cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12246227
title: Antibiotic resistant profile of asymptomatic bacteriuria in pregnant women: a systematic review and meta-analysis

description: Different microorganisms contribute in the pregnancy bacteriuria, which resistance microorganisms limited the therapeutic options for the treatment and increasing the related risks to pregnant women and their pregnancy. Based on this, asymptomatic bacteriuria and the use of inappropriate empirical antibiotics are dangerous in the emergence of pregnancy complications and the incidence of drug resistant. A comprehensive systematic search was performed on all international databases including Scopus, PubMed, Web of Science, Medline, Cochrane library during 2000 – June 2019. This meta-analysis, which was registered by a pre-defined protocol in PROSPRO, carried out in accordance with PRISMA guideline. Relevant articles were included in the analysis if reported the susceptibility pattern of antimicrobial resistance related to asymptomatic bacteria in pregnant women with no acute diseases. Overall prevalence and related 95% confidence interval for resistance in different asymptomatic infections were estimated by inverse variance method. The random effect model was used in case of considerable heterogeneity. Results of this analysis demonstrated different resistance rate against studied classes of antibiotics. Nitrofurantoin resistance in <i>E</i>. coli, Klebsiella sp, P. aeruginosa, and <i>Staphylococcus aureus</i> isolates were estimated 0.22 (95%CI: 0.15–0.30), 0.40 (95%CI: 0.26–0.54), 0.81 (95%CI: 0.59–0.97), 0.34 (0.11–0.63), respectively. Subgroups analysis showed highest resistance in <i>E. coli</i> isolates, in Asia and Africa against Cefotaxime and Ampicillin, respectively. In summary, increasing resistance rate in urinary tract infection (UTI)-related agents is a risk factor that endangers both mother and fetus. Health care providers should consider screening as the radical part of infection control strategies. Due to low resistance rate to Nitrofurantoin, this drug can be a good choice for UTI treatment in pregnancies, but it should use with caution
DOI: 10.6084/m9.figshare.12850436
title: Efflux pump inhibitors as a promising adjunct therapy against drug resistant tuberculosis: a new strategy to revisit mycobacterial targets and repurpose old drugs

description: <b>Introduction</b>: In 2018, an estimated 377,000 people developed multidrug-resistant tuberculosis (MDR-TB), urging for new effective treatments. In the last years, it has been accepted that efflux pumps play an important role in the evolution of drug resistance. Strategies are required to mitigate the consequences of the activity of efflux pumps. <b>Areas covered</b>: Based upon the literature available in PubMed, up to February 2020, on the diversity of efflux pumps in <i>Mycobacterium tuberculosis</i> and their association with drug resistance, studies that identified efflux inhibitors and their effect on restoring the activity of antimicrobials subjected to efflux are reviewed. These support a new strategy for the development of anti-TB drugs, including efflux inhibitors, using <i>in silico</i> drug repurposing. <b>Expert opinion</b>: The current literature highlights the contribution of efflux pumps in drug resistance in <i>M. tuberculosis</i> and that efflux inhibitors may help to ensure the effectiveness of anti-TB drugs. However, despite the usefulness of efflux inhibitors in <i>in vitro</i> studies, in most cases their application <i>in vivo</i> is restricted due to toxicity. In a time when new drugs are needed to fight MDR-TB and extensively drug-resistant TB, cost-effective strategies to identify safer efflux inhibitors should be implemented in drug discovery programs.
DOI: 10.6084/m9.figshare.12850436.v1
title: Efflux pump inhibitors as a promising adjunct therapy against drug resistant tuberculosis: a new strategy to revisit mycobacterial targets and repurpose old drugs

description: <b>Introduction</b>: In 2018, an estimated 377,000 people developed multidrug-resistant tuberculosis (MDR-TB), urging for new effective treatments. In the last years, it has been accepted that efflux pumps play an important role in the evolution of drug resistance. Strategies are required to mitigate the consequences of the activity of efflux pumps. <b>Areas covered</b>: Based upon the literature available in PubMed, up to February 2020, on the diversity of efflux pumps in <i>Mycobacterium tuberculosis</i> and their association with drug resistance, studies that identified efflux inhibitors and their effect on restoring the activity of antimicrobials subjected to efflux are reviewed. These support a new strategy for the development of anti-TB drugs, including efflux inhibitors, using <i>in silico</i> drug repurposing. <b>Expert opinion</b>: The current literature highlights the contribution of efflux pumps in drug resistance in <i>M. tuberculosis</i> and that efflux inhibitors may help to ensure the effectiveness of anti-TB drugs. However, despite the usefulness of efflux inhibitors in <i>in vitro</i> studies, in most cases their application <i>in vivo</i> is restricted due to toxicity. In a time when new drugs are needed to fight MDR-TB and extensively drug-resistant TB, cost-effective strategies to identify safer efflux inhibitors should be implemented in drug discovery programs.
DOI: 10.6084/m9.figshare.12159987.v1
title: Patent landscape of novel technologies for combating category-A Arenavirus infections

description: Arenavirus are unique category-A pathogens that are also classified as Orphan diseases. Very few options exist currently for treating Viral Hemorrhagic Fever (VHF) caused by viruses belonging to the Arenaviridae family [1]. The current review provides detailed patent landscape and a description of selected technologies developed for combating category-A <i>Arenavirus</i>. Currently, Arenavirus infections are epidemic [2] but could cause widespread pandemics due to ease of dissemination and lack of immunity against these viruses. The key strings for selected Arenavirus VHF were run separately in MCPaIRS®, PatSeer, and Questel database. The search was limited to Title, Abstract and Claim fields; one member per patent family was considered for analysis. Synthetic molecules dominate the patent landscape, while natural products have not been extensively claimed for the treatment of Arenavirus infection. The broad-spectrum activity has been highly desired for Arenavirus treatment, but few reports have experimentally tested it. With each year, a constant increase in number of patents published is seen, while the maximum number of applications was filed in 2017. The research in VHF is driven by public funds; the maximum numbers of patents were filed by publicly funded organizations.
DOI: 10.6084/m9.figshare.12159987
title: Patent landscape of novel technologies for combating category-A Arenavirus infections

description: Arenavirus are unique category-A pathogens that are also classified as Orphan diseases. Very few options exist currently for treating Viral Hemorrhagic Fever (VHF) caused by viruses belonging to the Arenaviridae family [1]. The current review provides detailed patent landscape and a description of selected technologies developed for combating category-A <i>Arenavirus</i>. Currently, Arenavirus infections are epidemic [2] but could cause widespread pandemics due to ease of dissemination and lack of immunity against these viruses. The key strings for selected Arenavirus VHF were run separately in MCPaIRS®, PatSeer, and Questel database. The search was limited to Title, Abstract and Claim fields; one member per patent family was considered for analysis. Synthetic molecules dominate the patent landscape, while natural products have not been extensively claimed for the treatment of Arenavirus infection. The broad-spectrum activity has been highly desired for Arenavirus treatment, but few reports have experimentally tested it. With each year, a constant increase in number of patents published is seen, while the maximum number of applications was filed in 2017. The research in VHF is driven by public funds; the maximum numbers of patents were filed by publicly funded organizations.
DOI: 10.6084/m9.figshare.14555604.v1
title: supplemtal file-2-symbol.txt

description: Gene expression profile datasets were obtained from TCGA web resource (https://portal.gdc.cancer.gov/) which served as training cohort.
DOI: 10.6084/m9.figshare.14555604
title: supplemtal file-2-symbol.txt

description: Gene expression profile datasets were obtained from TCGA web resource (https://portal.gdc.cancer.gov/) which served as training cohort.
DOI: 10.25345/c5gz41
title: MassIVE MSV000087384 - GNPS_Srigolactone_Hemp_exsudat-10-12_method_MS02_traite6
title: Research in hemp exudate of cannabis sativa strigolactone by MS/MS with various Strigolactone control and a blank in acetonitrile.
DOI: 10.6084/m9.figshare.13013377
title: Iron loading exerts synergistic action via a different mechanistic pathway from that of acetaminophen-induced hepatic injury in mice

description: Acetaminophen (APAP) overdose is a major cause of drug-induced acute liver failure. In such cases, free iron is released from lysosomes and is transported to mitochondria where it plays a pivotal role in APAP-induced liver injury. We previously reported that ascorbic acid (Asc) markedly mitigates APAP-induced hepatic damage in aldehyde reductase (Akr1a)-knockout (KO) mice that produce about 10% Asc as wild-type (WT) mice. However, the issue of the protective mechanism of Asc in association with the status of iron remains ambiguous. To gain additional insights into this issue, we examined effects of APAP (500 mg/kg) on female KO mice under conditions of iron loading. While the KO mice without AsA supplementation were more sensitive to APAP toxicity than the WT mice, FeSO<sub>4</sub> loading (25 mg/kg) to WT mice aggravated the hepatic injury, which was a similar extent to that of the KO mice. Supplementation of Asc (1.5 mg/ml in the drinking water) ameliorated KO mice irrespective of iron status but did not change the iron-mediated increase in the lethality in the WT mice. Hepatic cysteine and glutathione levels declined to similar extents in all mouse groups at 3 h irrespective of the iron status and largely recovered at 18 h after the APAP treatment when liver damage was evident. Asc prominently mitigated APAP toxicity in KO mice irrespective of the iron status but had no effect on the synergistic action of iron and APAP in the WT mice, suggesting that the mechanism for the deteriorating action of loaded iron is different from that of APAP toxicity.
DOI: 10.6084/m9.figshare.13013377.v1
title: Iron loading exerts synergistic action via a different mechanistic pathway from that of acetaminophen-induced hepatic injury in mice

description: Acetaminophen (APAP) overdose is a major cause of drug-induced acute liver failure. In such cases, free iron is released from lysosomes and is transported to mitochondria where it plays a pivotal role in APAP-induced liver injury. We previously reported that ascorbic acid (Asc) markedly mitigates APAP-induced hepatic damage in aldehyde reductase (Akr1a)-knockout (KO) mice that produce about 10% Asc as wild-type (WT) mice. However, the issue of the protective mechanism of Asc in association with the status of iron remains ambiguous. To gain additional insights into this issue, we examined effects of APAP (500 mg/kg) on female KO mice under conditions of iron loading. While the KO mice without AsA supplementation were more sensitive to APAP toxicity than the WT mice, FeSO<sub>4</sub> loading (25 mg/kg) to WT mice aggravated the hepatic injury, which was a similar extent to that of the KO mice. Supplementation of Asc (1.5 mg/ml in the drinking water) ameliorated KO mice irrespective of iron status but did not change the iron-mediated increase in the lethality in the WT mice. Hepatic cysteine and glutathione levels declined to similar extents in all mouse groups at 3 h irrespective of the iron status and largely recovered at 18 h after the APAP treatment when liver damage was evident. Asc prominently mitigated APAP toxicity in KO mice irrespective of the iron status but had no effect on the synergistic action of iron and APAP in the WT mice, suggesting that the mechanism for the deteriorating action of loaded iron is different from that of APAP toxicity.
DOI: 10.21227/3zek-xv94
title: chest-xray-pneumonia

description: Medical Symptoms are sometimes very tricky to analyse in real time as it takes time for example, first to detect the symptoms then to perform some tests and finally coming to a solution. This process can be eliminated and lot of time can be saved by introducing the concept of Deep learning. CNNs create a network for extracting the features of a given image in order to evaluate the image based on the conditions required. This property of the CNN is used as a certain advantage in order to detect the symptoms based on the type of X-ray images provided.
DOI: 10.5066/p9p1p7qv
title: Appendixes and Supplemental Data: Hydraulic Characterization of Carbonate-Rock and Basin-Fill Aquifers near Long Canyon, Goshute Valley, Northeastern Nevada, 2011-2016

description: This USGS data release presents data used to interpret aquifer tests and ultimately characterize the hydraulic properties of carbonate-rock and basin-fill aquifers near Long Canyon, Goshute Valley, northeastern Nevada. The supplemental data consist of 2 child items and 3 attached appendix datasets. The child items are: (1) 2011?2016 Single Well Aquifer Tests: Pumping Schedules, Water-Level Data in Aquifer Test Wells, and Analysis Results from Tests Conducted near Long Canyon, Goshute Valley, Northeastern Nevada, (tabular datasets, pdfs, and Excel workbooks), and (2) 2016 Carbonate-Rock Aquifer Test Data: Pumping Schedules, Water-Levels, Weather Data, Water-Level Models, and Hydrographs showing Drawdown and Rise Estimates in Long Canyon, Goshute Valley, Northeastern Nevada, (tabular datasets, pdfs, and Excel workbooks), and The appendix items are: (appendix 1) Site Location Information for Pumping Wells, Monitoring and Background Wells, Vibrating-Wire Piezometers, Springs, and Weather Stations, Long Canyon, Elko County, Northeastern Nevada, (appendix 2) Well Construction and Geologic Units Open to Pumping Wells, Monitoring Background Wells, and Vibrating-Wire Piezometers, Long Canyon, Elko County, Northeastern Nevada, and (appendix 3) Estimated Water-Level Drawdown and Rise in Monitoring Wells, Vibrating-Wire Piezometers, and Springs from Pumping in Wells LCW-6 and LCPW-1, Ditch Leakage, and Spring Supplementation Loss During the 2016 Carbonate-Rock Aquifer Test, July?September 2016.
DOI: 10.6084/m9.figshare.14555685
title: Temporal changes of local and regional processes in the assembly of herbivorous insect communities

description: Data of plant and herbivorous insect communities used in the manuscript "Temporal changes of local and regional processes in the assembly of herbivorous insect communities"
DOI: 10.6084/m9.figshare.11920539
title: Mapping the neuronal cytoskeleton using expansion microscopy

description: matlab code and example files for registration of STED/confocal to ExM<br>-----------------------------------version 2, updated:1) BigWarp groovy script, since parent class name of WrappedCoordinateTransform was changed in BigWarp, there was import error, now fixed.2) fixed matlab file p2.. for the export of deformations (rounding error removed).
DOI: 10.6084/m9.figshare.11920539.v1
title: Mapping the neuronal cytoskeleton using expansion microscopy

description: matlab code and example files for registration of STED/confocal to ExM
DOI: 10.5281/zenodo.4742566
title: Power traces, unprotected AES

description: We cloned the TinyAES implementation from this repository https://github.com/kokke/tiny-AES-c/ and loaded the firmware on an ARM Cortex M0, which was modified for the collection of traces.
DOI: 10.25345/c5c53s
title: MassIVE MSV000087385 - Protease activity profiling of ovarian clear cell carcinoma
title: Ovarian clear cell carcinoma (OCCC) is an understudied poor prognosis subtype of ovarian cancer lacking in effective molecularly targeted therapies; efforts to define drivers of OCCC malignancy may lead to new therapeutic targets and approaches. Among potential targets are secreted proteases, enzymes which in many cancers serve as key drivers of malignant progression. To identify proteases responsible for the proteolytic landscape of the tumor microenvironment requires methods that directly report on enzyme activity, as transcript or protein abundance alone are poor indicators of protease activity. Here we developed an activity-based probe featuring an arginine diphenylphosphonate warhead to detect active serine proteases of trypsin-like specificity. A biotin handle was incorporated to facilitate affinity purification of labeled proteases. Using this probe, we employed activity-based protein profiling to identify active trypsin-like serine proteases within the complex proteome secreted by OCCC cell lines. We identified multiple active serine proteases in OCCC cell lines, including two proteases in common, tissue plasminogen activator (tPA) and urokinase-type plasminogen activator (uPA). Further interrogation of these proteases showed that both were involved in cancer cell invasion and proliferation of OCCC cells. The detection of tPA and uPA as catalytically active proteases and significant drivers of the malignant phenotype may point to these enzymes as targets for new therapeutic strategies in OCCC. Our activity-based probe and profiling methodology also offer a valuable tool for detection of active trypsin-like serine proteases in models of other cancers and other diseases.
DOI: 10.26126/intervals.8v8wbv
title: BALF cell-free mediators

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
BALF was characterized using targeted proteomics.
This dataset includes individual measurements.
DOI: 10.26126/intervals.8uaq2m
title: BALF cells

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Free lung cells (FLCs) in the bronchoalveolar lavage fluid were characterized and quantified by flow cytometry.
This dataset includes individual measurements.
DOI: 10.26126/intervals.f4n8sl
title: Body weight

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The body weight of each rat was measured over the study period.
This dataset includes individual measurements.
DOI: 10.26126/intervals.pnwiwj
title: Clinical chemistry

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Clinical chemistry parameters to monitor kidney and liver function and metabolic profiles were assessed.
This dataset includes individual measurements.
DOI: 10.26126/intervals.j33vy6
title: Gross pathology - organ weight

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Gross pathology, including organ weight was assessed.
This dataset includes individual measurements.
DOI: 10.26126/intervals.upmr5d
title: Hematology

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Blood cells (red blood cells and white blood cells) were characterized and quantified.
This dataset includes individual measurements.
DOI: 10.26126/intervals.4bht2i
title: Histology and histomorphometry (respiratory and non-respiratory)

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Histopathological evaluations of respiratory tissues (larynx, lung, trachea, and nose) and non-respiratory tissues were performed. 
This dataset includes individual measurements.
DOI: 10.26126/intervals.rgkt5k
title: Liver transcriptomics [expression level per gene and sample]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The liver transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array.
This dataset is the normalized intensity values for each gene and each sample.
DOI: 10.26126/intervals.drhkgf
title: Liver transcriptomics [pairwise comparisons]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The liver transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array.
This dataset contains the statistics resulting from the comparison of treatment and control groups.
DOI: 10.26126/intervals.7frytc
title: Lung transcriptomics [expression level per gene and sample]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The lung transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array. 
This dataset is the normalized intensity values for each gene and each sample.
DOI: 10.26126/intervals.zudtlt
title: Lung transcriptomics [pairwise comparisons]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The lung transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array. 
This dataset contains the statistics resulting from the comparison of treatment and control groups.
DOI: 10.26126/intervals.gvjqmx
title: Markers of exposure in plasma and urine

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
Biomarkers of exposure, including carboxyhemoglobin, nicotine, and nicotine metabolites were measured in blood and in urine.
This dataset includes individual measurements.
DOI: 10.26126/intervals.qcecbh
title: Nasal epithelium transcriptomics [expression level per gene and sample]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The nasal epithelium transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array.
This dataset is the normalized intensity values for each gene and each sample.
DOI: 10.26126/intervals.erw6al
title: Nasal epithelium transcriptomics [pairwise comparisons]

description: This dataset was generated in a 90-day inhalation study conducted in Sprague Dawley rats following OECD Testing Guideline 413 to evaluate the toxicity potential of flavor mixtures in e-liquids.
The nasal epithelium transcriptome was characterized using Affymetrix GeneChip® Rat 230 Array.
This dataset contains the statistics resulting from the comparison of treatment and control groups.