cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21235586.v1
title: Learning Coefficient Heterogeneity over Networks: A Distributed Spanning-Tree-Based Fused-Lasso Regression

description: Identifying the latent cluster structure based on model heterogeneity is a fundamental but challenging task arises in many machine learning applications. In this paper, we study the clustered coefficient regression problem in the distributed network systems, where the data are locally collected and held by nodes. Our work aims to improve the regression estimation efficiency by aggregating the neighbors’ information while also identifying the cluster membership for nodes. To achieve efficient estimation and clustering, we develop a distributed spanning-tree-based fused-lasso regression (DTFLR) approach. In particular, we propose an adaptive spanning-tree-based fusion penalty for the low-complexity clustered coefficient regression. We show that our proposed estimator satisfies statistical oracle properties. Additionally, to solve the problem parallelly, we design a distributed generalized alternating direction method of multiplier algorithm, which has a simple node-based implementation scheme and enjoys a linear convergence rate. Collectively, our results in this paper contribute to the theories of low-complexity clustered coefficient regression and distributed optimization over networks. Thorough numerical experiments and real-world data analysis are conducted to verify our theoretical results, which show that our approach outperforms existing works in terms of estimation accuracy, computation speed, and communication costs.
DOI: 10.6084/m9.figshare.21235588
title: Ultra-High Dimensional Quantile Regression for Longitudinal Data: An Application to Blood Pressure Analysis

description: Despite major advances in research and treatment, identifying important genotype risk factors for high blood pressure remains challenging. Traditional genome-wide association studies (GWAS) focus on one single nucleotide polymorphism (SNP) at a time. We aim to select among over half a million SNPs along with time-varying phenotype variables via simultaneous modeling and variable selection, focusing on the most dangerous blood pressure levels at high quantiles. Taking advantage of rich data from a large-scale public health study, we develop and apply a novel quantile penalized generalized estimating equations (GEE) approach, incorporating several key aspects including ultra-high dimensional genetic SNPs, the longitudinal nature of blood pressure measurements, time-varying covariates, and conditional high quantiles of blood pressure. Importantly, we identify interesting new SNPs for high blood pressure. Besides, we find blood pressure levels are likely heterogeneous, where the important risk factors identified differ among quantiles. This comprehensive picture of conditional quantiles of blood pressure can allow more insights and targeted treatments. We provide an efficient computational algorithm and prove consistency, asymptotic normality, and the oracle property for the quantile penalized GEE estimators with ultra-high dimensional predictors. Moreover, we establish model-selection consistency for high-dimensional BIC. Simulation studies show the promise of the proposed approach. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.21235588.v1
title: Ultra-high Dimensional Quantile Regression for Longitudinal Data: an Application to Blood Pressure Analysis

description: Despite major advances in research and treatment, identifying important genotype risk factors for high blood pressure remains challenging. Traditional genome-wide association studies (GWAS) focus on one single nucleotide polymorphism (SNP) at a time. We aim to select among over half a million SNPs along with time-varying phenotype variables via simultaneous modeling and variable selection, focusing on the most dangerous blood pressure levels at high quantiles. Taking advantage of rich data from a large-scale public health study, we develop and apply a novel quantile penalized generalized estimating equations (GEE) approach, incorporating several key aspects including ultra-high dimensional genetic SNPs, the longitudinal nature of blood pressure measurements, time-varying covariates, and conditional high quantiles of blood pressure. Importantly, we identify interesting new SNPs for high blood pressure. Besides, we find blood pressure levels are likely heterogeneous, where the important risk factors identified differ among quantiles. This comprehensive picture of conditional quantiles of blood pressure can allow more insights and targeted treatments. We provide an efficient computational algorithm and prove consistency, asymptotic normality, and the oracle property for the quantile penalized GEE estimators with ultra-high dimensional predictors. Moreover, we establish model-selection consistency for high-dimensional BIC. Simulation studies show the promise of the proposed approach.
DOI: 10.6084/m9.figshare.21235588.v2
title: Ultra-high Dimensional Quantile Regression for Longitudinal Data: an Application to Blood Pressure Analysis

description: Despite major advances in research and treatment, identifying important genotype risk factors for high blood pressure remains challenging. Traditional genome-wide association studies (GWAS) focus on one single nucleotide polymorphism (SNP) at a time. We aim to select among over half a million SNPs along with time-varying phenotype variables via simultaneous modeling and variable selection, focusing on the most dangerous blood pressure levels at high quantiles. Taking advantage of rich data from a large-scale public health study, we develop and apply a novel quantile penalized generalized estimating equations (GEE) approach, incorporating several key aspects including ultra-high dimensional genetic SNPs, the longitudinal nature of blood pressure measurements, time-varying covariates, and conditional high quantiles of blood pressure. Importantly, we identify interesting new SNPs for high blood pressure. Besides, we find blood pressure levels are likely heterogeneous, where the important risk factors identified differ among quantiles. This comprehensive picture of conditional quantiles of blood pressure can allow more insights and targeted treatments. We provide an efficient computational algorithm and prove consistency, asymptotic normality, and the oracle property for the quantile penalized GEE estimators with ultra-high dimensional predictors. Moreover, we establish model-selection consistency for high-dimensional BIC. Simulation studies show the promise of the proposed approach.
DOI: 10.48324/dandi.000891/0.240215.0831
title: Oxygen Imaging of Hypoxic Pockets in the Mouse Cerebral Cortex

description: GeNL bioluminescence imaging detects the existence of spontaneous transient "hypoxic pockets" in awake behaving mice.
DOI: 10.34740/kaggle/dsv/7629231
title: Egypt Gold Prices | Daily Updated
DOI: 10.6084/m9.figshare.7604138
title: Additional file 4: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S4. Detail of the DEGs of citrus in response to DSF/RpfF â mediated Xac infection (XLSX 183 kb)
DOI: 10.6084/m9.figshare.7604138.v1
title: Additional file 4: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S4. Detail of the DEGs of citrus in response to DSF/RpfF â mediated Xac infection (XLSX 183 kb)
DOI: 10.6084/m9.figshare.7604147
title: Additional file 5: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S5. Comparison of the in vitro and in planta DSF/Rpf-mediated QS regulons of Xanthomonas citri subsp. citri (XLSX 29 kb)
DOI: 10.6084/m9.figshare.7604147.v1
title: Additional file 5: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S5. Comparison of the in vitro and in planta DSF/Rpf-mediated QS regulons of Xanthomonas citri subsp. citri (XLSX 29 kb)
DOI: 10.6084/m9.figshare.7604153
title: Additional file 6: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S6. Differentially expressed citrus genes related to plant defense responses (XLSX 17 kb)
DOI: 10.6084/m9.figshare.7604153.v1
title: Additional file 6: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S6. Differentially expressed citrus genes related to plant defense responses (XLSX 17 kb)
DOI: 10.6084/m9.figshare.7604156
title: Additional file 7: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S7. Differentially expressed citrus genes involved in plant secondary metabolisms (XLSX 11 kb)
DOI: 10.6084/m9.figshare.7604156.v1
title: Additional file 7: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S7. Differentially expressed citrus genes involved in plant secondary metabolisms (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8128451
title: Additional file 10: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S10. Significantly enriched GO terms and PANTHER pathways of genes associated with the yak-specific CNVRs. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.8128451.v1
title: Additional file 10: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S10. Significantly enriched GO terms and PANTHER pathways of genes associated with the yak-specific CNVRs. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.8128454
title: Additional file 1: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S1. The IDs of Hsp70 genes from different plants. (XLS 338 kb)
DOI: 10.6084/m9.figshare.8128454.v1
title: Additional file 1: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S1. The IDs of Hsp70 genes from different plants. (XLS 338 kb)
DOI: 10.6084/m9.figshare.7604165
title: Additional file 8: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S8. Differentially expressed citrus genes involved in cell wall modifications (XLSX 13 kb)
DOI: 10.6084/m9.figshare.7604165.v1
title: Additional file 8: of Diffusible signal factor (DSF)-mediated quorum sensing modulates expression of diverse traits in Xanthomonas citri and responses of citrus plants to promote disease

description: Table S8. Differentially expressed citrus genes involved in cell wall modifications (XLSX 13 kb)
DOI: 10.6084/m9.figshare.8128463
title: Additional file 11: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S11. Information about QTLs found to be overlapped with yak-specific CNVRs identified in the present study. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.8128463.v1
title: Additional file 11: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S11. Information about QTLs found to be overlapped with yak-specific CNVRs identified in the present study. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.8128466
title: Additional file 2: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S2. FPKM values of 52 BoHsp70 genes in various cabbage tissues. (XLS 29 kb)
DOI: 10.6084/m9.figshare.8128466.v1
title: Additional file 2: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S2. FPKM values of 52 BoHsp70 genes in various cabbage tissues. (XLS 29 kb)
DOI: 10.6084/m9.figshare.8128469
title: MOESM11 of Chronic prostatitis alters the prostatic microenvironment and accelerates preneoplastic lesions in C57BL/6 mice

description: Additional file 11:Table S3. Mutations affected the EAP group but were absent in the naĂŻve or CFA group atÂ one, three and sixÂ months.
DOI: 10.6084/m9.figshare.8128469.v1
title: MOESM11 of Chronic prostatitis alters the prostatic microenvironment and accelerates preneoplastic lesions in C57BL/6 mice

description: Additional file 11:Table S3. Mutations affected the EAP group but were absent in the naĂŻve or CFA group atÂ one, three and sixÂ months.
DOI: 10.6084/m9.figshare.8128472
title: Additional file 12: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S12. Detail information about primers used for CNVRs validation. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.8128472.v1
title: Additional file 12: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S12. Detail information about primers used for CNVRs validation. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.8128475
title: Additional file 3: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S3. FPKM values of 8 BoHsp70 genes in different periods of buds. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.8128475.v1
title: Additional file 3: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S3. FPKM values of 8 BoHsp70 genes in different periods of buds. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.8128478
title: MOESM12 of Chronic prostatitis alters the prostatic microenvironment and accelerates preneoplastic lesions in C57BL/6 mice

description: Additional file 12: Table S4. Mutations affected the E.coli group but were absent in the naĂŻve or PBS group at one, three and sixÂ months.
DOI: 10.6084/m9.figshare.8128478.v1
title: MOESM12 of Chronic prostatitis alters the prostatic microenvironment and accelerates preneoplastic lesions in C57BL/6 mice

description: Additional file 12: Table S4. Mutations affected the E.coli group but were absent in the naĂŻve or PBS group at one, three and sixÂ months.
DOI: 10.6084/m9.figshare.8128481
title: Additional file 1: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S1. Detail information about raw CNVs calling results. (XLSX 1726 kb)
DOI: 10.6084/m9.figshare.8128481.v1
title: Additional file 1: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S1. Detail information about raw CNVs calling results. (XLSX 1726 kb)
DOI: 10.6084/m9.figshare.8128484
title: Additional file 4: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S4. The primer sequences of 9 BoHsp70 genes used for qRT-PCR. (XLS 22 kb)
DOI: 10.6084/m9.figshare.8128484.v1
title: Additional file 4: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S4. The primer sequences of 9 BoHsp70 genes used for qRT-PCR. (XLS 22 kb)
DOI: 10.6084/m9.figshare.8128490
title: Additional file 5: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S5. The primer used for cloning of BoHsp70â 5. (XLS 19 kb)
DOI: 10.6084/m9.figshare.8128490.v1
title: Additional file 5: of Genome-wide analysis of HSP70 family genes in cabbage (Brassica oleracea var. capitata) reveals their involvement in floral development

description: Table S5. The primer used for cloning of BoHsp70â 5. (XLS 19 kb)
DOI: 10.6084/m9.figshare.8128493
title: Additional file 2: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S2. Detail information about CNVs after filtering. (XLSX 1227 kb)
DOI: 10.6084/m9.figshare.8128493.v1
title: Additional file 2: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S2. Detail information about CNVs after filtering. (XLSX 1227 kb)
DOI: 10.6084/m9.figshare.8128499
title: Additional file 3: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S3. Detail information of the detected CNVRs. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.8128499.v1
title: Additional file 3: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S3. Detail information of the detected CNVRs. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.8128502
title: Additional file 4: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S4. Information about Ensembl genes found to be overlapped with CNVR identified in the present study. (XLSX 134 kb)
DOI: 10.6084/m9.figshare.8128502.v1
title: Additional file 4: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S4. Information about Ensembl genes found to be overlapped with CNVR identified in the present study. (XLSX 134 kb)
DOI: 10.6084/m9.figshare.8128508
title: Additional file 5: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S5. Significantly enriched GO terms and Reactome pathways of genes associated with the identified CNVRs. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8128508.v1
title: Additional file 5: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S5. Significantly enriched GO terms and Reactome pathways of genes associated with the identified CNVRs. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8128514
title: Additional file 6: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S6. Hypoxia-related genes found to be overlapped with CNVRs identified in the present study. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.8128514.v1
title: Additional file 6: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S6. Hypoxia-related genes found to be overlapped with CNVRs identified in the present study. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.8128517
title: Additional file 7: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S7. Information about QTLs found to be overlapped with CNVRs identified in the present study. (XLSX 104 kb)
DOI: 10.6084/m9.figshare.8128517.v1
title: Additional file 7: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S7. Information about QTLs found to be overlapped with CNVRs identified in the present study. (XLSX 104 kb)
DOI: 10.6084/m9.figshare.8128520
title: Additional file 8: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S8. Detail information of the yak-specific CNVRs. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8128520.v1
title: Additional file 8: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S8. Detail information of the yak-specific CNVRs. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8128523
title: Additional file 9: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S9. Information about Ensembl genes found to be overlapped with yak-specific CNVRs identified in the present study. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.8128523.v1
title: Additional file 9: of Genome-wide detection of copy number variations in polled yak using the Illumina BovineHD BeadChip

description: Table S9. Information about Ensembl genes found to be overlapped with yak-specific CNVRs identified in the present study. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.8128577
title: Additional file 10: of Genome-wide identification of MST, SUT and SWEET family sugar transporters in root parasitic angiosperms and analysis of their expression during host parasitism

description: MEME motifs and their associations with stages of the life cycle. These associations were determined by finding the genes to which these motifs belonged, and determined the stage in which these genes are most strongly expressed. This was done for (A) MSTs, (B) SUTs, and (C) SWEETs. The motifs most strongly associated with given stages were determined by finding the stage with the highest raw number of occurrences of the motif in that stage, as well as the representation of that motif as a percentage of motifs present in genes that showed strongest expression during that stage. (XLSX 47 kb)
DOI: 10.6084/m9.figshare.8128577.v1
title: Additional file 10: of Genome-wide identification of MST, SUT and SWEET family sugar transporters in root parasitic angiosperms and analysis of their expression during host parasitism

description: MEME motifs and their associations with stages of the life cycle. These associations were determined by finding the genes to which these motifs belonged, and determined the stage in which these genes are most strongly expressed. This was done for (A) MSTs, (B) SUTs, and (C) SWEETs. The motifs most strongly associated with given stages were determined by finding the stage with the highest raw number of occurrences of the motif in that stage, as well as the representation of that motif as a percentage of motifs present in genes that showed strongest expression during that stage. (XLSX 47 kb)
DOI: 10.6084/m9.figshare.7604291
title: Additional file 1: of Association between the insulin-like growth factor 1 gene rs2195239 and rs2162679 polymorphisms and cancer risk: a meta-analysis

description: Table S1. Quality score assessment. Table S2. Sensitivity analyses for rs2195239 and rs2162679 polymorphisms and cancer risk. Table S3. MAFs of rs2195239 (genomic position: chromosome12: 102462924) and rs2162679 (genomic position: Chromosome12: 102477481) and polymorphisms in the populations from the 1000 Genomes Project Phase 3. Table S4. Meta-analysis of the association between rs2195239 polymorphism and cancer risk, omitting the study of Patel or Birmann. Table S5. The OMIM numbers for important genes and pathogenic conditions in this study. Figure S1. Linkage disequilibrium analyses for IGF1 rs2195239 and rs2162679 polymorphisms in populations from the 1000 Genomes Project Phase 3. (ZIP 1155 kb)