cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12142086
title: Composite quasi-likelihood for single-index models with massive datasets

description: The single-index models (SIMs) provide an efficient way of coping with high-dimensional nonparametric estimation problems and avoid the “curse of dimensionality.” Many existing estimation procedures for SIMs were built on least square loss, which is popular for its mathematical beauty but is non-robust to non-normal errors and outliers. This article addressed the question of both robustness and efficiency of estimation methods based on a new data-driven weighted linear combination of convex loss functions instead of only quadratic loss for SIMs. The optimal weights can be chosen to provide maximum efficiency and these optimal weights can be estimated from data. As a specific example, we introduce a robust method of composite least square and least absolute deviation methods. Moreover, we extend the proposed method to the analysis of massive datasets via a divide-and-conquer strategy. The proposed approach significantly reduces the required primary memory and the resulting estimate is as efficient as if the entire dataset was analyzed simultaneously. The asymptotic normality of the proposed estimators is established. The simulation studies and real data applications are conducted to illustrate the finite sample performance of the proposed methods.
DOI: 10.22008/fk2/utfjp4/p0aykw
title: SKG73_3402.jpg

description: Stereoscopic aerial colour photo (1:27 000).
DOI: 10.6084/m9.figshare.20007113.v1
title: Acute WT1-positive promyelocytic leukemia with hypogranular variant morphology, bcr-3 isoform of PML-RARα and Flt3-ITD mutation: a rare case report

description: ABSTRACT CONTEXT: Acute promyelocytic leukemia (APL) accounts for 8% to 10% of cases of acute myeloid leukemia (AML). Remission in cases of high-risk APL is still difficult to achieve, and relapses occur readily. CASE REPORT: Here, we describe a case of APL with high white blood cell counts in blood tests and hypogranular variant morphology in bone marrow, together with fms-like tyrosine kinase-3 with internal tandem duplication mutations (FLT3-ITD), and bcr-3 isoform of PML-RARα. Most importantly, we detected high level of Wilms’ tumor gene (WT1) in marrow blasts, through the reverse transcription polymerase chain reaction (RT-PCR). To date, no clear conclusions about an association between WT1 expression levels and APL have been reached. This patient successively received a combined treatment regimen consisting of hydroxycarbamide, arsenic trioxide and idarubicin plus cytarabine, which ultimately enabled complete remission. Unfortunately, he subsequently died of sudden massive hemoptysis because of pulmonary infection. CONCLUSION: Based on our findings and a review of the literature, abnormal functioning of WT1 may be a high-risk factor in cases of APL. Further studies aimed towards evaluating the impact of WT1 expression on the prognosis for APL patients are of interest.
DOI: 10.6084/m9.figshare.5325367
title: Bayesian Approximate Kernel Regression With Variable Selection

description: Nonlinear kernel regression models are often used in statistics and machine learning because they are more accurate than linear models. Variable selection for kernel regression models is a challenge partly because, unlike the linear regression setting, there is no clear concept of an effect size for regression coefficients. In this article, we propose a novel framework that provides an effect size analog for each explanatory variable in Bayesian kernel regression models when the kernel is shift-invariant—for example, the Gaussian kernel. We use function analytic properties of shift-invariant reproducing kernel Hilbert spaces (RKHS) to define a linear vector space that: (i) captures nonlinear structure, and (ii) can be projected onto the original explanatory variables. This projection onto the original explanatory variables serves as an analog of effect sizes. The specific function analytic property we use is that shift-invariant kernel functions can be approximated via random Fourier bases. Based on the random Fourier expansion, we propose a computationally efficient class of Bayesian approximate kernel regression (BAKR) models for both nonlinear regression and binary classification for which one can compute an analog of effect sizes. We illustrate the utility of BAKR by examining two important problems in statistical genetics: genomic selection (i.e., phenotypic prediction) and association mapping (i.e., inference of significant variants or loci). State-of-the-art methods for genomic selection and association mapping are based on kernel regression and linear models, respectively. BAKR is the first method that is competitive in both settings. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.7422536.v1
title: MOESM1 of Spectrophotometry assays to determine G6PD activity from Trinity Biotech and Pointe Scientific G6PD show good correlation

description: Additional file 1. Database with all relevant information
DOI: 10.6084/m9.figshare.21585660
title: Supplementary Materials S1

description: <strong>Supplementary Materials for:</strong>
Anomalous 13C-enrichment in Mesozoic vertebrate enamel reflects environmental conditions in a ‘vanished world’ and not a unique dietary physiology
<br>
Cullen, T.M., Longstaffe, F.J., Wortmann, U.G., Huang, L., Evans, D.C.
<br>
Includes: 
<br>
Supplementary Methods S1. Expanded details of analytical procedures
<br>
Supplementary Figure S1. Representative examples of specimens from RDS locality
<br>
Supplementary Figure S2. Additional tests for potential of diagenetic overprinting.
<br>
Supplementary Table S1. Measured stable carbon isotope compositions and specimen data
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Supplementary Table S2. TEF source data used in <em>δ</em>13Cdiet calculations
<br>
Supplementary Table S3. Preservational, pretreatment, and FTIR data
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Supplementary Table S4: Isotopic comparisons of dentine and enamel samples
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Supplementary Table S5. Mean <em>δ</em>13Cdiet for studied taxa.
DOI: 10.22008/fk2/utfjp4/heae3r
title: SKG73_3406.jpg

description: Stereoscopic aerial colour photo (1:27 000).
DOI: 10.6084/m9.figshare.20006956
title: Feasibility of transitioning from APACHE II to SAPS III as prognostic model in a Brazilian general intensive care unit. A retrospective study

description: CONTEXT AND OBJECTIVE: Prognostic models reflect the population characteristics of the countries from which they originate. Predictive models should be customized to fit the general population where they will be used. The aim here was to perform external validation on two predictive models and compare their performance in a mixed population of critically ill patients in Brazil.DESIGN AND SETTING: Retrospective study in a Brazilian general intensive care unit (ICU).METHODS: This was a retrospective review of all patients admitted to a 41-bed mixed ICU from August 2011 to September 2012. Calibration (assessed using the Hosmer-Lemeshow goodness-of-fit test) and discrimination (assessed using area under the curve) of APACHE II and SAPS III were compared. The standardized mortality ratio (SMR) was calculated by dividing the number of observed deaths by the number of expected deaths.RESULTS: A total of 3,333 ICU patients were enrolled. The Hosmer-Lemeshow goodness-of-fit test showed good calibration for all models in relation to hospital mortality. For in-hospital mortality there was a worse fit for APACHE II in clinical patients. Discrimination was better for SAPS III for in-ICU and in-hospital mortality (P = 0.042). The SMRs for the whole population were 0.27 (confidence interval [CI]: 0.23 - 0.33) for APACHE II and 0.28 (CI: 0.22 - 0.36) for SAPS III.CONCLUSIONS: In this group of critically ill patients, SAPS III was a better prognostic score, with higher discrimination and calibration power.
DOI: 10.6084/m9.figshare.20005477
title: DESIGN OF A SINGLE SOWING DEPTH MEASUREMENT SYSTEM FOR AN AIR SUCTION CORN PLANTER

description: ABSTRACT To accurately measure sowing depth, we designed a multisensor data fusion algorithm based on the Kalman filter and applied it to a dual-channel ultrasonic sowing depth measurement system. We installed two ultrasonic sensors on the frame above the depth limit wheel and the soil covering-compacting wheel. The terrain-like plate was installed on the central axis of the depth limit wheel to simulate the surface relief and calculate the seeding depth value. The Kalman filter algorithm filters out the clutter generated when the two ultrasonic sensors collect the depth data and then fuses the two ultrasounds of the filtered data. The test shows that when the vehicle speed is 4 km/h , the fluctuation ranges of the collected data of ultrasonic 1 and 2 are 45-60 mm and 35-70 mm , respectively, and the fluctuation ranges of the filtered data are 52-58 mm and 48-60 mm , respectively. After data fusion processing, the data fluctuate in a small range of approximately 55 mm . When the vehicle speed is 6 km/h and 8 km/h, the obtained results have the same trend as the experimental results at 4 km/h . The results show that the sowing depth measurement system is effective.
DOI: 10.6084/m9.figshare.20006732
title: Somatic mutation-associated risk index based on lncRNA expression for predicting prognosis in acute myeloid leukemia

description: <b>Objectives:</b> Genomic instability has several implications for acute myeloid leukemia (AML) prognosis. This article aims to construct a somatic mutation-associated risk index (SMRI) of genomic instability for AML to predict prognosis and explore the potential determinants of AML prognosis. <b>Methods:</b> We obtained differentially expressed lncRNAs from genomic instability subtypes and selected six lncRNAs to construct the SMRI through multivariate Cox regression analysis. The median SMRI classified patients into high and low SMRI groups. Kaplan–Meier survival analysis was used to clarify the prognostic differences of SMRI subtypes. Receiver operating characteristic curve analysis was performed to elucidate the value of SMRI as a prognostic indicator. Gene set variation analysis, tumor mutation burden (TMB) analysis, immune infiltration, and immune checkpoint expression analysis were performed to investigate possible causes for the differences in prognosis of SMRI subtypes. <b>Results:</b> The high SMRI group exhibited a poor prognosis, which was characterized by elevated levels of TMB, mutation counts (TP53, NPM1, DNMT3A, and FLT3-TKD), CD8<sup>+</sup> T cell infiltration, and immune checkpoint (PD-1, PD-L2, CTLA4, LAG3) expression. The SMRI was still associated with prognosis, even after adjustment for age, sex, cytogenetic risk, DNMT3A status, FLT3 status, and NPM1 status. Gene set variation analysis showed that AML with FLT3-ITD mutation, CEBPA mutation, and LSCs (leukemia stem cells) were enriched in the high SMRI group. <b>Conclusion:</b> Our research suggests that the SMRI derived from genomic instability subtypes is a useful biomarker for predicting prognosis and may be beneficial for improving the clinical outcome of patients with AML.
DOI: 10.14473/csda/nxi0v9/s2droc
title: PR16_V1409.pdf

description: Veřejnost o speciálních školách – září 2014. Tisková zpráva CVVM.
DOI: 10.14473/csda/nxi0v9/2tgdbn
title: PR14_V1409.pdf

description: Výběr piva českými konzumenty v roce 2014. Tisková zpráva CVVM.
DOI: 10.14473/csda/nxi0v9/nwfd1p
title: PR08_V1409.pdf

description: Stranické preference a volební model v září 2014. Tisková zpráva CVVM.
DOI: 10.6084/m9.figshare.20005477.v1
title: DESIGN OF A SINGLE SOWING DEPTH MEASUREMENT SYSTEM FOR AN AIR SUCTION CORN PLANTER

description: ABSTRACT To accurately measure sowing depth, we designed a multisensor data fusion algorithm based on the Kalman filter and applied it to a dual-channel ultrasonic sowing depth measurement system. We installed two ultrasonic sensors on the frame above the depth limit wheel and the soil covering-compacting wheel. The terrain-like plate was installed on the central axis of the depth limit wheel to simulate the surface relief and calculate the seeding depth value. The Kalman filter algorithm filters out the clutter generated when the two ultrasonic sensors collect the depth data and then fuses the two ultrasounds of the filtered data. The test shows that when the vehicle speed is 4 km/h , the fluctuation ranges of the collected data of ultrasonic 1 and 2 are 45-60 mm and 35-70 mm , respectively, and the fluctuation ranges of the filtered data are 52-58 mm and 48-60 mm , respectively. After data fusion processing, the data fluctuate in a small range of approximately 55 mm . When the vehicle speed is 6 km/h and 8 km/h, the obtained results have the same trend as the experimental results at 4 km/h . The results show that the sowing depth measurement system is effective.
DOI: 10.6084/m9.figshare.11618334
title: Assemblies

description: Supplementary files. Assemblies associated with four European Salmonella Typhimurium datasets collected to develop WGS-based source attribution methods.
DOI: 10.6084/m9.figshare.20529766.v1
title: Nonparametric prediction distribution from resolution-wise regression with heterogeneous data

description: Modeling and inference for heterogeneous data have gained great interest recently due to rapid developments in personalized marketing. Most existing regression approaches are based on the conditional mean and may require additional cluster information to accommodate data heterogeneity. In this paper, we propose a novel nonparametric resolution-wise regression procedure to provide an estimated distribution of the response instead of one single value. We achieve this by decomposing the information of the response and the predictors into resolutions and patterns respectively based on marginal binary expansions. The relationships between resolutions and patterns are modeled by penalized logistic regressions. Combining the resolution-wise prediction, we deliver a histogram of the conditional response to approximate the distribution. Moreover, we show a sure independence screening property and the consistency of the proposed method for growing dimensions. Simulations and a real estate valuation dataset further illustrate the effectiveness of the proposed method.
DOI: 10.14473/csda/nxi0v9/ja2pps
title: PR03_V1409.pdf

description: Hodnocení různých typů škol pohledem české veřejnosti - září 2014. Tisková zpráva CVVM.
DOI: 10.5281/zenodo.10634110
title: Al-Ṭabarī's Direct Informants

description: Al-Ṭabarī’s Direct Informants

This release pertains to a series of eight blog posts that investigate citation practices involving the phrases ‘he told me’/‘he told us’ (ḥaddathanī/ḥaddathanā) in three of Muḥammad b. Jarīr al-Ṭabarī’s (d. 310/923) major works. These are his universal history, Taʾrīkh al-rusul wa-l-mulūk; his Quran commentary, Jāmiʿ al-bayān ʿan taʾwīl āy al-Qurʾān (referred to as Tafsīr); and his Tahdhīb al-āthār.

We hope to publish in a peer-reviewed journal our work here with additional reflections, data and corrections.
DOI: 10.5281/zenodo.5533888
title: Al-Ṭabarī's Direct Informants

description: Al-Ṭabarī’s Direct Informants

This release pertains to a series of eight blog posts that investigate citation practices involving the phrases ‘he told me’/‘he told us’ (ḥaddathanī/ḥaddathanā) in three of Muḥammad b. Jarīr al-Ṭabarī’s (d. 310/923) major works. These are his universal history, Taʾrīkh al-rusul wa-l-mulūk; his Quran commentary, Jāmiʿ al-bayān ʿan taʾwīl āy al-Qurʾān (referred to as Tafsīr); and his Tahdhīb al-āthār.

We hope to publish in a peer-reviewed journal our work here with additional reflections, data and corrections.
DOI: 10.14473/csda/nxi0v9/ky3sni
title: PR13_V1409.pdf

description: Pivní mixy na českém pivním trhu v roce 2014. Tisková zpráva CVVM.
DOI: 10.6084/m9.figshare.13186164
title: Additional file 1 of Cis-acting lnc-eRNA SEELA directly binds histone H4 to promote histone recognition and leukemia progression

description: Additional file 1. The selection of lnc-eRNAs.
DOI: 10.14473/csda/nxi0v9/bb2u3p
title: PR01_V1409.pdf

description: Občané o hospodářské situaci ČR a o životní úrovni svých domácností – září 2014. Tisková zpráva CVVM.
DOI: 10.6084/m9.figshare.13186170.v1
title: Additional file 3 of Cis-acting lnc-eRNA SEELA directly binds histone H4 to promote histone recognition and leukemia progression

description: Additional file 3. Dysregulated genes in si-SEELA and si-SERINC2 group.
DOI: 10.6084/m9.figshare.22634356
title: Vegetation composition regulates the interaction of warming and nitrogen deposition on net carbon dioxide uptake in a boreal peatland

description: This data is about three greenhouse gas fluxes (CO2, CH4 and N2O) and related environmnetal variables under warming, nitrogen addition and vegetation compoistion change.
DOI: 10.6084/m9.figshare.15294325
title: Homocysteine level and gestational diabetes mellitus: a systematic review and meta-analysis

description: It is reported that elevated homocysteine (Hcy) level represents an independent risk factor for gestational diabetes mellitus (GDM). However, the relationship between Hcy level and GDM remains controversial. Our study aimed to systematically review available literature linking Hcy to GDM for a comprehensive understanding of the relationship between circulating Hcy level and GDM in humans. PubMed, The Cochrane Library, and Web of Science were searched for studies published up to January 2021. Manual searches of references of the relevant studies were also conducted. Standard mean difference (SMD) with 95% confidence interval (95%CI) were calculated to evaluate the relationship between Hcy level and GDM using the Review Manager 5.3 and Stata 12.0. Of 106 references reviewed, 12 studies with a total of 712 GDM patients contributed to the present meta-analysis. Hcy level was significantly elevated in women with GDM compared with those without GDM (SMD = 0.55; 95% CI: 0.25–0.85, <i>p</i> = .0003). In the subgroup meta-analyses, this evidence was more consistent among women with Hcy sampling during the second trimester (SMD = 0.76, 95% CI: 0.34–1.18, <i>p</i> = .0004) and with average age ≥30 years (SMD = 0.69, 95% CI: 0.25–1.12, <i>p</i> = .002). The evidence indicated that the level of circulating Hcy was significantly elevated among women with GDM compared with those with normal glucose tolerance, especially with mean age ≥30 years and in the second trimester.
DOI: 10.6084/m9.figshare.23151439
title: single crystal of compoud g from A Cu<sup>2+</sup> triggered reversible photochromic system: the structure photochromic response relationship study and potential applications

description: Fifteen rhodamine B hydrazide hydrazone (RhBHH) derivatives (compounds <b><i>a-o</i></b>) with various substituent groups at different position and their photochromic property triggered by Cu<sup>2+</sup> were studied to illustrate the structure photochromic response relationship (SPRR). Three of them (compounds <b><i>f-h</i></b>) with a <i>para</i>-position hydroxyl group and two <i>meta</i>-position halogen substituents display Cu<sup>2+</sup> triggered photochromic which is significantly different from the previous reports. It was found that halogen atoms, which were generally considered to have no remarkable regulation effect, exhibited great influences on the photochromic behaviour of RhBHH derivatives. Detail photochromic properties of the developed photochromic system were revealed by using compound <b><i>g</i></b> as the model substrate and only Cu<sup>2+</sup> displayed high selective trigger effect. Good reversible photochromic phenomenon was observed after stimulated with visible light irradiation and dark (or heat) bleaching consecutively. Furthermore, this photochromic system could be used in the preparation of photochromic glass, special security ink, molecular logic gate and two-dimensional code for security information storage.
DOI: 10.6084/m9.figshare.7422866.v1
title: Bioinformatics S1 from Clonal evolution and genome stability in a 2500-year-old fungal individual

description: Describes pipeline for variant discovery and provides scripts
DOI: 10.6084/m9.figshare.7422875
title: Table S3. Variable sites among the Illumina sequenced collections. from Clonal evolution and genome stability in a 2500-year-old fungal individual

description: Listing of 164 variants by scaffold number and base position. Also shows frequencies of reference and alternate alleles in 14 Illumina sequenced strains
DOI: 10.6084/m9.figshare.7422872
title: Table S4. PCR primers and nine sites assyaed by Sanger sequencing for Figure 3. from Clonal evolution and genome stability in a 2500-year-old fungal individual

description: Source data for Figure 3 located here.
DOI: 10.6084/m9.figshare.7422875.v1
title: Table S3. Variable sites among the Illumina sequenced collections. from Clonal evolution and genome stability in a 2500-year-old fungal individual

description: Listing of 164 variants by scaffold number and base position. Also shows frequencies of reference and alternate alleles in 14 Illumina sequenced strains
DOI: 10.6084/m9.figshare.12667364.v1
title: Additional file 11 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 11: Table S8. DEGs involved in the cell wall metabolism under different temperatures treated by different days in Osmanthus fragrans.
DOI: 10.6084/m9.figshare.13714128.v1
title: Effect of high pressure processing on migration characteristics of polypropylene used in food contact materials

description: The migration of small molecular mass organic compounds from polypropylene (PP) copolymer films into food simulants during and after high pressure processing (HPP) was studied. An overlapping temperature profile was developed to isolate the pressure effect of HPP (700 MPa, 71°C, 5 min) from equivalent thermal processing (TP) at atmospheric pressure (0.1 MPa). Chloroform, toluene, methyl salicylate, and phenylcyclohexane were chosen as surrogate compounds, and were spiked into test polymer films at concentrations of 762–1152 mg kg<sup>–1</sup> by a solvent soaking technique. Migration (w/w) of surrogate compounds from loaded PP films into Miglyol 812 (a medium-chain triglyceride mixture) and 10% ethanol was quantified by headspace GC/MS during HPP and TP, and subsequent storage at 25°C for up to 10 days. HPP significantly delayed migration of the surrogates from PP into both food simulants relative to TP. The average migrations into Miglyol after TP and HPP were 92.2–109% and 16–60.6%, respectively. Diffusion coefficients estimated by migration modelling showed a reduction of more than two orders of magnitude for all surrogate compounds under high pressure at 700 MPa (AP′ = 8.0) relative to equivalent TP at 0.1 MPa (AP′ = 13.1). The relative T<sub>g</sub> increase of PP copolymer under compression at 700 MPa was estimated as T<sub>g</sub>+94°C. For 10% ethanol, average migrations after TP and HPP were 9.3–50.9% and 8.6–22.8%, respectively. During extended storage, migration into both simulants from HPP-treated samples was initially slower than that from untreated or TP-treated films. However, after 8–24 hours of storage, the differences in percent migration of selected surrogates were not significant (<i>p</i> &gt; .05) among the treated PP films. Therefore, the physical changes of PP films that occur during HPP appear to be reversible with a return to their original dimensions and diffusion properties after decompression.
DOI: 10.6084/m9.figshare.7936460
title: Additional file 3: of Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome

description: Chemoreceptor sequences in FASTA format. (FASTA 128 kb)
DOI: 10.6084/m9.figshare.12667370.v1
title: Additional file 13 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 13: Table S10. DEGs involved in TFs under different temperatures treated by different days in Osmanthus fragrans.