cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23722275
title: Additional file 2 of Aligning intuition and theory: a novel approach to identifying the determinants of behaviours necessary to support implementation of evidence into practice

description: Additional file 2. Genomics implementation barrier and strategy mapping and theory alignment (interview data coded to theoretical domains framework and behaviour change techniques, alignment of intuitive strategies against behaviour change techniques).
DOI: 10.6084/m9.figshare.23722242.v1
title: Additional file 2 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 2: Supplementary table 2.
DOI: 10.6084/m9.figshare.23722257.v1
title: Additional file 7 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 7: Supplementary table 7.
DOI: 10.6084/m9.figshare.23722245
title: Additional file 3 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 3: Supplementary table 3.
DOI: 10.6084/m9.figshare.23722248
title: Additional file 4 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 4: Supplementary table 4.
DOI: 10.6084/m9.figshare.23722248.v1
title: Additional file 4 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 4: Supplementary table 4.
DOI: 10.6084/m9.figshare.23722254
title: Additional file 6 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 6: Supplementary table 6.
DOI: 10.6084/m9.figshare.14286455.v1
title: Sarcopenia predicts prognosis of patients with renal cell carcinoma: A systematic review and meta-analysis

description: ABSTRACT Sarcopenia, a concept reflecting the loss of skeletal muscle mass, was reported to be associated with the prognosis of several tumors. However, the prognostic value of sarcopenia in patients with renal cancer remains unclear. We carried out this metaanalysis and systematic review to evaluate the prognostic value of sarcopenia in patients with renal cell carcinomas. We comprehensively searched PubMed, Embase, and Cochrane Library from inception to December 2018. Hazard ratio (HR) and 95% confidence interval (CI) were pooled together. A total of 5 studies consisting of 771 patients were enrolled in this quantitative analysis, 347 (45.0%) of which had sarcopenia. Patients with sarcopenia had a worse OS compared with those without sarcopenia (HR=1.76; 95%CI, 1.35-2.31; P &lt;0.001). In the subgroup of patients with localized and advanced/metastatic diseases, sarcopenia was also associated with poor OS (HR=1.48, P=0.039; HR=2.14, P &lt;0.001; respectively). With a limited sample size, we did not observe difference of PFS between two groups (HR=1.56, 95% CI, 0.69-3.50, P=0.282). In the present meta-analysis, we observed that patients with sarcopenia had a worse OS compared with those without sarcopenia in RCC. Larger, preferably prospective studies, are needed to confirm and update our findings.
DOI: 10.6084/m9.figshare.14286456
title: Diagnosis accuracy of PCA3 level in patients with prostate cancer: a systematic review with meta-analysis

description: ABSTRACT Background: The diagnostic value and suitability of prostate cancer antigen 3 (PCA3) for the detection of prostate cancer (PCa) have been inconsistent in previous studies. Thus, the aim of the present meta-analysis was performed to systematically evaluate the diagnostic value of PCA3 for PCa. Materials and Methods: A meta-analysis was performed to search relevant studies using online databases EMBASE, PubMed and Web of Science published until February 1st, 2019. Ultimately, 65 studies met the inclusion criteria for this meta-analysis with 8.139 cases and 14.116 controls. The sensitivity, specificity, positive likelihood ratios (LR+), negative likelihood ratios (LR−), and other measures of PCA3 were pooled and determined to evaluate the diagnostic rate of PCa by the random-effect model. Results: With PCA3, the pooled overall diagnostic sensitivity, specificity, LR+, LR−, and 95% confidence intervals (CIs) for predicting significant PCa were 0.68 (0.64-0.72), 0.72 (0.68-0.75), 2.41 (2.16-2.69), 0.44 (0.40-0.49), respectively. Besides, the summary diagnostic odds ratio (DOR) and 95% CIs for PCA3 was 5.44 (4.53-6.53). In addition, the area under summary receiver operating characteristic (sROC) curves and 95% CIs was 0.76 (0.72-0.79). The major design deficiencies of included studies were differential verification bias, and a lack of clear inclusion and exclusion criteria. Conclusions: The results of this meta-analysis suggested that PCA3 was a non-invasive method with the acceptable sensitivity and specificity in the diagnosis of PCa, to distinguish between patients and healthy individuals. To validate the potential applicability of PCA3 in the diagnosis of PCa, more rigorous studies were needed to confirm these conclusions.
DOI: 10.6084/m9.figshare.23722257
title: Additional file 7 of Systems pharmacology dissection of pharmacological mechanisms of Xiaochaihu decoction against human coronavirus

description: Additional file 7: Supplementary table 7.
DOI: 10.6084/m9.figshare.14286438
title: Obesity: An independent protective factor for localized renal cell carcinoma in a systemic inflammation state

description: ABSTRACT Objectives To explore the prognostic value of obesity (measured by BMI) on RCC in a systemic inflammation state. Patients and Methods Clinicopathological and hematological data of 540 surgically treated Chinese localized RCC patients between 2005 and 2010 were retrospectively collected. Found by receiver operating characteristic (ROC) curve for cancer-specific survival (CSS), the optimal cutoff values of neutrophil-lymphocyte ratio (NLR, an indicator of systemic inflammation state) and BMI were 2.12 and 23.32, respectively. Survival curves were drawn using Kaplan-Meier method. Univariate and multivariate Cox regression analyses were used to evaluate the prognostic value of BMI in localized RCC patients with different NLR. Results Overall, 36 patients died with a median follow-up of 70 months. Median overall survival (OS) was 66 months and the 5-year OS rate was 92.7%. In the multivariate analysis of total patients, higher BMI was an independent protective factor for CSS in total patients (p=0.048). While in systemic inflammation subgroup (high NLR subgroup) patients, higher BMI (obesity) turned out to be an independent protective factor for both CSS (p=0.025) and RFS (p=0.048). Conclusion In localized RCC patients, obesity was an independent protective factor for CSS and RFS in a systemic inflammation state.
DOI: 10.6084/m9.figshare.14286438.v1
title: Obesity: An independent protective factor for localized renal cell carcinoma in a systemic inflammation state

description: ABSTRACT Objectives To explore the prognostic value of obesity (measured by BMI) on RCC in a systemic inflammation state. Patients and Methods Clinicopathological and hematological data of 540 surgically treated Chinese localized RCC patients between 2005 and 2010 were retrospectively collected. Found by receiver operating characteristic (ROC) curve for cancer-specific survival (CSS), the optimal cutoff values of neutrophil-lymphocyte ratio (NLR, an indicator of systemic inflammation state) and BMI were 2.12 and 23.32, respectively. Survival curves were drawn using Kaplan-Meier method. Univariate and multivariate Cox regression analyses were used to evaluate the prognostic value of BMI in localized RCC patients with different NLR. Results Overall, 36 patients died with a median follow-up of 70 months. Median overall survival (OS) was 66 months and the 5-year OS rate was 92.7%. In the multivariate analysis of total patients, higher BMI was an independent protective factor for CSS in total patients (p=0.048). While in systemic inflammation subgroup (high NLR subgroup) patients, higher BMI (obesity) turned out to be an independent protective factor for both CSS (p=0.025) and RFS (p=0.048). Conclusion In localized RCC patients, obesity was an independent protective factor for CSS and RFS in a systemic inflammation state.
DOI: 10.6084/m9.figshare.14286486
title: Low intensity extracorporeal shockwave Therapy shifts PDE5i nonresponders to responders

description: ABSTRACT To evaluate the efficiency of an energy density of 0.05mj/mm2 of low intensity extracorporeal shockwave therapy (Li-ESWT) on erectile dysfunction (ED) patients.A total of 45 ED patients met the inclusion criteria, including 7 PDE5i responders and 38 nonresponders. All the patients have already been delivered 10000 shockwaves of total seven treatment points twice a week for 4 weeks. Simultaneously, questionnaires of International Index of Erectile Function-Erectile Function (IIEF-EF), Erectile Hard Score (EHS) and Minimal Clinical Important Differences (MCID) were evaluated for the efficiency and safety at 8th and 16th weeks.The changes in the IIEF-EF score by MCID suggested that Li-ESWT treatment was effective in 22 PDE5i nonresponders patients (58%) at 8th week. Then at 16th week the number of patients who were effectively treated increased to 27 (71%). Among PDE5i responders, 5 patients (71%) were effective base on MCID at 16th week. Among PDE5i nonresponders 22 patients (58%) achieved erection hard enough for vaginal penetration and increased to 27 (71%) patients at 16th week (EHS ≥3). Moreover, even 3 patients achieved EHS 4 in PDE5i nonresponders at 16th week. Among PDE5i responders, 4 of 7 patients reached EHS of 4 from EHS 3 at 16th week. Apart from this, Li-ESWT treatment was also effective in 9 patients (24%) in PDE5i nonresponders without follow-up PDE5i.Energy flux density (EFD) of 0.05 of Li-ESWT could improve the erectile function of ED patients with PDE5i response. In addition, EFD of 0.05 of Li-ESWT treatment could turn PDE5i nonresponders to responders.
DOI: 10.6084/m9.figshare.7470737
title: Additional file 4: of Characterization of Mycobacterium tuberculosis strains in Beijing, China: drug susceptibility phenotypes and Beijing genotype family transmission

description: Detailed information about genotyping patterns and DST results isolated from 1189â M.tb strains in Beijing. (XLSX 123 kb)
DOI: 10.6084/m9.figshare.14286486.v1
title: Low intensity extracorporeal shockwave Therapy shifts PDE5i nonresponders to responders

description: ABSTRACT To evaluate the efficiency of an energy density of 0.05mj/mm2 of low intensity extracorporeal shockwave therapy (Li-ESWT) on erectile dysfunction (ED) patients.A total of 45 ED patients met the inclusion criteria, including 7 PDE5i responders and 38 nonresponders. All the patients have already been delivered 10000 shockwaves of total seven treatment points twice a week for 4 weeks. Simultaneously, questionnaires of International Index of Erectile Function-Erectile Function (IIEF-EF), Erectile Hard Score (EHS) and Minimal Clinical Important Differences (MCID) were evaluated for the efficiency and safety at 8th and 16th weeks.The changes in the IIEF-EF score by MCID suggested that Li-ESWT treatment was effective in 22 PDE5i nonresponders patients (58%) at 8th week. Then at 16th week the number of patients who were effectively treated increased to 27 (71%). Among PDE5i responders, 5 patients (71%) were effective base on MCID at 16th week. Among PDE5i nonresponders 22 patients (58%) achieved erection hard enough for vaginal penetration and increased to 27 (71%) patients at 16th week (EHS ≥3). Moreover, even 3 patients achieved EHS 4 in PDE5i nonresponders at 16th week. Among PDE5i responders, 4 of 7 patients reached EHS of 4 from EHS 3 at 16th week. Apart from this, Li-ESWT treatment was also effective in 9 patients (24%) in PDE5i nonresponders without follow-up PDE5i.Energy flux density (EFD) of 0.05 of Li-ESWT could improve the erectile function of ED patients with PDE5i response. In addition, EFD of 0.05 of Li-ESWT treatment could turn PDE5i nonresponders to responders.
DOI: 10.6084/m9.figshare.7470767
title: MOESM2 of Variability among autumn migration patterns of Mongolian Common Shelducks (Tadorna tadorna)

description: Additional file 2: Table S1. Detailed migration timing and site location of tracked Common Shelducks.
DOI: 10.6084/m9.figshare.14286452
title: Comparison of continuous eversion and inverting subepithelial suture in transverse preputial island flap urethroplasty in proximal hypospadias repair: A retrospective study

description: ABSTRACT Introduction: Transverse preputial island flap urethroplasty (TPIFU) is one of the most frequently performed technique for single-stage repair in proximal hypospadias. It was reported that the subepithelial urethroplasty would obviously decrease urethrocutaneous fistula (UF) complication after proximal TIP. But in the process of TPIFU, it had not been reported yet. Objective: We reviewed our experience to evaluate and compare the effect of continuous eversion suture (CES) versus continuous inversion subepithelial suture (CIS) on complication rates in the TPIFU. Material and methods: A retrospective review of all patients operated with CES and CIS in our institution between January 2017 and Jun 2017 was performed. Results: A total of 161 patients were enrolled in the research. Patients were followed up for 12~17 months. Total success rate was 73.9% (119/161). No statistically difference was found between the two groups with regard to age of patients (P=0.097), catheter size (P=0.52), time of catheterization (P=0.47), length of neourethra (P=0.20), non-urethral comorbidity (P=0.44) and post-operative infection (P=1.0). The overall postoperative complications had no statistically difference between the two groups (P=0.067). There were no statistically significant differences in the incidence of urethra-cutaneous fistula (UF) (OR=0.07, 95% CI: -0.24~0.037, P=0.22), urethral diverticulum (UD) (OR=0.026, 95% CI: -0.16~-0.056, P=0.323), urethral stricture (US) (OR=0.081, 95% CI: -0.15~0.15, P=1.0) and breakdown of urethral repair (BU) (OR=0.02, 95% CI: -0.118~-0.044, P=1.0). Discussion: The comparison of two group’s postoperative complications was feasible because there were no statistically differences among perioperative variables. It seemed as if continuous inversion subepithelial suture would promote healing. However, it indicated that the overall success rate and the incidences of UF, UD, US and BU complications had no statistically difference between groups. It might be accounted for the subtle differences of techniques changing the process of establishing prime and side branches vascularization. Conclusions: The CIS technique had no significantly different effect on the four complications rates when compared with CES in TPIFU. Thus, CES and CIS could be randomly adopted in TPIFU as personal preference.
DOI: 10.6084/m9.figshare.14286452.v1
title: Comparison of continuous eversion and inverting subepithelial suture in transverse preputial island flap urethroplasty in proximal hypospadias repair: A retrospective study

description: ABSTRACT Introduction: Transverse preputial island flap urethroplasty (TPIFU) is one of the most frequently performed technique for single-stage repair in proximal hypospadias. It was reported that the subepithelial urethroplasty would obviously decrease urethrocutaneous fistula (UF) complication after proximal TIP. But in the process of TPIFU, it had not been reported yet. Objective: We reviewed our experience to evaluate and compare the effect of continuous eversion suture (CES) versus continuous inversion subepithelial suture (CIS) on complication rates in the TPIFU. Material and methods: A retrospective review of all patients operated with CES and CIS in our institution between January 2017 and Jun 2017 was performed. Results: A total of 161 patients were enrolled in the research. Patients were followed up for 12~17 months. Total success rate was 73.9% (119/161). No statistically difference was found between the two groups with regard to age of patients (P=0.097), catheter size (P=0.52), time of catheterization (P=0.47), length of neourethra (P=0.20), non-urethral comorbidity (P=0.44) and post-operative infection (P=1.0). The overall postoperative complications had no statistically difference between the two groups (P=0.067). There were no statistically significant differences in the incidence of urethra-cutaneous fistula (UF) (OR=0.07, 95% CI: -0.24~0.037, P=0.22), urethral diverticulum (UD) (OR=0.026, 95% CI: -0.16~-0.056, P=0.323), urethral stricture (US) (OR=0.081, 95% CI: -0.15~0.15, P=1.0) and breakdown of urethral repair (BU) (OR=0.02, 95% CI: -0.118~-0.044, P=1.0). Discussion: The comparison of two group’s postoperative complications was feasible because there were no statistically differences among perioperative variables. It seemed as if continuous inversion subepithelial suture would promote healing. However, it indicated that the overall success rate and the incidences of UF, UD, US and BU complications had no statistically difference between groups. It might be accounted for the subtle differences of techniques changing the process of establishing prime and side branches vascularization. Conclusions: The CIS technique had no significantly different effect on the four complications rates when compared with CES in TPIFU. Thus, CES and CIS could be randomly adopted in TPIFU as personal preference.
DOI: 10.6084/m9.figshare.23722305.v1
title: Additional file 6 of Spatial heterogeneity of tumor microenvironment influences the prognosis of clear cell renal cell carcinoma

description: Additional file 6: Table S1. Information of ccRCC tissue microarray. Table S2. Patient information for samples enrolled in the study (ccRCC tissue microarray). Table S3. Antibody panel used for acquiring images with IMC. Table S4. Details of IMC acquired images. Table S5. Cell type annotation rules. Table S6. Information of patients receiving targeted therapy and/or immunotherapy.
DOI: 10.6084/m9.figshare.7470800.v1
title: Additional file 7: of Evaluating the profound effect of gut microbiome on host appetite in pigs

description: Table S4. The correlation between the relative abundance of KOs and the ADFI by MaAsLin. (XLS 65 kb)
DOI: 10.6084/m9.figshare.7470791.v1
title: Additional file 6: of Evaluating the profound effect of gut microbiome on host appetite in pigs

description: Table S3. Five OTUs out of the 34 ADFI-associated OTUs whose relative abundances were significantly influenced by pens. (XLS 33 kb)
DOI: 10.6084/m9.figshare.24249413
title: The complete chloroplast genome of <i>Allium wallichii</i> Kunth (Amaryllidaceae)

description: <i>Allium wallichii</i> Kunth is a herb species with potentially extensive applications because of its edible, ornamental, and pharmaceutical values. The structural characteristics and phylogenetic relationships of its chloroplast genome were determined here for the first time. The complete cp genome was found to be 152,496 bp long, with a GC content of 37.04%. It consists of four distinct regions: a large single copy (LSC) region of 82,510 bp, a small single copy (SSC) region of 17,460 bp, and two inverted repeat (IR) regions of 26,263 bp each. The genome encodes 129 genes, including 86 protein-coding genes, 37 tRNA genes, and six rRNA genes. Our phylogenetic analysis revealed that <i>A. wallichii</i> was closely related to <i>Allium wallichii</i> var. <i>platyphyllum</i>, which are included in the section Bromatorrhiza, subgenus <i>Amerallium</i> Traub of the genus <i>Allium</i>. Our report provides valuable information on the genetic diversity of <i>Allium</i> species.
DOI: 10.6084/m9.figshare.16907255.v1
title: Additional file 5 of Ferroptosis regulators, especially SQLE, play an important role in prognosis, progression and immune environment of breast cancer

description: Additional file 5: Supplementary Table 3. The compositions of different FR risk signatures derived from five research
DOI: 10.6084/m9.figshare.24249413.v1
title: The complete chloroplast genome of <i>Allium wallichii</i> Kunth (Amaryllidaceae)

description: <i>Allium wallichii</i> Kunth is a herb species with potentially extensive applications because of its edible, ornamental, and pharmaceutical values. The structural characteristics and phylogenetic relationships of its chloroplast genome were determined here for the first time. The complete cp genome was found to be 152,496 bp long, with a GC content of 37.04%. It consists of four distinct regions: a large single copy (LSC) region of 82,510 bp, a small single copy (SSC) region of 17,460 bp, and two inverted repeat (IR) regions of 26,263 bp each. The genome encodes 129 genes, including 86 protein-coding genes, 37 tRNA genes, and six rRNA genes. Our phylogenetic analysis revealed that <i>A. wallichii</i> was closely related to <i>Allium wallichii</i> var. <i>platyphyllum</i>, which are included in the section Bromatorrhiza, subgenus <i>Amerallium</i> Traub of the genus <i>Allium</i>. Our report provides valuable information on the genetic diversity of <i>Allium</i> species.
DOI: 10.6084/m9.figshare.16909405
title: Data set for the manuscript "A Decreasing Trend of Nitrous Oxide Emissions from California Cropland from 2000 to 2015".

description: Data set for the paper "A Decreasing Trend of Nitrous Oxide Emissions from California Cropland from 2000 to 2015".
DOI: 10.6084/m9.figshare.10093703
title: Genetic admixture history and forensic characteristics of Turkic-speaking Kyrgyz population via 23 autosomal STRs

description: Kyrgyz people, a Turkic-speaking ethnic group native to Central Asia, are considered as one mixed population from different historical tribes through the processes of conquest, intermarriage, assimilation and migration. The aim of this study was to infer the forensic statistical parameters and genetic structure of Chinese Kyrgyz and explore the patterns of their genetic relationships with adjacent and worldwide reference populations. We genotyped 25 forensic-related markers (amelogenin, Y-indel of rs2032678 and 23 Autosomal Short Tandem Repeats, A-STRs) in 491 Chinese Kyrgyzs. Allele frequency and forensic parameters were calculated using the STRAF software. Pairwise genetic distances were estimated using Phylip and subsequently dissected via principal component analysis, multidimensional scaling plots and phylogenetic relationship reconstruction. Investigations of allele frequency and forensic parameters indicated that all studied A-STRs are informative in the Chinese Kyrgyz population and can be used as a powerful tool in forensic individual identification and parentage testing. Results from genetic relationship analyses demonstrated that Akto Kyrgyz people harbour a genetically close relationship with Turkic-speaking Uyghur and Kazakh. Genetic structure analysis based on the raw genotype data among Eurasian populations further suggested that genetic ancestries and population substructures in Asia are largely associated with language and geography.