cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14485004.v1
title: Clinical characteristics and outcomes of infective endocarditis: impact of haemodialysis status, especially vascular access infection on short-term mortality

description: Patients on haemodialysis (HD) are at high risk of infective endocarditis (IE). Research comparing the microbiological features as well as clinical characteristics and outcomes of HD and non-HD patients with IE is limited. Specifically, no data focussed on vascular access infections (VAIs) have been reported. The medical records of patients with IE were retrospectively reviewed from January 2010 to February 2020 in a referral hospital in Korea. Those with definite or possible IE by modified Duke criteria were included in the study. The clinical characteristics, microbiological features, echocardiographic findings and outcomes of the patients were analysed. Of the 80 patients with IE, 34 had undergone HD and 46 had not. HD patients with IE had a higher in-hospital mortality rate (50% vs. 17.4%, <i>p</i> = .004) than non-HD patients. In multivariable stepwise Cox proportional hazards regression analysis, HD (hazard ratio = 2.633; 95% confidential interval: 1.053–6.582; <i>p</i> = .038) was predictors of 60-day mortality in IE patients. In HD patients, the presence of VAI was associated with a high in-hospital mortality rate (70.59% vs. 29.41%, <i>p</i> = .039) and all of the patients with VAIs (100%) had methicillin-resistant <i>S. aureus</i> (MRSA) as a causative pathogen. HD patients with IE showed high in-hospital mortality. HD, high C-reactive protein levels and lower left ventricular ejection fraction were predictors of 60-day mortality in IE patients. In particular, HD patients with VAIs had higher mortality rates and MRSA should be considered as the causative microorganism.
DOI: 10.6084/m9.figshare.11863569
title: Additional file 8 of A 14-bp insertion in endothelin receptor B-like (EDNRB2) is associated with white plumage in Chinese geese

description: Additional file 8: Table S1.
DOI: 10.6084/m9.figshare.11863569.v1
title: Additional file 8 of A 14-bp insertion in endothelin receptor B-like (EDNRB2) is associated with white plumage in Chinese geese

description: Additional file 8: Table S1.
DOI: 10.6084/m9.figshare.11863578
title: Additional file 9 of A 14-bp insertion in endothelin receptor B-like (EDNRB2) is associated with white plumage in Chinese geese

description: Additional file 9: Table S2.
DOI: 10.6084/m9.figshare.11863578.v1
title: Additional file 9 of A 14-bp insertion in endothelin receptor B-like (EDNRB2) is associated with white plumage in Chinese geese

description: Additional file 9: Table S2.
DOI: 10.6084/m9.figshare.11339309
title: MOESM2 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 2. M. smegmatis DEG data sets.
DOI: 10.6084/m9.figshare.11339309.v1
title: MOESM2 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 2. M. smegmatis DEG data sets.
DOI: 10.6084/m9.figshare.11339312
title: MOESM3 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 3. DAVID gene ontology results from significant DEGs.
DOI: 10.6084/m9.figshare.11339312.v1
title: MOESM3 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 3. DAVID gene ontology results from significant DEGs.
DOI: 10.6084/m9.figshare.11339318
title: MOESM4 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 4. DosR regulon DEG and comparison of genes betweeen M. smegmatis and M. tuberculosis.
DOI: 10.6084/m9.figshare.11339318.v1
title: MOESM4 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional file 4. DosR regulon DEG and comparison of genes betweeen M. smegmatis and M. tuberculosis.
DOI: 10.6084/m9.figshare.12912191
title: Metadata record for the manuscript: Predicting breast cancer response to neoadjuvant treatment using multi-feature MRI: results from the I-SPY 2 TRIAL

description: <b>Summary<br></b>This metadata record provides details of the data supporting the claims of the related manuscript: “Predicting breast cancer response to neoadjuvant treatment using multi-feature MRI: results from the I-SPY 2 TRIAL” The data consist of original acquired and derived MRI DICOM data and an Excel spreadsheet. The related study investigated whether the predictive performance of MRI can be improved over functional tumor volume (FTV) or any single feature alone by using a combination of features measured on dynamic contrast-enhanced MRI (DCE-MRI).<b><br></b><b>Data access</b>The datasets generated during and/or analysed during the current study are as follows: the original acquired and derived MRI DICOM data, under the title "I-SPY2 MRI Collection", and an Excel file called “Multi-feature MRI NACT DATA.xlsx”. These will be deposited and be publicly available in NCI The Cancer Imaging Archive (TCIA): https://www.cancerimagingarchive.net/. However, due to technical limitations with the deposition and curation of the data, their release date is anticipated to be late 2020. Please contact the corresponding author with data queries.<br><b>Corresponding author</b>Professor Nola Hylton, nola.hylton@ucsf.edu<br><b>Name of Institutional Review Board or ethics committee that approved the study</b>All participating sites received approval from their institutional review board.
DOI: 10.6084/m9.figshare.12912191.v1
title: Metadata record for the manuscript: Predicting breast cancer response to neoadjuvant treatment using multi-feature MRI: results from the I-SPY 2 TRIAL

description: <b>Summary<br></b>This metadata record provides details of the data supporting the claims of the related manuscript: “Predicting breast cancer response to neoadjuvant treatment using multi-feature MRI: results from the I-SPY 2 TRIAL” The data consist of original acquired and derived MRI DICOM data and an Excel spreadsheet. The related study investigated whether the predictive performance of MRI can be improved over functional tumor volume (FTV) or any single feature alone by using a combination of features measured on dynamic contrast-enhanced MRI (DCE-MRI).<b><br></b><b>Data access</b>The datasets generated during and/or analysed during the current study are as follows: the original acquired and derived MRI DICOM data, under the title "I-SPY2 MRI Collection", and an Excel file called “Multi-feature MRI NACT DATA.xlsx”. These will be deposited and be publicly available in NCI The Cancer Imaging Archive (TCIA): https://www.cancerimagingarchive.net/. However, due to technical limitations with the deposition and curation of the data, their release date is anticipated to be late 2020. Please contact the corresponding author with data queries.<br><b>Corresponding author</b>Professor Nola Hylton, nola.hylton@ucsf.edu<br><b>Name of Institutional Review Board or ethics committee that approved the study</b>All participating sites received approval from their institutional review board.
DOI: 10.6084/m9.figshare.11339327
title: MOESM6 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional fileÂ 6. DAVID gene ontology results from overlapping DEGs between mc2155 vs. FDL10 and FDL15 vs. FDL10 data sets.
DOI: 10.6084/m9.figshare.11339327.v1
title: MOESM6 of Comparative transcriptomics reveals PrrAB-mediated control of metabolic, respiration, energy-generating, and dormancy pathways in Mycobacterium smegmatis

description: Additional fileÂ 6. DAVID gene ontology results from overlapping DEGs between mc2155 vs. FDL10 and FDL15 vs. FDL10 data sets.
DOI: 10.6084/m9.figshare.21300828
title: The values for the proxy variable estimated for poultry trade flows among 318 prefecture-level cities in mainland China

description: The dataset presents values for a proxy variable for poultry trade flows among 318 prefecture-level mainland China cities, estimated with modified radiation model.
DOI: 10.6084/m9.figshare.21300828.v1
title: The values for the proxy variable estimated for poultry trade flows among 318 prefecture-level cities in mainland China

description: The dataset presents values for a proxy variable for poultry trade flows among 318 prefecture-level mainland China cities, estimated with modified radiation model.
DOI: 10.6084/m9.figshare.21300831
title: The production and consumption of prefecture-level cities in mainland China 2015

description: The dataset presents the production and consumption of 318 prefecture-level cities in mainland China in 2015.
DOI: 10.6084/m9.figshare.21300831.v1
title: The production and consumption of prefecture-level cities in mainland China 2015

description: The dataset presents the production and consumption of 318 prefecture-level cities in mainland China in 2015.
DOI: 10.6084/m9.figshare.11863698
title: Additional file 12 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 12: Table S8. Summary of the comparison of known and novel miRNAs between the control and salt libraries in sweet potato.
DOI: 10.6084/m9.figshare.11863698.v1
title: Additional file 12 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 12: Table S8. Summary of the comparison of known and novel miRNAs between the control and salt libraries in sweet potato.
DOI: 10.6084/m9.figshare.11863701
title: Additional file 13 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 13: Table S9. Known and novel miRNA targets identified by degradome sequencing.
DOI: 10.6084/m9.figshare.11863701.v1
title: Additional file 13 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 13: Table S9. Known and novel miRNA targets identified by degradome sequencing.
DOI: 10.6084/m9.figshare.11863704
title: Additional file 14 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 14: Table S10. CleaveL and pipeline category of degradome.
DOI: 10.6084/m9.figshare.11863704.v1
title: Additional file 14 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 14: Table S10. CleaveL and pipeline category of degradome.
DOI: 10.6084/m9.figshare.19728029
title: Additional file 1 of Quantitative proteomic analysis of cerebrospinal fluid reveals CD163, A2M and full-length APP as potential diagnostic biomarkers of paediatric bacterial meningitis

description: Additional file 1: Table S1.
DOI: 10.6084/m9.figshare.19728029.v1
title: Additional file 1 of Quantitative proteomic analysis of cerebrospinal fluid reveals CD163, A2M and full-length APP as potential diagnostic biomarkers of paediatric bacterial meningitis

description: Additional file 1: Table S1.
DOI: 10.6084/m9.figshare.11863710
title: Additional file 15 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 15: Table S11. Target prediction results of the differentially expressed miRNAs between sweet potato DSN and DSC degradome libraries. (XLS 30 kb)
DOI: 10.6084/m9.figshare.11863710.v1
title: Additional file 15 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 15: Table S11. Target prediction results of the differentially expressed miRNAs between sweet potato DSN and DSC degradome libraries. (XLS 30 kb)
DOI: 10.6084/m9.figshare.11863713
title: Additional file 16 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 16: Table S12. Targets of salt-responsive differentially expressed miRNAs.
DOI: 10.6084/m9.figshare.11863713.v1
title: Additional file 16 of High-throughput deep sequencing reveals the important role that microRNAs play in the salt response in sweet potato (Ipomoea batatas L.)

description: Additional file 16: Table S12. Targets of salt-responsive differentially expressed miRNAs.
DOI: 10.6084/m9.figshare.19728026
title: Additional file 1 of Tetraspanin 7 promotes osteosarcoma cell invasion and metastasis by inducing EMT and activating the FAK-Src-Ras-ERK1/2 signaling pathway

description: Additional file 1: Identification of Tspan7-interacting proteins by mass spectrometry.
DOI: 10.6084/m9.figshare.19728026.v1
title: Additional file 1 of Tetraspanin 7 promotes osteosarcoma cell invasion and metastasis by inducing EMT and activating the FAK-Src-Ras-ERK1/2 signaling pathway

description: Additional file 1: Identification of Tspan7-interacting proteins by mass spectrometry.
DOI: 10.5281/zenodo.10677493
title: Dataset related to article "Cholangiocarcinoma-on-a-chip: A human 3D platform for personalised medicine"

description: This record contains raw data related to article “Cholangiocarcinoma-on-a-chip: A human 3D platform for personalised medicine"

Abstract



 Background & aims:  Cholangiocarcinoma (CCA) is a primary liver tumour characterised by a poor prognosis and limited therapeutic options. Available 3D human CCA models fail to faithfully recapitulate the tumour niche. We aimed to develop an innovative patient-specific CCA-on-chip platform.

 Methods:  A CCA tumour microenvironment was recapitulated on a microfluidic three-channel chip using primary CCA cells, cancer-associated fibroblasts (CAFs), endothelial cells, and T cells isolated from CCA specimens (n = 6). CAF and CCA cells were co-cultured in the central channel, flanked by endothelial cells in one lateral channel, recreating a tubular structure. An extensive characterisation of this platform was carried out to investigate its diffusion ability, hydrogel properties, and changes in matrix composition. Cell phenotype and functional properties were assessed.

 Results:  Primary cells seeded on the microfluidic device were shown to reproduce the architectural structure and maintain the original phenotype and functional properties. The tumour niche underwent a deep remodelling in the 3D device, with an increase in hydrogel stiffness and extracellular matrix deposition, mimicking in vivo CCA characteristics. T cells were incorporated into the device to assess its reliability for immune cell interaction studies. Higher T cell migration was observed using cells from patients with highly infiltrated tumours. Finally, the drug trial showed the ability of the device to recapitulate different drug responses based on patient characteristics.

 Conclusions:  We presented a 3D CCA platform that integrates the major non-immune components of the tumour microenvironment and the T cell infiltrate, reflecting the CCA niche. This CCA-on-chip represents a reliable patient-specific 3D platform that will be of help to further elucidate the biological mechanisms involved in CCA and provide an efficient tool for personalised drug testing.

 Impact and implications:  An innovative patient-specific cholangiocarcinoma (CCA)-on-chip platform was successfully developed, integrating the major components of the tumour microenvironment (tumour cells, cancer-associated fibroblasts, endothelial cells, and immune infiltrate) and faithfully mimicking the CCA niche. This CCA-on-chip represents a powerful tool for unravelling disease-associated cellular mechanisms in CCA and provides an efficient tool for personalised drug testing.
DOI: 10.17632/37hn87t2rb.1
title: Data for: The soft path revisited: Quantifying the spatial dispersion of electric power generators in the contiguous U.S.

description: These are cleaned, compiled, and geocoded datasets of publicly available EIA-860 data for 2001-2018. Original data is found here: https://www.eia.gov/electricity/data/eia860/
DOI: 10.17632/xfnfgb52wf.1
title: Data for: Stable isotope analysis of the Gwebin mammalian fauna (late Pliocene, central Myanmar) and its implication to paleoenvironmental changes in late Neogene of central Myanmar

description: Isotopic composition of treated samples was measured on a Gasbench II coupled to a Finnigan Delta V Mass Spectrometer at the University of South Florida. The CO2 samples were run in continuous flow mode after reaction with 103% phosphoric acid (100% H3PO4 with excess P2O5) at 25 °C for 24 hours (McCrea, 1950). Seven replicate samples of Carrara Marble (an internal standard which has been assigned a value of δ13C=+2.01‰, δ18O=−1.79‰, based on analysis with respect to NBS-19, δ13C=+1.95‰, δ18O=−2.20‰) and NBS-18 carbonatite (13C=−5.04‰, δ18O=−23.05‰, NIST, 1992) were analyzed in each run of 60 samples. Standard deviation of replicate analyses for both isotope values was 0.15‰. Stable isotope data were reported in the conventional delta () notation for carbon (13C) and oxygen (18O) relative to V-PDB (Vienna-Pee Dee Belemnite, i.e., PDB expressed in terms of NBS-19): =[(R sample/R standard)−1]×1000‰, where R denotes 13C/12C or 18O/16O. The statistical analyses were carried out using PAST (version 3.20).
DOI: 10.5281/zenodo.5048475
title: CoVaxxy Tweet IDs data set

description: A collection of Tweet IDs related to Covid-19 Vaccines, gathered from Twitter since Jan 4, 2021. Please see https://arxiv.org/abs/2101.07694 for more information.
DOI: 10.5517/ccdc.csd.cc273l0z
title: CCDC 2059020: Experimental Crystal Structure Determination

description: Related Article: Viktoria K. Muravieva, Ivan P. Loginov, Taisiya S. Sukhikh, Maxim R. Ryzhikov, Vadim V. Yanshole, Vladimir A. Nadolinny, Vincent Dorcet, Stéphane Cordier, Nikolay G. Naumov|2021|Inorg.Chem.|60|8838|doi:10.1021/acs.inorgchem.1c00763
DOI: 10.5517/ccdc.csd.cc273l10
title: CCDC 2059021: Experimental Crystal Structure Determination

description: Related Article: Viktoria K. Muravieva, Ivan P. Loginov, Taisiya S. Sukhikh, Maxim R. Ryzhikov, Vadim V. Yanshole, Vladimir A. Nadolinny, Vincent Dorcet, Stéphane Cordier, Nikolay G. Naumov|2021|Inorg.Chem.|60|8838|doi:10.1021/acs.inorgchem.1c00763
DOI: 10.5517/ccdc.csd.cc27sh3n
title: CCDC 2079111: Experimental Crystal Structure Determination

description: Related Article: Yasuyuki Numata, Yuri Nishikawa, Konan Inoue, Hiroaki Ohnishi, Shigeaki Konaka, Tomoharu Tanikawa, Daisuke Hashizume, Tsukasa Matsuo|2021|Organometallics|40|1956|doi:10.1021/acs.organomet.1c00255
DOI: 10.5517/ccdc.csd.cc27shbw
title: CCDC 2079118: Experimental Crystal Structure Determination

description: Related Article: Yasuyuki Numata, Yuri Nishikawa, Konan Inoue, Hiroaki Ohnishi, Shigeaki Konaka, Tomoharu Tanikawa, Daisuke Hashizume, Tsukasa Matsuo|2021|Organometallics|40|1956|doi:10.1021/acs.organomet.1c00255
DOI: 10.5517/ccdc.csd.cc27shdy
title: CCDC 2079120: Experimental Crystal Structure Determination

description: Related Article: Yasuyuki Numata, Yuri Nishikawa, Konan Inoue, Hiroaki Ohnishi, Shigeaki Konaka, Tomoharu Tanikawa, Daisuke Hashizume, Tsukasa Matsuo|2021|Organometallics|40|1956|doi:10.1021/acs.organomet.1c00255
DOI: 10.5517/ccdc.csd.cc27shwf
title: CCDC 2079135: Experimental Crystal Structure Determination

description: Related Article: Yasuyuki Numata, Yuri Nishikawa, Konan Inoue, Hiroaki Ohnishi, Shigeaki Konaka, Tomoharu Tanikawa, Daisuke Hashizume, Tsukasa Matsuo|2021|Organometallics|40|1956|doi:10.1021/acs.organomet.1c00255
DOI: 10.5523/bris.26hh9g6ktji7z2r5gxb2wqvjfq
title: GC-Q-ToF MS data for lipid residues from 40 archaeological samples excavated at Vindolanda (UK)

description: This data is part of the NERC-funded project entitled: 'Palaeolipidomics: a new biomarker approach to trace cereal agriculture in prehistory'. This data set was used to demonstrate the potential of a newly developed non-targeted workflow for processing and interpretation of GC-MS data from archaeological research.
DOI: 10.6084/m9.figshare.7581473
title: Datasets for "Excessive rainfall leads to maize yield loss of a comparable magnitude to extreme drought in the United States"

description: Updated on 2021/07/01 Add python codes for data processing of the NASS yield data, PRISM climate data, RMA insurance data, agmip yield simulation data, and related geospatial analysis-------------------This repository is for the datasets and codes for “Excessive rainfall leads to maize yield loss of a comparable magnitude to extreme drought in the United States” (Li et al. 2019 GCB). The datasets include maize yield, climate data, maize yield loss from crop insurance data in the US, etc. The datasets can reproduce the results of the paper and they can also be reused to explore other topics. Please cite Li et al (2019) or acknowledge this dataset (DOI: 10.6084/m9.figshare.7581473) when using it.
DOI: 10.5519/qd.bmj0qvkh
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (252 records)
DOI: 10.5519/qd.waglore3
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (365 records)
DOI: 10.6084/m9.figshare.14888895.v1
title: SMS_DS_Workflow.xlsx

description: Systematic Mapping Study results of the literature for data science workflow stages.
DOI: 10.6084/m9.figshare.14888895
title: SMS_DS_Workflow.xlsx

description: Systematic Mapping Study results of the literature for data science workflow stages.
DOI: 10.6084/m9.figshare.14888895.v3
title: SMS_DS_Workflow.xlsx

description: Systematic Mapping Study results of the literature for data science workflow stages.
DOI: 10.6084/m9.figshare.14888895.v2
title: SMS_DS_Workflow.xlsx

description: Systematic Mapping Study results of the literature for data science workflow stages.
DOI: 10.15468/ud8u88
title: Two new species of Indonemoura (Plecoptera: Nemouridae) from Fujian, China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Li, Weihai, Yang, Ding (2005): Two new species of Indonemoura (Plecoptera: Nemouridae) from Fujian, China. Zootaxa 1001 (1): 59-63, DOI: 10.11646/zootaxa.893.1.1, URL: http://biotaxa.org/Zootaxa/article/view/zootaxa.893.1.1
DOI: 10.15468/8ygps5
title: Encyocratella olivacea Strand, 1907, a senior synonym of Xenodendrophila gabrieli Gallon, 2003 (Araneae: Theraphosidae: Stromatopelminae) with a description of the male

description: This dataset contains the digitized treatments in Plazi based on the original journal article Gallon, Richard C. (2005): Encyocratella olivacea Strand, 1907, a senior synonym of Xenodendrophila gabrieli Gallon, 2003 (Araneae: Theraphosidae: Stromatopelminae) with a description of the male. Zootaxa 1003 (1): 45-56, DOI: 10.11646/zootaxa.1003.1.3, URL: https://biotaxa.org/Zootaxa/article/view/zootaxa.1003.1.3
DOI: 10.15468/nv2p5g
title: A new species of Stelletta (Demospongiae, Astrophorida) without microscleres from Abrolhos Archipelago, northeastern Brazil

description: This dataset contains the digitized treatments in Plazi based on the original journal article Esteves, Eduardo L., Muricy, Guilherme (2005): A new species of Stelletta (Demospongiae, Astrophorida) without microscleres from Abrolhos Archipelago, northeastern Brazil. Zootaxa 1006 (1): 43-52, DOI: 10.11646/zootaxa.1006.1.5, URL: https://biotaxa.org/Zootaxa/article/view/zootaxa.1006.1.5