cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21593957.v1
title: Additional file 2 of Quantifying substantial carcinogenesis of genetic and environmental factors from measurement error in the number of stem cell divisions

description: Additional file 2: Table S1. Ranked matrix of LCR in global scope and the contribution of the genetic and environmental factors on the variation in cancer risk. Table S2. Ranked matrix of LCR in national-wide of China and the contribution of the genetic and environmental factors on the variation in cancer risk. Table S3. Ranked matrix of LCR in counties of Shandong province, China and the contribution of the genetic and environmental factors on the variation in cancer risk. Table S4. Ranked matrix of LCR in global scope and R2 of LCRi on LTCD0. Table S5. Ranked matrix of LCR in global scope and R2 of LCRi on SMN0. Table S6. Ranked matrix of ACR in global scope and the contribution of genetic and environmental factors for each site-specific cancer. Table S7. Ranked matrix of ACR in Shandong province and the contribution of genetic and environmental factors for each site-specific cancer.
DOI: 10.6084/m9.figshare.6389615
title: Additional file 2: of A computational framework for complex disease stratification from multiple large-scale datasets

description: Complete results of the enrichment analysis between clusters. (XLSX 4293 kb)
DOI: 10.6084/m9.figshare.6389615.v1
title: Additional file 2: of A computational framework for complex disease stratification from multiple large-scale datasets

description: Complete results of the enrichment analysis between clusters. (XLSX 4293 kb)
DOI: 10.6084/m9.figshare.25193039
title: scd.lin_3.rds

description: Original object.
DOI: 10.6084/m9.figshare.25193039.v1
title: scd.lin_3.rds

description: Original object.
DOI: 10.6084/m9.figshare.6389594
title: Additional file 1: of A computational framework for complex disease stratification from multiple large-scale datasets

description: AUC of consensus clustering. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.21069662.v1
title: Additional file 3 of Transcriptomic and alternative splicing analyses provide insights into the roles of exogenous salicylic acid ameliorating waxy maize seedling growth under heat stress

description: Additional file 2 Table S3. Primer sequences of DEGs encoding genes used for qRT-PCR.
DOI: 10.6084/m9.figshare.21069656.v1
title: Additional file 1 of Transcriptomic and alternative splicing analyses provide insights into the roles of exogenous salicylic acid ameliorating waxy maize seedling growth under heat stress

description: Additional file 1 Table S1. Summary of 18 RNA-seq samples with QC quality.
DOI: 10.6084/m9.figshare.21069659.v1
title: Additional file 2 of Transcriptomic and alternative splicing analyses provide insights into the roles of exogenous salicylic acid ameliorating waxy maize seedling growth under heat stress

description: Additional file 3 Table S2. List of plant hormone signal transduction pathway related DEGs in different comparisons.
DOI: 10.6084/m9.figshare.5341093
title: Early Cretaceous K-rich rhyolites from the Duolong Cu–Au deposit, southern Qiangtang, China: evidence for crustal growth

description: We report new zircon U–Pb age, Hf isotopic, and major and trace element data for rhyolites from the Duolong Ore Concentration Area of the Southern Qiangtang Terrane. Building on previous studies, we constrain the tectonic setting and propose a model to explain the geodynamics and crustal growth during regional magmatism in the Early Cretaceous. The analysed rhyolites yield laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) zircon U–Pb ages of 115 and 118 Ma. The rocks are K-rich (K<sub>2</sub>O = 6.66–9.93 wt.%; K<sub>2</sub>O/Na<sub>2</sub>O = 8.2–19.7 wt.%), alkaline and peraluminous (A/CNK = 1.02–1.46), and are characterized by high SiO<sub>2</sub> contents (72.8–78.8 wt.%) similar to highly fractionated I-type granites. Fractionation of Fe–Ti oxides, plagioclase, hornblende, Ti-bearing phases, apatite, monazite, allanite and zircon contributed to the variations in major and trace element chemistry. High K<sub>2</sub>O contents are likely due to partial melting of the continental crust. The samples have positive zircon <i>ε</i>Hf(<i>t</i>) values ranging from +7.1 to +11.2. These features, together with young zircon Hf crustal model ages of 489–721 Ma, indicate that the K-rich rhyolites were derived from juvenile lower crust with an input of a mantle-derived component. We suggest that the Early Cretaceous K-rich rhyolites formed in a continental arc setting during northward subduction of Bangong Co–Nujiang oceanic lithosphere. Basaltic magma underplating was responsible for vertical crustal growth, triggered by slab roll-back in the Duolong Ore Concentration Area in the Early Cretaceous.
DOI: 10.6084/m9.figshare.21069699
title: Additional file 3 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 3: Table S13. mQTLs for metabolites in soybean seed using genome-wide composite interval mapping (GCIM), inclusive composite interval mapping (ICIM), and multi-locus GWAS.
DOI: 10.6084/m9.figshare.21069699.v1
title: Additional file 3 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 3: Table S13. mQTLs for metabolites in soybean seed using genome-wide composite interval mapping (GCIM), inclusive composite interval mapping (ICIM), and multi-locus GWAS.
DOI: 10.6084/m9.figshare.21069696
title: Additional file 2 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 2: Table S7. Quantitative trait loci (QTLs) for seed oil-related traits in soybean seed using genome-wide composite interval mapping, inclusive composite interval mapping, and multi-locus GWAS methods.
DOI: 10.6084/m9.figshare.21069702
title: Additional file 4 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 4: Table S14. mQTLs for lipids in soybean seed using genome-wide composite interval mapping (GCIM), inclusive composite interval mapping (ICIM), and multi-locus GWAS.
DOI: 10.6084/m9.figshare.21069696.v1
title: Additional file 2 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 2: Table S7. Quantitative trait loci (QTLs) for seed oil-related traits in soybean seed using genome-wide composite interval mapping, inclusive composite interval mapping, and multi-locus GWAS methods.
DOI: 10.6084/m9.figshare.21069702.v1
title: Additional file 4 of 4D genetic networks reveal the genetic basis of metabolites and seed oil-related traits in 398 soybean RILs

description: Additional file 4: Table S14. mQTLs for lipids in soybean seed using genome-wide composite interval mapping (GCIM), inclusive composite interval mapping (ICIM), and multi-locus GWAS.
DOI: 10.6084/m9.figshare.21069666
title: Additional file 4 of Dissection of transcriptome dysregulation and immune characterization in women with germline BRCA1 mutation at single-cell resolution

description: Additional file 4: Table S2. Top 100 marker genes of fibroblast, T cell, monocytes and blood vessel endothelium.
DOI: 10.6084/m9.figshare.21069660.v1
title: Additional file 2 of Dissection of transcriptome dysregulation and immune characterization in women with germline BRCA1 mutation at single-cell resolution

description: Additional file 2: Table S1. Patient information.
DOI: 10.6084/m9.figshare.21069663
title: Additional file 3 of Dissection of transcriptome dysregulation and immune characterization in women with germline BRCA1 mutation at single-cell resolution

description: Additional file 3: Table S2. Cell numbers and percentages of each major cell type.
DOI: 10.6084/m9.figshare.21069672
title: Additional file 6 of Dissection of transcriptome dysregulation and immune characterization in women with germline BRCA1 mutation at single-cell resolution

description: Additional file 6: Table S5. The ROE of all TFs in BRCA1 and Normal sample.
DOI: 10.6084/m9.figshare.22522372.v1
title: Dataset from: A survey of how biology researchers assess credibility when serving on grant and hiring committees

description: This dataset supports the study, 'A survey of how biology researchers assess credibility when serving on grant and hiring committees'. This dataset contains 2 files:
<br>
1) The survey sent to researchers ('Research Assessment Survey Instrument.pdf')
2) The anonymised data export of survey results (' Data-Assessment-Survey-Public.xlsx')
DOI: 10.6084/m9.figshare.21069672.v1
title: Additional file 6 of Dissection of transcriptome dysregulation and immune characterization in women with germline BRCA1 mutation at single-cell resolution

description: Additional file 6: Table S5. The ROE of all TFs in BRCA1 and Normal sample.
DOI: 10.6084/m9.figshare.12156882
title: Planation surface and valley shoulder elevation in different parts of the middle reaches of YZR from River capture in the middle reaches of the palaeo-Yarlung Zangbo River

description: There are 51 tributaries in the middle reaches of the Yarlung Zangbo River (YZR), and the confluences of 87% of the tributaries west of Jiacha Gorge are high-angle or perpendicular, reflecting the anomalous development of these tributaries. In this paper, field investigation and digital elevation model (DEM) methods were used to analyse the causes of this anomalous phenomenon, and it was found that there was a watershed in the area of the Jiacha Gorge. The palaeo-YZR west of the Jiacha Gorge flowed westward before the early Pleistocene into the Zada, Zhongba, Jilong and Gamba–Dingri palaeolakes, which featured a large amount of total accommodation space in the western Qinghai–Tibet Plateau; thus, this river was a continental river. With the intensification of the collision between the Indian plate and the Eurasian plate, the Qinghai–Tibet Plateau experienced rapid uplift and formed a landscape with high elevations in the west and lower elevations in the east, promoting the headward erosion of the eastward-flowing river. During the early Pleistocene, the river east of the Jiacha Gorge crossed the watershed and captured the palaeo-YZR, causing a reversal in the flow direction of the palaeo-YZR.
DOI: 10.6084/m9.figshare.14778262
title: Single-cell immune checkpoint landscape of PBMCs stimulated with <i>Candida albicans</i>

description: Immune checkpoints play various important roles in tumour immunity, which usually contribute to T cells’ exhaustion, leading to immunosuppression in the tumour microenvironment. However, the roles of immune checkpoints in infectious diseases, especially fungal infection, remain elusive. Here, we reanalyzed a recent published single-cell RNA-sequencing (scRNA-seq) data of peripheral blood mononuclear cells (PBMCs) stimulated with <i>Candida albicans</i> (<i>C. albicans</i>), to explore the expression patterns of immune checkpoints after <i>C. albicans</i> bloodstream infection. We characterized the heterogeneous pathway activities among different immune cell subpopulations after <i>C. albicans</i> infection. The CTLA-4 pathway was up-regulated in stimulated CD4<sup>+</sup> and CD8<sup>+</sup> T cells, while the PD-1 pathway showed high activity in stimulated plasmacytoid dendritic cell (pDC) and monocytes. Importantly, we found that immunosuppressive checkpoints <i>HAVCR2</i> and <i>LAG3</i> were only expressed in stimulated NK and CD8<sup>+</sup> T cells, respectively. Their viabilities were validated by flow cytometry. We also identified three overexpressed genes (<i>ISG20</i>, <i>LY6E</i>, <i>ISG15</i>) across all stimulated cells. Also, two monocyte-specific overexpressed genes (<i>SNX10</i>, <i>IDO1</i>) were screened out in this study. Together, these results supplemented the landscape of immune checkpoints in fungal infection, which may serve as potential therapeutic targets for <i>C. albicans</i> infection. Moreover, the genes with the most relevant for <i>C. albicans</i> infection were identified in this study.
DOI: 10.6084/m9.figshare.12156885
title: River network flow direction from River capture in the middle reaches of the palaeo-Yarlung Zangbo River

description: There are 51 tributaries in the middle reaches of the Yarlung Zangbo River (YZR), and the confluences of 87% of the tributaries west of Jiacha Gorge are high-angle or perpendicular, reflecting the anomalous development of these tributaries. In this paper, field investigation and digital elevation model (DEM) methods were used to analyse the causes of this anomalous phenomenon, and it was found that there was a watershed in the area of the Jiacha Gorge. The palaeo-YZR west of the Jiacha Gorge flowed westward before the early Pleistocene into the Zada, Zhongba, Jilong and Gamba–Dingri palaeolakes, which featured a large amount of total accommodation space in the western Qinghai–Tibet Plateau; thus, this river was a continental river. With the intensification of the collision between the Indian plate and the Eurasian plate, the Qinghai–Tibet Plateau experienced rapid uplift and formed a landscape with high elevations in the west and lower elevations in the east, promoting the headward erosion of the eastward-flowing river. During the early Pleistocene, the river east of the Jiacha Gorge crossed the watershed and captured the palaeo-YZR, causing a reversal in the flow direction of the palaeo-YZR.
DOI: 10.6084/m9.figshare.12156885.v1
title: River network flow direction from River capture in the middle reaches of the palaeo-Yarlung Zangbo River

description: There are 51 tributaries in the middle reaches of the Yarlung Zangbo River (YZR), and the confluences of 87% of the tributaries west of Jiacha Gorge are high-angle or perpendicular, reflecting the anomalous development of these tributaries. In this paper, field investigation and digital elevation model (DEM) methods were used to analyse the causes of this anomalous phenomenon, and it was found that there was a watershed in the area of the Jiacha Gorge. The palaeo-YZR west of the Jiacha Gorge flowed westward before the early Pleistocene into the Zada, Zhongba, Jilong and Gamba–Dingri palaeolakes, which featured a large amount of total accommodation space in the western Qinghai–Tibet Plateau; thus, this river was a continental river. With the intensification of the collision between the Indian plate and the Eurasian plate, the Qinghai–Tibet Plateau experienced rapid uplift and formed a landscape with high elevations in the west and lower elevations in the east, promoting the headward erosion of the eastward-flowing river. During the early Pleistocene, the river east of the Jiacha Gorge crossed the watershed and captured the palaeo-YZR, causing a reversal in the flow direction of the palaeo-YZR.
DOI: 10.6084/m9.figshare.12941115
title: Additional file 2 of A family of partial-linear single-index models for analyzing complex environmental exposures with continuous, categorical, time-to-event, and longitudinal health outcomes

description: Additional file 2. Cleaning dataset of 800 subjects from NHANES 2003–2004 cycle. Variables include respondent sequence number of subject, outcome triglyceride, 22 environmental factors, 3 demographic confounding variables, and laboratory subsample C weight.
DOI: 10.6084/m9.figshare.12941115.v1
title: Additional file 2 of A family of partial-linear single-index models for analyzing complex environmental exposures with continuous, categorical, time-to-event, and longitudinal health outcomes

description: Additional file 2. Cleaning dataset of 800 subjects from NHANES 2003–2004 cycle. Variables include respondent sequence number of subject, outcome triglyceride, 22 environmental factors, 3 demographic confounding variables, and laboratory subsample C weight.
DOI: 10.6096/5001
title: RENAG GNSS combined velocity field

description: The combined GNSS velocity field "RENAG22" aims at unifying and comparing all GNSS velocity estimates for the stations of the SNO RENAG permanent network and, by extension, of all permanent GNSS stations on the European territory of France. The combined solution is computed from the available GNSS velocity fields made available by 14 national and foreign groups. Among the national groups, the combined RENAG22 velocity field includes the velocity solutions of different OSUs and laboratories participating in the SNO RENAG (EOST, OCA, OMP, OREME, OSUG, ULR), the solution of the IGN's RGP network, as well as European solutions realized by French groups (at EOST and OSUG). Among the velocity fields made abroad, the combined RENAG22 solution includes the European reference frame solution (EUREF), as well as its densification (EPND), and the PPP velocity fields from JPL, NGL and INGV.

In total, the combined RENAG22 solution gathers at least one velocity estimate for 693 GNSS stations. In addition to that, the combined RENAG22 solution includes several velocity estimates per station, giving access to the evaluation of the velocity repeatability for 473 stations having at least 4 different velocity estimates. The typical repeatability of the velocities, for stations with at least 4 estimates, is 0.1 and 0.3 mm/year for horizontal and vertical velocities.

See the PDF combination report for further details (only in French yet).

Files of the RENAG2022 solution provided:  

-	RENAG22.ITRF2014.velocity : combined velocity field in ITRF2014.
-	RENAG22.ETRF2014.velocity : combined velocity field in ETRF2014.
-	RENAG22.residuals : velocity residuals per station and solution with respect to the combined solution.
-	RENAG22.outliers : rejected stations with their velocity residual.
-	RENAG22.wrms_site : repeatability (WRMS) of velocity estimates per station.
-	RENAG22.wrms_solution : repeatability (WRMS) of velocity estimates per solution.
-	RENAG22.renames : renamed stations per solution.
DOI: 10.6084/m9.figshare.14254026
title: Additional file 1 of Peripheral immune profile of children with Talaromyces marneffei infections: a retrospective analysis of 21 cases

description: Additional file 1.
DOI: 10.6084/m9.figshare.14254026.v1
title: Additional file 1 of Peripheral immune profile of children with Talaromyces marneffei infections: a retrospective analysis of 21 cases

description: Additional file 1.
DOI: 10.5281/zenodo.10278726
title: Tanino-Springsteen_Fall_Webworm_Instar_Dataset
DOI: 10.5281/zenodo.10278727
title: Tanino-Springsteen_Fall_Webworm_Instar_Dataset
DOI: 10.6084/m9.figshare.5341087
title: Early Cretaceous adakitic rocks in the Anqing region, southeastern China: constraints on petrogenesis and metallogenic significance

description: The Anqing region in Lower Yangtze River metallogenic belt is one of the important Cu polymetal producers in China. The origin of Cu polymetallic deposits in the region is closely related to Early Cretaceous adakitic intrusions. To constrain the petrogenetic and metallogenic significance of the adakitic rocks, a detailed geochronological, geochemical, and Sr–Nd–Pb–Hf isotopic study was performed. The Anqing adakitic rocks (SiO<sub>2</sub> = 57.4–64.2 wt.%) consist mainly of quartz monzodiorite, formed at 138.2 ± 1.7 Ma (Mean Standard Weighted Deviation (MSWD) = 0.61). They have high MgO, Al<sub>2</sub>O<sub>3</sub>, Sr, and low Rb, Y, Yb contents, together with high Sr/Y (50.5–222) and La/Yb (31.9–46.9) ratios. They also show negative whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) (−9.8 to −8.5) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) (−10.0 to −5.4), and high oxygen fugacity (mainly −17.0 to −8.01) values and radiogenic Pb isotopic compositions with (<sup>206</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 17.692–17.884, (<sup>207</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 15.413–15.511, and (<sup>208</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 37.611–37.943. Coupled with negative Nb–Ta anomalies, low K<sub>2</sub>O/Na<sub>2</sub>O ratios (0.39–0.62), and high Mg# values (0.44–0.71), these data suggest the adakitic rocks and associated large-scale Cu–Au mineralization of the Anqing region resulted from partial melting of the high oxidized subducted oceanic crust. Addition of mantle-derived magmas and assimilation of crustal materials during emplacement are also possible.
DOI: 10.6084/m9.figshare.5341087.v1
title: Early Cretaceous adakitic rocks in the Anqing region, southeastern China: constraints on petrogenesis and metallogenic significance

description: The Anqing region in Lower Yangtze River metallogenic belt is one of the important Cu polymetal producers in China. The origin of Cu polymetallic deposits in the region is closely related to Early Cretaceous adakitic intrusions. To constrain the petrogenetic and metallogenic significance of the adakitic rocks, a detailed geochronological, geochemical, and Sr–Nd–Pb–Hf isotopic study was performed. The Anqing adakitic rocks (SiO<sub>2</sub> = 57.4–64.2 wt.%) consist mainly of quartz monzodiorite, formed at 138.2 ± 1.7 Ma (Mean Standard Weighted Deviation (MSWD) = 0.61). They have high MgO, Al<sub>2</sub>O<sub>3</sub>, Sr, and low Rb, Y, Yb contents, together with high Sr/Y (50.5–222) and La/Yb (31.9–46.9) ratios. They also show negative whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) (−9.8 to −8.5) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) (−10.0 to −5.4), and high oxygen fugacity (mainly −17.0 to −8.01) values and radiogenic Pb isotopic compositions with (<sup>206</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 17.692–17.884, (<sup>207</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 15.413–15.511, and (<sup>208</sup>Pb/<sup>204</sup>Pb)<i><sub>i</sub></i> = 37.611–37.943. Coupled with negative Nb–Ta anomalies, low K<sub>2</sub>O/Na<sub>2</sub>O ratios (0.39–0.62), and high Mg# values (0.44–0.71), these data suggest the adakitic rocks and associated large-scale Cu–Au mineralization of the Anqing region resulted from partial melting of the high oxidized subducted oceanic crust. Addition of mantle-derived magmas and assimilation of crustal materials during emplacement are also possible.
DOI: 10.6084/m9.figshare.14254029.v1
title: Additional file 2 of Peripheral immune profile of children with Talaromyces marneffei infections: a retrospective analysis of 21 cases

description: Additional file 2.
DOI: 10.6084/m9.figshare.14254029
title: Additional file 2 of Peripheral immune profile of children with Talaromyces marneffei infections: a retrospective analysis of 21 cases

description: Additional file 2.
DOI: 10.6084/m9.figshare.12156882.v1
title: Planation surface and valley shoulder elevation in different parts of the middle reaches of YZR from River capture in the middle reaches of the palaeo-Yarlung Zangbo River

description: There are 51 tributaries in the middle reaches of the Yarlung Zangbo River (YZR), and the confluences of 87% of the tributaries west of Jiacha Gorge are high-angle or perpendicular, reflecting the anomalous development of these tributaries. In this paper, field investigation and digital elevation model (DEM) methods were used to analyse the causes of this anomalous phenomenon, and it was found that there was a watershed in the area of the Jiacha Gorge. The palaeo-YZR west of the Jiacha Gorge flowed westward before the early Pleistocene into the Zada, Zhongba, Jilong and Gamba–Dingri palaeolakes, which featured a large amount of total accommodation space in the western Qinghai–Tibet Plateau; thus, this river was a continental river. With the intensification of the collision between the Indian plate and the Eurasian plate, the Qinghai–Tibet Plateau experienced rapid uplift and formed a landscape with high elevations in the west and lower elevations in the east, promoting the headward erosion of the eastward-flowing river. During the early Pleistocene, the river east of the Jiacha Gorge crossed the watershed and captured the palaeo-YZR, causing a reversal in the flow direction of the palaeo-YZR.
DOI: 10.6084/m9.figshare.14254032.v1
title: Additional file 3 of Peripheral immune profile of children with Talaromyces marneffei infections: a retrospective analysis of 21 cases

description: Additional file 3.