cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11924838
title: Additional file 5 of The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants

description: Additional file 5. Protein structures of Plant H + -PPase protiens.
DOI: 10.6084/m9.figshare.16643317
title: Hypophosphatemia is an independent risk factor for AKI among hospitalized patients with COVID-19 infection

description: This study sought to investigate incidence and risk factors for acute kidney injury (AKI) in hospitalized COVID-19. In this retrospective study, we enrolled 823 COVID-19 patients with at least two evaluations of renal function during hospitalization from four hospitals in Wuhan, China between February 2020 and April 2020. Clinical and laboratory parameters at the time of admission and follow-up data were recorded. Systemic renal tubular dysfunction was evaluated <i>via</i> 24-h urine collections in a subgroup of 55 patients. In total, 823 patients were enrolled (50.5% male) with a mean age of 60.9 ± 14.9 years. AKI occurred in 38 (40.9%) ICU cases but only 6 (0.8%) non-ICU cases. Using forward stepwise Cox regression analysis, we found eight independent risk factors for AKI including decreased platelet level, lower albumin level, lower phosphorus level, higher level of lactate dehydrogenase (LDH), procalcitonin, C-reactive protein (CRP), urea, and prothrombin time (PT) on admission. For every 0.1 mmol/L decreases in serum phosphorus level, patients had a 1.34-fold (95% CI 1.14–1.58) increased risk of AKI. Patients with hypophosphatemia were likely to be older and with lower lymphocyte count, lower serum albumin level, lower uric acid, higher LDH, and higher CRP. Furthermore, serum phosphorus level was positively correlated with phosphate tubular maximum per volume of filtrate (TmP/GFR) (Pearson <i>r</i> = 0.66, <i>p</i> &lt; .001) in subgroup analysis, indicating renal phosphate loss <i>via</i> proximal renal tubular dysfunction. The AKI incidence was very low in non-ICU patients as compared to ICU patients. Hypophosphatemia is an independent risk factor for AKI in patients hospitalized for COVID-19 infection.
DOI: 10.6084/m9.figshare.11924844.v1
title: Additional file 6 of The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants

description: Additional file 6. Ks values in species with a large number of H + -PPase genes.
DOI: 10.6084/m9.figshare.17161639.v1
title: Additional file 4 of Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity

description: Additional file 4: Table S5. Associations of 84 gut bacterial genera with US exposure and all covariates in the multivariable regression model.
DOI: 10.6084/m9.figshare.11924847.v1
title: Additional file 7 of The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants

description: Additional file 7. Functional divergence between types of the H + -PPase gene family.
DOI: 10.7910/dvn/otyquy/u7sxvj
title: 10_Su_Yanfang_COVID prediction 20200703.pdf

description: :unav
DOI: 10.7910/dvn/otyquy/xgjiyg
title: 10_Shen_Tiyan_Mobility and Lockdown in China_20200703.pdf

description: :unav
DOI: 10.6084/m9.figshare.11924844
title: Additional file 6 of The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants

description: Additional file 6. Ks values in species with a large number of H + -PPase genes.
DOI: 10.6084/m9.figshare.11924901
title: Additional file 1 of Integrative systems and functional analyses reveal a role of dopaminergic signaling in myelin pathogenesis

description: Additional file 1. Curated genes associated with MS.
DOI: 10.6084/m9.figshare.17161642
title: Additional file 5 of Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity

description: Additional file 5: Table S6. Associations of gut bacterial genera with obesity (BMI), stratified by Hispanic background groups.
DOI: 10.6084/m9.figshare.11924634
title: Additional file 2 of Spatio-temporal variations of licensed doctor distribution in China: measuring and mapping disparities

description: Additional file 2: Table S1. The number of different subtypes of licensed doctors in each provincial unit during 2012–2016.
DOI: 10.6084/m9.figshare.11924859
title: Additional file 9 of The structure, functional evolution, and evolutionary trajectories of the H+-PPase gene family in plants

description: Additional file 9. Positive selection sites found in analysis.
DOI: 10.6084/m9.figshare.12973088.v1
title: Supplementary dataset.xlsx from Transcriptome analysis identified long non-coding RNAs involved in the adaption of yak to high-altitude environments

description: A supplementary dataset for the manuscript.
DOI: 10.6084/m9.figshare.12973088
title: Supplementary dataset.xlsx from Transcriptome analysis identified long non-coding RNAs involved in the adaption of yak to high-altitude environments

description: A supplementary dataset for the manuscript.
DOI: 10.6084/m9.figshare.11924880
title: Additional file 13 of Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

description: Additional file 13: Table S4. The Ka/Ks ratios and estimated dates for the duplication events in maize and wheat CYP450 genes.
DOI: 10.6084/m9.figshare.11924934.v1
title: Additional file 5 of Integrative systems and functional analyses reveal a role of dopaminergic signaling in myelin pathogenesis

description: Additional file 5. The oLC pathways interacting with the DS pathway.
DOI: 10.6084/m9.figshare.11924934
title: Additional file 5 of Integrative systems and functional analyses reveal a role of dopaminergic signaling in myelin pathogenesis

description: Additional file 5. The oLC pathways interacting with the DS pathway.
DOI: 10.6084/m9.figshare.17161645.v1
title: Additional file 6 of Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity

description: Additional file 6: Table S7. Associations of gut bacterial genera with US exposure, stratified by Hispanic background groups.
DOI: 10.6084/m9.figshare.11924973
title: Additional file 27 of Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

description: Additional file 27: Table S9. List of primers used in this study for qPCR.
DOI: 10.7910/dvn/9zidyr/3exflf
title: An Introduction to the Data Resources for Covid-19 Studies_CH.pdf

description: :unav
DOI: 10.7910/dvn/mhl8jc/p37swa
title: published_paper_0329.xls

description: Updated to March 29, 2020. It is collected from Web of Science.
DOI: 10.6084/m9.figshare.11924973.v1
title: Additional file 27 of Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

description: Additional file 27: Table S9. List of primers used in this study for qPCR.
DOI: 10.6084/m9.figshare.11924976
title: Additional file 28 of Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

description: Additional file 28: Table S10. List of 477 TaCYP450s in 22 modules.
DOI: 10.6084/m9.figshare.12448871.v1
title: Optimal Sampling for Generalized Linear Models under Measurement Constraints

description: Under “measurement constraints,” responses are expensive to measure and initially unavailable on most of records in the dataset, but the covariates are available for the entire dataset. Our goal is to sample a relatively small portion of the dataset where the expensive responses will be measured and the resultant sampling estimator is statistically efficient. Measurement constraints require the sampling probabilities can only depend on a very small set of the responses. A sampling procedure that uses responses at most only on a small pilot sample will be called “response-free.” We propose a response-free sampling procedure (OSUMC) for generalized linear models (GLMs). Using the A-optimality criterion, i.e., the trace of the asymptotic variance, the resultant estimator is statistically efficient within a class of sampling estimators. We establish the unconditional asymptotic distribution of a general class of response-free sampling estimators. This result is novel compared with the existing conditional results obtained by conditioning on both covariates and responses. Under our unconditional framework, the subsamples are no longer independent and new martingale techniques are developed for our asymptotic theory. We further derive the A-optimal response-free sampling distribution. Since this distribution depends on population level quantities, we propose the Optimal Sampling Under Measurement Constraints (OSUMC) algorithm to approximate the theoretical optimal sampling. Finally, we conduct an intensive empirical study to demonstrate the advantages of OSUMC algorithm over existing methods in both statistical and computational perspectives. We find that OSUMC’s performance is comparable to that of sampling algorithms that use complete responses. This shows that, provided an efficient algorithm such as OSUMC is used, there is little or no loss in accuracy due to the unavailability of responses because of measurement constraints.
DOI: 10.7910/dvn/9zidyr/p5ss0o
title: An Introduction to the Data Resources for Covid-19 Studies.pdf

description: :unav
DOI: 10.7910/dvn/9zidyr/w8y6t8
title: An Introduction to the Data Resources for Covid-19 Studies.pdf

description: :unav
DOI: 10.6084/m9.figshare.11924919.v1
title: Additional file 3 of Integrative systems and functional analyses reveal a role of dopaminergic signaling in myelin pathogenesis

description: Additional file 3. Protein-protein interactions between DS and oLC genes in Interactome.
DOI: 10.6084/m9.figshare.11924940.v1
title: Additional file 6 of Integrative systems and functional analyses reveal a role of dopaminergic signaling in myelin pathogenesis

description: Additional file 6. Pathways correlated with the DS pathway in the datasets GSE26927 for grey matter and GSE38010 for white matter.
DOI: 10.6084/m9.figshare.20307418
title: Additional file 1 of Identifying the role of transient receptor potential channels (TRPs) in kidney renal clear cell carcinoma and their potential therapeutic significances using genomic and transcriptome analyses

description: Additional file 1. Table S1: The results of differentially expressed genes between 539 KIRC samples and 72 normal samples from the TCGA database. Table S2: The results of univariate Cox regression analysis of 526 KIRC samples from the TCGA database. Table S3: The results of multivariate Cox regression analysis.
DOI: 10.6084/m9.figshare.11924943.v1
title: Additional file 22 of Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

description: Additional file 22: Table S6. List of TPM values of 101 ZmCYP450s in six organs.
DOI: 10.6084/m9.figshare.5633302
title: Identification of ANXA2 (annexin A2) as a specific bleomycin target to induce pulmonary fibrosis by impeding TFEB-mediated autophagic flux

description: Bleomycin is a clinically potent anticancer drug used for the treatment of germ-cell tumors, lymphomas and squamous-cell carcinomas. Unfortunately, the therapeutic efficacy of bleomycin is severely hampered by the development of pulmonary fibrosis. However, the mechanisms underlying bleomycin-induced pulmonary fibrosis, particularly the molecular target of bleomycin, remains unknown. Here, using a chemical proteomics approach, we identify ANXA2 (annexin A2) as a direct binding target of bleomycin. The interaction of bleomycin with ANXA2 was corroborated both in vitro and in vivo. Genetic depletion of <i>anxa2</i> in mice mitigates bleomycin-induced pulmonary fibrosis. We further demonstrate that Glu139 (E139) of ANXA2 is required for bleomycin binding in lung epithelial cells. A CRISPR-Cas9-engineered ANXA2<sup>E139A</sup> mutation in lung epithelial cells ablates bleomycin binding and activates TFEB (transcription factor EB), a master regulator of macroautophagy/autophagy, resulting in substantial acceleration of autophagic flux. Pharmacological activation of TFEB elevates bleomycin-initiated autophagic flux, inhibits apoptosis and proliferation of epithelial cells, and ameliorates pulmonary fibrosis in bleomycin-treated mice. Notably, we observe lowered TFEB and LC3B levels in human pulmonary fibrosis tissues compared to normal controls, suggesting a critical role of TFEB-mediated autophagy in pulmonary fibrosis. Collectively, our data demonstrate that ANXA2 is a specific bleomycin target, and bleomycin binding with ANXA2 impedes TFEB-induced autophagic flux, leading to induction of pulmonary fibrosis. Our findings provide insight into the mechanisms of bleomycin-induced fibrosis and may facilitate development of optimized bleomycin therapeutics devoid of lung toxicity.
DOI: 10.6084/m9.figshare.5633302.v1
title: Identification of ANXA2 (annexin A2) as a specific bleomycin target to induce pulmonary fibrosis by impeding TFEB-mediated autophagic flux

description: Bleomycin is a clinically potent anticancer drug used for the treatment of germ-cell tumors, lymphomas and squamous-cell carcinomas. Unfortunately, the therapeutic efficacy of bleomycin is severely hampered by the development of pulmonary fibrosis. However, the mechanisms underlying bleomycin-induced pulmonary fibrosis, particularly the molecular target of bleomycin, remains unknown. Here, using a chemical proteomics approach, we identify ANXA2 (annexin A2) as a direct binding target of bleomycin. The interaction of bleomycin with ANXA2 was corroborated both in vitro and in vivo. Genetic depletion of <i>anxa2</i> in mice mitigates bleomycin-induced pulmonary fibrosis. We further demonstrate that Glu139 (E139) of ANXA2 is required for bleomycin binding in lung epithelial cells. A CRISPR-Cas9-engineered ANXA2<sup>E139A</sup> mutation in lung epithelial cells ablates bleomycin binding and activates TFEB (transcription factor EB), a master regulator of macroautophagy/autophagy, resulting in substantial acceleration of autophagic flux. Pharmacological activation of TFEB elevates bleomycin-initiated autophagic flux, inhibits apoptosis and proliferation of epithelial cells, and ameliorates pulmonary fibrosis in bleomycin-treated mice. Notably, we observe lowered TFEB and LC3B levels in human pulmonary fibrosis tissues compared to normal controls, suggesting a critical role of TFEB-mediated autophagy in pulmonary fibrosis. Collectively, our data demonstrate that ANXA2 is a specific bleomycin target, and bleomycin binding with ANXA2 impedes TFEB-induced autophagic flux, leading to induction of pulmonary fibrosis. Our findings provide insight into the mechanisms of bleomycin-induced fibrosis and may facilitate development of optimized bleomycin therapeutics devoid of lung toxicity.
DOI: 10.6084/m9.figshare.17161645
title: Additional file 6 of Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity

description: Additional file 6: Table S7. Associations of gut bacterial genera with US exposure, stratified by Hispanic background groups.
DOI: 10.15468/dl.cc4i6e
title: Occurrence Download

description: A dataset containing 933 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Achnatherum sibiricum (L.) Keng ex Tzvelev"
 ]
}

 The dataset includes 933 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029397-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.is97hr
title: Occurrence Download

description: A dataset containing 100 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Coralliozetus angelicus (Böhlke & Mead, 1957)"
 ]
}

 The dataset includes 100 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000178-150615163101818/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.754ys3
title: Occurrence Download

description: A dataset containing 412 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echinops setifer Iljin"
 ]
}

 The dataset includes 412 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0186569-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.87tn6m
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Paspalum guayanerum Beetle"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182346-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sc7v5y
title: Occurrence Download

description: A dataset containing 113 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Trapezia tigrina Eydoux & Souleyet, 1842",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 113 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029398-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3eq73l
title: Occurrence Download

description: A dataset containing 2803 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acanthospermum hispidum DC."
 ]
}

 The dataset includes 2803 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000178-150811131857512/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hgszfj
title: Occurrence Download

description: A dataset containing 54 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nautilocalyx hirsutus (Sprague) Sprague"
 ]
}

 The dataset includes 54 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182347-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.um587t
title: Occurrence Download

description: A dataset containing 1445 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echinops strigosus L."
 ]
}

 The dataset includes 1445 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0186583-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vz56w3
title: Occurrence Download

description: A dataset containing 265 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Coenonympha rhodopensis Elwes, 1900"
 ]
}

 The dataset includes 265 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0135686-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2yf666
title: Occurrence Download

description: A dataset containing 20614 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echinops sphaerocephalus L."
 ]
}

 The dataset includes 20614 records from 415 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0186577-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gqzcks
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sarcoglottis lobata (Lindl.) P.N.Don",
 "DatasetKey is Orchid Herbarium Collection"
 ]
}

 The dataset includes 7 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000178-150827100048397/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bpmmjl
title: Occurrence Download

description: A dataset containing 584 species occurrences available in GBIF matching the query:
{
 "and" : [
 "ScientificName is Pinus ayacahuite C.Ehrenb. ex Schltdl.",
 "DecimalLatitude is greater than or equal to -90",
 "DecimalLongitude is greater than or equal to -180"
 ]
}

 The dataset includes 584 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023948-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nuhkwa
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pabstiella granulosa (Barb.Rodr.) Chiron & Xim.Bols."
 ]
}

 The dataset includes 6 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182349-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dtaugs
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oenothera peruana W.Dietr."
 ]
}

 The dataset includes 22 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182348-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lhchay
title: Occurrence Download

description: A dataset containing 99585 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Fallopia convolvulus (L.) A. Löve"
 ]
}

 The dataset includes 99585 records from 294 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000178-160525093732495/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ynrk88
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echinops taeckholmianus Amin"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0186589-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kmhv25
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Netherlands",
 "Geometry POLYGON((5.87263 50.98634,5.90603 50.99298,5.8812 51.01776,5.86915 51.0555,5.81488 51.05154,5.81807 50.99815,5.87263 50.98634))",
 "HasCoordinate is true",
 "TaxonKey is Marchantiophyta",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000050-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.