollis (Rybiński, 1897), C-566

description: Coleoptera collection
DOI: 10.6084/m9.figshare.19175507
title: Supplementary Material for: Brain cancer cell-derived matrices and effects on astrocyte migration

description: Cell-derived matrices are useful tools for studying the extracellular matrix (ECM) of different cell types and testing the effects on cell migration or wound repair. These matrices typically are generated using extended culture with ascorbic acid to boost ECM production. Applying this technique to cancer cell cultures could advance the study of cancer ECM and its effects on recruitment and training of the tumor microenvironment, but ascorbic acid is potently cytotoxic to cancer cells. Macromolecular crowding agents can also be added to increase matrix deposition based on the excluded volume principle. We report the use of macromolecular crowding (MMC) alone as an effective strategy to generate brain cancer cell-derived matrices for downstream analyses and cell migration studies. We cultured the mouse glioblastoma cell line GL261 for 1 week in the presence of three previously-reported MMC agents (carrageenan, Ficoll 70/400, and hyaluronic acid). We measured the resulting deposition of collagens and sulfated glycosaminoglycans using quantitative assays, as well as other matrix components by immunostaining. Both carrageenan and Ficoll promoted significantly more accumulation of total collagen content, sulfated glycosaminoglycan content, and fibronectin staining. Only Ficoll, however, also demonstrated a significant increase in collagen I staining. The results were more variable in 3D spheroid culture. We focused on Ficoll MMC matrices, which were isolated using the small molecule Raptinal to induce cancer cell apoptosis and matrix decellularization. The cancer cell-derived matrix promoted significantly faster migration of human astrocytes in a scratch wound assay, which may be explained by focal adhesion morphology and an increase in cellular metabolic activity. Ultimately, these data show MMC culture is a useful technique to generate cancer cell-derived matrices and study the effects on stromal cell migration related to wound repair.
DOI: 10.6084/m9.figshare.19175507.v1
title: Supplementary Material for: Brain cancer cell-derived matrices and effects on astrocyte migration

description: Cell-derived matrices are useful tools for studying the extracellular matrix (ECM) of different cell types and testing the effects on cell migration or wound repair. These matrices typically are generated using extended culture with ascorbic acid to boost ECM production. Applying this technique to cancer cell cultures could advance the study of cancer ECM and its effects on recruitment and training of the tumor microenvironment, but ascorbic acid is potently cytotoxic to cancer cells. Macromolecular crowding agents can also be added to increase matrix deposition based on the excluded volume principle. We report the use of macromolecular crowding (MMC) alone as an effective strategy to generate brain cancer cell-derived matrices for downstream analyses and cell migration studies. We cultured the mouse glioblastoma cell line GL261 for 1 week in the presence of three previously-reported MMC agents (carrageenan, Ficoll 70/400, and hyaluronic acid). We measured the resulting deposition of collagens and sulfated glycosaminoglycans using quantitative assays, as well as other matrix components by immunostaining. Both carrageenan and Ficoll promoted significantly more accumulation of total collagen content, sulfated glycosaminoglycan content, and fibronectin staining. Only Ficoll, however, also demonstrated a significant increase in collagen I staining. The results were more variable in 3D spheroid culture. We focused on Ficoll MMC matrices, which were isolated using the small molecule Raptinal to induce cancer cell apoptosis and matrix decellularization. The cancer cell-derived matrix promoted significantly faster migration of human astrocytes in a scratch wound assay, which may be explained by focal adhesion morphology and an increase in cellular metabolic activity. Ultimately, these data show MMC culture is a useful technique to generate cancer cell-derived matrices and study the effects on stromal cell migration related to wound repair.