cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12933641
title: Low-Rank Covariance Function Estimation for Multidimensional Functional Data

description: Multidimensional function data arise from many fields nowadays. The covariance function plays an important role in the analysis of such increasingly common data. In this article, we propose a novel nonparametric covariance function estimation approach under the framework of reproducing kernel Hilbert spaces (RKHS) that can handle both sparse and dense functional data. We extend multilinear rank structures for (finite-dimensional) tensors to functions, which allow for flexible modeling of both covariance operators and marginal structures. The proposed framework can guarantee that the resulting estimator is automatically semipositive definite, and can incorporate various spectral regularizations. The trace-norm regularization in particular can promote low ranks for both covariance operator and marginal structures. Despite the lack of a closed form, under mild assumptions, the proposed estimator can achieve unified theoretical results that hold for any relative magnitudes between the sample size and the number of observations per sample field, and the rate of convergence reveals the phase-transition phenomenon from sparse to dense functional data. Based on a new representer theorem, an ADMM algorithm is developed for the trace-norm regularization. The appealing numerical performance of the proposed estimator is demonstrated by a simulation study and the analysis of a dataset from the Argo project. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.12933641.v1
title: Low-Rank Covariance Function Estimation for Multidimensional Functional Data

description: Multidimensional function data arise from many fields nowadays. The covariance function plays an important role in the analysis of such increasingly common data. In this article, we propose a novel nonparametric covariance function estimation approach under the framework of reproducing kernel Hilbert spaces (RKHS) that can handle both sparse and dense functional data. We extend multilinear rank structures for (finite-dimensional) tensors to functions, which allow for flexible modeling of both covariance operators and marginal structures. The proposed framework can guarantee that the resulting estimator is automatically semipositive definite, and can incorporate various spectral regularizations. The trace-norm regularization in particular can promote low ranks for both covariance operator and marginal structures. Despite the lack of a closed form, under mild assumptions, the proposed estimator can achieve unified theoretical results that hold for any relative magnitudes between the sample size and the number of observations per sample field, and the rate of convergence reveals the phase-transition phenomenon from sparse to dense functional data. Based on a new representer theorem, an ADMM algorithm is developed for the trace-norm regularization. The appealing numerical performance of the proposed estimator is demonstrated by a simulation study and the analysis of a dataset from the Argo project. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.25245358
title: Network file generated by vcontact2

description: source data of Fig. 4a
DOI: 10.6084/m9.figshare.24602367
title: ReDIRECT Baseline Summary Tables and Figures

description: Aggregate data for baseline characteristics in the ReDIRECT Study
DOI: 10.6084/m9.figshare.24602367.v3
title: ReDIRECT Baseline Summary Tables and Figures

description: Aggregate data for baseline characteristics in the ReDIRECT Study
DOI: 10.6084/m9.figshare.24602367.v2
title: ReDIRECT Baseline Summary Tables and Figures

description: Aggregate data for baseline characteristics in the ReDIRECT Study
DOI: 10.6084/m9.figshare.8215064
title: Additional file 3: of The long non-coding RNA Snhg3 is essential for mouse embryonic stem cell self-renewal and pluripotency

description: Identified Snhg3 interacting proteins. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.8215064.v1
title: Additional file 3: of The long non-coding RNA Snhg3 is essential for mouse embryonic stem cell self-renewal and pluripotency

description: Identified Snhg3 interacting proteins. (XLSX 26 kb)
DOI: 10.5281/zenodo.10680177
title: 1. Original data files

description: The data used for this project were available upon request from the Florida Fish and Wildlife Research Institute (FWRI), part of the Florida Fish and Wildlife Conservation Commission (FWC). FWRI may be contacted at 100 8th Ave Southeast St Petersburg FL 33701 USA, and by phone at 1+(727) 896-8626.
DOI: 10.5281/zenodo.10680178
title: 1. Original data files

description: The data used for this project were available upon request from the Florida Fish and Wildlife Research Institute (FWRI), part of the Florida Fish and Wildlife Conservation Commission (FWC). FWRI may be contacted at 100 8th Ave Southeast St Petersburg FL 33701 USA, and by phone at 1+(727) 896-8626.
DOI: 10.5281/zenodo.10678041
title: Optimal sensitivity for 1H detected relayed DNP of organic solids at fast MAS

description: NMR raw data, matlab scripts, and data related to publication: https://doi.org/10.1016/j.jmr.2024.107645.

The raw data content is described in the Supporting Information of the publication available at the DOI given above.
DOI: 10.5281/zenodo.10678042
title: Optimal sensitivity for 1H detected relayed DNP of organic solids at fast MAS

description: NMR raw data, matlab scripts, and data related to publication: https://doi.org/10.1016/j.jmr.2024.107645.

The raw data content is described in the Supporting Information of the publication available at the DOI given above.
DOI: 10.6084/m9.figshare.8215121
title: Additional file 1: of Interpreting the MicroRNA-15/107 family: interaction identification by combining network based and experiment supported approach

description: Computationally predicted target interaction of miR-15/107 family (Targetscan database). (XLSX 578 kb)
DOI: 10.6084/m9.figshare.8215121.v1
title: Additional file 1: of Interpreting the MicroRNA-15/107 family: interaction identification by combining network based and experiment supported approach

description: Computationally predicted target interaction of miR-15/107 family (Targetscan database). (XLSX 578 kb)
DOI: 10.6084/m9.figshare.8215130
title: Additional file 1: of Genome-wide DNA methylation and hydroxymethylation analysis reveal human menstrual blood-derived stem cells inhibit hepatocellular carcinoma growth through oncogenic pathway suppression via regulating 5-hmC in enhancer elements

description: Table S1. The sequences of primers for RT-PCR. Table S2. Top 20 pathways of DHMRs in enhancer regions in HCC cells after MenSC coculture. Table S3. Top 20 pathways of DMRs in enhancer regions in HCC cells after MenSC coculture. (XLSX 76 kb)
DOI: 10.6084/m9.figshare.8215130.v1
title: Additional file 1: of Genome-wide DNA methylation and hydroxymethylation analysis reveal human menstrual blood-derived stem cells inhibit hepatocellular carcinoma growth through oncogenic pathway suppression via regulating 5-hmC in enhancer elements

description: Table S1. The sequences of primers for RT-PCR. Table S2. Top 20 pathways of DHMRs in enhancer regions in HCC cells after MenSC coculture. Table S3. Top 20 pathways of DMRs in enhancer regions in HCC cells after MenSC coculture. (XLSX 76 kb)
DOI: 10.6084/m9.figshare.8215133
title: Additional file 2: of Interpreting the MicroRNA-15/107 family: interaction identification by combining network based and experiment supported approach

description: Experimentally validated target interaction of miR-15/107 family (TarBase v8.0). (XLSX 98 kb)
DOI: 10.6084/m9.figshare.8215133.v1
title: Additional file 2: of Interpreting the MicroRNA-15/107 family: interaction identification by combining network based and experiment supported approach

description: Experimentally validated target interaction of miR-15/107 family (TarBase v8.0). (XLSX 98 kb)
DOI: 10.57745/epzguk
title: DEG [LA_C-LA_S] leaf.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in leaf in LA1420
DOI: 10.6084/m9.figshare.19225209
title: A Study on the Deep Electrical Structure of the North-South Gravity Lineament in Northeastern China

description: The nonlinear conjugate gradient inversion algorithm (NLCG; Rodi & Mackie, 2001) was used for the 2D inversion.
DOI: 10.17632/r5y69h6bth.1
title: Maladapting to Climate Change - Economic Modelling - v240217

description: Research Data for ECMODE-D-23-00926: Maladapting to Climate Change: Evidence from High-Temperature Shocks on Carbon Emission Intensity
DOI: 10.57745/h6d9sx
title: DEG [Ce_C-Ce_S] fruit.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in fruit in Cervil
DOI: 10.57745/rjydkk
title: 1_transcriptome_analysis_12072022_leaf.Rmd

description: Script R for DEG analysis
DOI: 10.57745/yrrrxm
title: DEG [LA_C-LA_S] fruit.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in fruit in LA1420
DOI: 10.17632/r5y69h6bth.2
title: Maladapting to Climate Change - Economic Modelling - v240217

description: Research Data for ECMODE-D-23-00926: Maladapting to Climate Change: Evidence from High-Temperature Shocks on Carbon Emission Intensity
DOI: 10.57745/o4m5bt
title: DEG [Le_C-Le_S] fruit.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in fruit in Levovil
DOI: 10.6084/m9.figshare.21322401
title: A kriging interpolation model for geographical flows

description: This dataset contains the code and data used in the case study mentioned in the paper "A kriging interpolation model for geographical flows".<b>Title </b>A kriging interpolation model for geographical flows<b>Abstract</b>The kriging model can accommodate various spatial supports and has been extensively applied in hydrology, meteorology, soil science, and other domains. With the expansion of applications, it is essential to extend the kriging model for new spatial support of high-dimensional data. Geographical flows can depict the movements of geographical objects and imply the underlying mobility patterns in geographical phenomena. However, due to the bias, sparsity, and uneven quality of flow data in the real world, research about flows remains hindered by the lack of complete flow data and effective flow interpolation methods. In this study, we design a kriging interpolation model for flows based on several flow-related concepts and the autocorrelation of flows. We also analyze the second-order stationarity and anisotropy in the flow spatial random field. To illustrate the effectiveness and applicability of our method, we conduct two case studies. The former case study compares several experiments of flow density interpolation using Beijing mobile signaling data and illustrates the conditions of applicable areas. The latter case study extends our model to other flow attributes, such as travel time uncertainty, using Beijing taxi origin-destination flow data. The results of these cases demonstrate the effectiveness and high accuracy of our model.<br>
DOI: 10.57745/jvaplw
title: DEG [Ce_C-Ce_S] leaf.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in leaf in Cervil
DOI: 10.57745/fxoqsd
title: DEG [Le_C-Le_S] leaf.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in leaf in Levovil
DOI: 10.5281/zenodo.10667283
title: Supporting data for: Effect of changing swarm's fastidious boundary value on environmental DNA clustering results

description: Supporting material for the publication :

Effect of changing swarm’s fastidious boundary value on environmental DNA clustering results (working title)

by Milena Königshofen and Frédéric Mahé

In this study, Königshofen & Mahé use three published metabarcoding SSU rRNA datasets (18S V4, 18S V9 and 16S V3V4 fasta files) to demonstrate the effect of swarm's fastidious option (https://github.com/torognes/swarm).

Fasta files are derived from publicly available raw fastq files, following the pre-clustering pipeline available athttps://github.com/frederic-mahe/fred-metabarcoding-pipeline

The three original publications are:- de Vargas et al. (2015): V9 eukaryotic data from the sunlit surface  layer of the world’s open oceans (doi: 10.1126/science.1261605;  bioproject: PRJEB6610),- Mahé et al. (2017): V4 eukaryotic data from surface soils of three  lowland Neotropical rainforests (doi: 10.1038/s41559-017-0091;  bioproject: PRJNA317860),- Alonso et al. (2020): V3V4 bacterial data from plants stems  collected in Chinese rice terraces (doi: 10.1111/1462-2920.15114;  bioproject: PRJNA573048).
DOI: 10.5281/zenodo.10667284
title: Supporting data for: Effect of changing swarm's fastidious boundary value on environmental DNA clustering results

description: Supporting material for the publication :

Effect of changing swarm’s fastidious boundary value on environmental DNA clustering results (working title)

by Milena Königshofen and Frédéric Mahé

In this study, Königshofen & Mahé use three published metabarcoding SSU rRNA datasets (18S V4, 18S V9 and 16S V3V4 fasta files) to demonstrate the effect of swarm's fastidious option (https://github.com/torognes/swarm).

Fasta files are derived from publicly available raw fastq files, following the pre-clustering pipeline available athttps://github.com/frederic-mahe/fred-metabarcoding-pipeline

The three original publications are:- de Vargas et al. (2015): V9 eukaryotic data from the sunlit surface  layer of the world’s open oceans (doi: 10.1126/science.1261605;  bioproject: PRJEB6610),- Mahé et al. (2017): V4 eukaryotic data from surface soils of three  lowland Neotropical rainforests (doi: 10.1038/s41559-017-0091;  bioproject: PRJNA317860),- Alonso et al. (2020): V3V4 bacterial data from plants stems  collected in Chinese rice terraces (doi: 10.1111/1462-2920.15114;  bioproject: PRJNA573048).
DOI: 10.57745/jukbjs
title: DEG [Fe_C-Fe_S] fruit.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in fruit in Ferum
DOI: 10.6073/pasta/fdf3751cccd1b614b59c3c5e75c9b765
title: Consumer Stocks: Wet weights from Everglades National Park (FCE), South Florida from March 2003 to April 2008

description: We hypothesize that standing crops of consumers reflect patterns of allochthonous nutrient transport along the estuarine interface at the Florida Coastal Everglades (FCE) LTER. Our goal is to investigate how variation in hydrology, water quality, and disturbance influence secondary production. This data set represents the numeric count data of fish, plants, and other fauna.
DOI: 10.57745/dkrkcv
title: CC_GWAS_filtered_imputed.vcf.gz

description: VCF file used for GWAS analysis
DOI: 10.57745/cy7nvm
title: DEG [C-S] leaf.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in leaf over all samples
DOI: 10.57745/bdhgvk
title: DEG [Fe_C-Fe_S] leaf.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in leaf in Ferum
DOI: 10.57745/pzrtuq
title: DEG [C-S] fruit.txt

description: Statistic of genes differentially expressed in the contrast Control_Stress in fruit over all samples
DOI: 10.57745/uwqcug
title: RNAseq_Fruit_COUNTS.txt

description: Read counts in each sample in fruit
DOI: 10.57745/ovybbv
title: RNAseq_Leaf_COUNTS.txt

description: Read counts in each sample in leaf
DOI: 10.3886/e198144v1
title: Shipwrecked By Rents

description: This files enable replication of the results for Shipwecked by Rents, Journal of Development Economics, 2024. <br><br>This is file is currently in preparation and will be updated soon.
DOI: 10.3886/e198144
title: Shipwrecked By Rents

description: This files enable replication of the results for Shipwecked by Rents, Journal of Development Economics, 2024. <br><br>This is file is currently in preparation and will be updated soon.
DOI: 10.3886/e198144v2
title: Shipwrecked By Rents

description: This files enable replication of the results for Shipwecked by Rents, Journal of Development Economics, 2024. <br><br>This is file is currently in preparation and will be updated soon.
DOI: 10.15468/dl.lgu4yd
title: Occurrence Download

description: A dataset containing 892 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bedellia somnulentella (Zeller, 1847)"
 ]
}

 The dataset includes 892 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023292-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.74rvhb
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cirsium ×vancouverense R.J.Moore & Frankton"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0138766-230224095556074/datasets/export for details.
DOI: 10.15468/dl.v5sofh
title: Occurrence Download

description: A dataset containing 24792 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Unknown evidence"
 ]
 },
 "Geometry POLYGON ((-96.86508178710936 17.001635258159695, -96.86508178710936 17.131604107190874, -96.63848876953125 17.131604107190874, -96.63848876953125 17.001635258159695, -96.86508178710936 17.001635258159695))",
 "HasCoordinate is true",
 "TaxonKey is Aves",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 24792 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004369-171124123535762/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ltezrc
title: Occurrence Download

description: A dataset containing 103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 {
 "or" : [
 "Country is China",
 "Country is Russian Federation",
 "Country is Korea (Democratic People’s Republic of)",
 "Country is Korea, Republic of"
 ]
 },
 "HasCoordinate is true",
 "TaxonKey is Lepisorus ussuriensis (Regel & Mack.) Ching",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 103 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005625-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rs879k
title: Occurrence Download

description: A dataset containing 736 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Peromyscus gymnotis Thomas, 1894"
 ]
}

 The dataset includes 736 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032041-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sayl3o
title: Occurrence Download

description: A dataset containing 300 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phyllonorycter platani (Staudinger, 1870)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 300 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004369-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.phdwkp
title: Occurrence Download

description: A dataset listing the 3 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is A new species of Lyssomanes Hentz, 1845 from Brazil (Araneae: Salticidae)"
 ]
}

 The dataset's 3 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008159-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dxozb9
title: Occurrence Download

description: A dataset containing 717920 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Thailand"
 ]
}

 The dataset includes 717920 records from 527 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004370-150316153013904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.unsn9e
title: Occurrence Download

description: A dataset containing 128 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is one of (EOD – eBird Observation Dataset, iNaturalist Research-grade Observations)",
 "Geometry POLYGON((-91.50527 28.8007,-83.30668 28.8007,-83.30668 37.75145,-92.5959 37.77025,-92.67112 28.76309,-91.50527 28.8007))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Malaclemys terrapin (Schoepff, 1793)"
 ]
}

 The dataset includes 128 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032052-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.enara8
title: Occurrence Download

description: A dataset containing 18065 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Caprimulgus macrurus Horsfield, 1821"
 ]
}

 The dataset includes 18065 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066107-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.1oqv5i
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tremarctos ornatus (F.G.Cuvier, 1825)",
 "Country is Ecuador"
 ]
}

 The dataset includes 23 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004370-150410134957023/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sqcejt
title: Occurrence Download

description: A dataset containing 77 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Peces asociados a sistemas acuáticos del río Yarí, Amazonía Colombiana"
 ]
}

 The dataset includes 77 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036313-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jtuion
title: Occurrence Download

description: A dataset containing 1736 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Balantiopteryx plicata Peters, 1867",
 "Country is Mexico",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 1736 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004370-150615163101818/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.