cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1811754.08fu
title: SH1811754.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1811755.08fu
title: SH1811755.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1811756.08fu
title: SH1811756.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh444231.07fu
title: SH444231.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh444232.07fu
title: SH444232.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1811757.08fu
title: SH1811757.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.6084/m9.figshare.20227018
title: Additional file 7 of Integrated transcriptome and hormonal analysis of naphthalene acetic acid-induced adventitious root formation of tea cuttings (Camellia sinensis)

description: Additional file 7: Table S3. KEGG enrichment analysis of DEGs in the green-stem cutting groups.
DOI: 10.6084/m9.figshare.7121900
title: Additional file 8 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by MAGNA. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of NETAL. The forth sheet is the final conserved interactions of the pathway pair. (XLS 9 kb)
DOI: 10.6084/m9.figshare.12364739
title: Additional file 2 of IRF4 and STAT3 activities are associated with the imbalanced differentiation of T-cells in responses to inhalable particulate matters

description: Additional file 2: Sheet data S1. Gene list of the 18 co-expressed gene modules identified from the PBMC profiling study. Sheet data S2. KEGG pathways and GO biological processes significantly enriched in the co-expressed gene modules. Sheet data S3. Enrichment of the target genes of known transcription factors in the four modules strongly correlated with PM exposure. Sheet data S4. Enrichment of the binding motifs of known transcription factors in the poised cis-regulatory regions of the genes of the four modules strongly correlated with PM exposure.
DOI: 10.6084/m9.figshare.23899337
title: Analysis of the complete plastomes of <i>Albizia kalkora</i> (Roxb.) Prain 1897 (Fabaceae)

description: <i>Albizia kalkora</i> (Roxb.) Prain 1897, belonging to the family Fabaceae, is not only a landscape tree but also a medicinal plant. At present, few plastomes have been reported from <i>Albizia</i>, which delays the in-depth phylogenomic studies and the development of high-resolution discriminating markers for this genus. Herein, we sequenced the first plastome of <i>A. kalkora</i> by NGS technology. The genome is a circular structure (176,158 bp), containing a large single-copy (LSC) region (91,521 bp), a small copy (SSC) region (5237 bp), and two inverted repeat (IR) regions (39,700 bp each). It has 35.45% GC content and encodes 109 unique genes, which are 76 protein-coding, 4 rRNA, and 29 tRNA genes. The genetic distance analysis of the intergenic spacer regions for <i>A. kalkora</i>, <i>A. odoratissima</i> and <i>A. bracteate</i> shows four intergenic regions with very high K2p values, namely, <i>ccs</i>A-<i>ndh</i>D (15.04), <i>ma</i>tK-<i>rps</i>16 (10.77), <i>rps</i>11-<i>rpl</i>36 (17.63) and <i>rps</i>3-<i>rps</i>19 (20.08), which can discriminate the three <i>Albizia</i> species. In addition, we identified ten pairs of regions that could be utilized to design primers to discriminate the three <i>Albizia</i> species. The phylogenetic analysis showed <i>Albizia</i> was closely related to <i>Samanea</i>. The results in this study will provide valuable information to elucidate the classification, identification and evolutionary history of <i>Albizia</i>.
DOI: 10.6084/m9.figshare.12364637.v1
title: Additional file 8 of Systematic identification of chicken type I, II and III interferon-stimulated genes

description: Additional file 8. Details of chicken types I, II, and III ISGs.
DOI: 10.6084/m9.figshare.12364739.v1
title: Additional file 2 of IRF4 and STAT3 activities are associated with the imbalanced differentiation of T-cells in responses to inhalable particulate matters

description: Additional file 2: Sheet data S1. Gene list of the 18 co-expressed gene modules identified from the PBMC profiling study. Sheet data S2. KEGG pathways and GO biological processes significantly enriched in the co-expressed gene modules. Sheet data S3. Enrichment of the target genes of known transcription factors in the four modules strongly correlated with PM exposure. Sheet data S4. Enrichment of the binding motifs of known transcription factors in the poised cis-regulatory regions of the genes of the four modules strongly correlated with PM exposure.
DOI: 10.6084/m9.figshare.18132178
title: Additional file 1 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 1: Table S1. The features of genes contained or were near to (within 1 Mb) the identified significant SNPs for immunoglobulins.
DOI: 10.5281/zenodo.10669644
title: Multiple sequence alignment for Macrostylidae

description: Multiple sequence alignment constructed in MAFFT based on all available 16S rDNA sequences on genBank on this date.
DOI: 10.5281/zenodo.10669645
title: Multiple sequence alignment for Macrostylidae

description: Multiple sequence alignment constructed in MAFFT based on all available 16S rDNA sequences on genBank on this date.
DOI: 10.6084/m9.figshare.11840727.v1
title: Additional file 3 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 3.DEGs of eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.18132184
title: Additional file 3 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 3. MAP file of SNP data.
DOI: 10.6084/m9.figshare.11840733.v1
title: Additional file 5 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 5.Comparative analysis of transcriptome and OMVs proteome of eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.11840298
title: Additional file 4 of Expansion of sweet taste receptor genes in grass carp (Ctenopharyngodon idellus) coincided with vegetarian adaptation

description: Additional file 4: Table S3. Gene accession number for Timetree. The T1R2s nucleotide sequences of fishes selected are provided.
DOI: 10.6084/m9.figshare.11840301.v1
title: Additional file 5 of Expansion of sweet taste receptor genes in grass carp (Ctenopharyngodon idellus) coincided with vegetarian adaptation

description: Additional file 5: Table S4. Amino acid sequence identities of T1R2 of various vertebrates. Amino acid sequence identities of T1R2 of various vertebrates are provided.
DOI: 10.6084/m9.figshare.11840337.v1
title: Additional file 3 of Risk factors for fecal carriage of drug-resistant Escherichia coli: a systematic review and meta-analysis

description: Additional file 3 Reference information for excluded articles and reasons for exclusion.
DOI: 10.6084/m9.figshare.20227021
title: Additional file 8 of Integrated transcriptome and hormonal analysis of naphthalene acetic acid-induced adventitious root formation of tea cuttings (Camellia sinensis)

description: Additional file 8: Table S4. Hormone-related DEGs in both the red- and green-stem cutting groups.
DOI: 10.6084/m9.figshare.12364610
title: Additional file 4 of Systematic identification of chicken type I, II and III interferon-stimulated genes

description: Additional file 4. Properties of identified DEGs.
DOI: 10.6084/m9.figshare.11840328.v1
title: Additional file 11 of Comparative population genomics reveals genetic divergence and selection in lotus, Nelumbo nucifera

description: Additional file 11: Dataset S1. The lists of all the genes under artificial selection in cultivated lotus groups.
DOI: 10.6084/m9.figshare.20227033.v1
title: Additional file 1 of PCycDB: a comprehensive and accurate database for fast analysis of phosphorus cycling genes

description: Additional file 1: Table S1. Summary of phosphorus gene families with representative sequences and orthology groups. Table S2. Public metagenomic datasets analyzed in this study. Table S3. The meandecreaseaccuracy of each filtering factor using randomForest package in R. Table S4. Confusion matrix result of Random Forest analysis using validation data. Table S5. Detection rate of each specific P cycling gene included in simulated gene dataset with an identity of 30%. Table S6. Predicted P cycling gene families.
DOI: 10.6084/m9.figshare.20227039
title: Additional file 3 of PCycDB: a comprehensive and accurate database for fast analysis of phosphorus cycling genes

description: Additional file 3.
DOI: 10.6084/m9.figshare.20227039.v1
title: Additional file 3 of PCycDB: a comprehensive and accurate database for fast analysis of phosphorus cycling genes

description: Additional file 3.
DOI: 10.6084/m9.figshare.11316107
title: Population Grid for China SSP4RCP6

description: Population Grid for China under SSP4RCP6 from 2010 to 2100
DOI: 10.6084/m9.figshare.7121900.v1
title: Additional file 8 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by MAGNA. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of NETAL. The forth sheet is the final conserved interactions of the pathway pair. (XLS 9 kb)
DOI: 10.6084/m9.figshare.12365087
title: Additional file 4 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 4: Table S3. Library pooling and data metrics in group D with 55 rice libraries pooled.
DOI: 10.6073/pasta/cbd2c90bf1eafc11ab220ab45a7d4c03
title: FCE Redlands 1994 Land Use, Miami-Dade County, South Florida

description: Urban growth models have increasingly been used by planners and policy makers to visualize, organize, understand, and predict urban growth. However, these models reveal a wide disparity in their attention to policy factors. Some urban growth models capture few if any specific policy effects (e.g.,as model variables), while others integrate certain policies but not others. Since zoning policies are the most widely used form of land use control in the United States, their conspicuous absence from so many urban growth models is surprising. This research investigated the impacts of zoning on urban growth by calibrating and simulating a cellular automaton urban growth model, SLEUTH, under two conditions in a South Florida location. The first condition integrated restrictive agricultural zoning into SLEUTH, while the other ignored zoning data. Goodness of fit metrics indicate that including the agricultural zoning data improved model performance. The results further suggest that agricultural zoning has been somewhat successful in retarding urban growth in South Florida. Ignoring zoning information is detrimental to SLEUTH performance in particular, and urban growth modeling in general.
DOI: 10.6084/m9.figshare.12365087.v1
title: Additional file 4 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 4: Table S3. Library pooling and data metrics in group D with 55 rice libraries pooled.
DOI: 10.5281/zenodo.10426147
title: Dataset to "Stereo-PIV measurements within the canopy in open-channel flows"

description: The dataset is a collection of the data presented in the paper "Stereo-PIV measurements within the canopy in open-channel flows". The first part of the filenames identify the  experiments presented in Table 1 and Table 2 of the cited work. The second part specifies whether the data were acquired with a stereo or planar PIV system (sPIV or pPIV, respectively) or whether a boat was used or not (B or NB, respectively). Each datafile corresponds to one PIV measurement acquired during the corresponding experiment mentioned in the filename. The velocity fields are measured in a streamwise, wall-normal plane as shown in Figure 1 of the cited work. Each datafile contains the following variables:



a time vector "T" with the sampling times of the velocity fields



a vector "x" (unit cm) identifying the streamwise position of the velocity vectors. The origin of the x-coordinate is located at the edge of the boat (see Figure 1)




a vector "z" (unit cm) identifying the vertical position of the velocity vectors. The origin of the z-corrdinate is located at the top of the spheres forming the bed roughness (see Figure 1)




 a matrix "u" containing the fields of the streamwise velocity component - unit cm/s




a matrix "w" containing the fields of the vertical velocity component - unit cm/s


a matrix "v" containing the fields of the transverse (y) velocity component (only present for data collected with stereo PIV) - unit cm/s
DOI: 10.5281/zenodo.10426148
title: Dataset to "Stereo-PIV measurements within the canopy in open-channel flows"

description: The dataset is a collection of the data presented in the paper "Stereo-PIV measurements within the canopy in open-channel flows". The first part of the filenames identify the  experiments presented in Table 1 and Table 2 of the cited work. The second part specifies whether the data were acquired with a stereo or planar PIV system (sPIV or pPIV, respectively) or whether a boat was used or not (B or NB, respectively). Each datafile corresponds to one PIV measurement acquired during the corresponding experiment mentioned in the filename. The velocity fields are measured in a streamwise, wall-normal plane as shown in Figure 1 of the cited work. Each datafile contains the following variables:



a time vector "T" with the sampling times of the velocity fields



a vector "x" (unit cm) identifying the streamwise position of the velocity vectors. The origin of the x-coordinate is located at the edge of the boat (see Figure 1)




a vector "z" (unit cm) identifying the vertical position of the velocity vectors. The origin of the z-corrdinate is located at the top of the spheres forming the bed roughness (see Figure 1)




 a matrix "u" containing the fields of the streamwise velocity component - unit cm/s




a matrix "w" containing the fields of the vertical velocity component - unit cm/s


a matrix "v" containing the fields of the transverse (y) velocity component (only present for data collected with stereo PIV) - unit cm/s
DOI: 10.6084/m9.figshare.12364628.v1
title: Additional file 7 of Systematic identification of chicken type I, II and III interferon-stimulated genes

description: Additional file 7. GO and KEGG pathway analysis of DEGs.
DOI: 10.6084/m9.figshare.12364640.v1
title: Additional file 9 of Systematic identification of chicken type I, II and III interferon-stimulated genes

description: Additional file 9. GO and KEGG pathway analysis of chicken ISGs.
DOI: 10.6084/m9.figshare.7121825.v1
title: Additional file 2 of Discovering large conserved functional components in global network alignment by graph matching

description: The detailed results of Figure 2â 5 for all aligners. (XLS 7 kb)
DOI: 10.6084/m9.figshare.7121837.v1
title: Additional file 3 of Discovering large conserved functional components in global network alignment by graph matching

description: The detailed results of Figure 13â 15 for all aligners. (XLS 8 kb)
DOI: 10.6084/m9.figshare.7121867
title: Additional file 5 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by HubAlign. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of HubAlign. The forth sheet is the final conserved interactions of the pathway pair. (XLS 59 kb)