cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11867886.v1
title: Rab5 Example Dataset – QuantEscape

description: QuantEscape is a MATLAB App and toolkit for quantification of endosomal escape and damage from live-cell fluorescence microscopy images.<br><br>The file contains fluorescence microscopy images of HeLa cells expressing the membrane damage sensor galectin-9, and the endosome marker Rab5. Images are provided as an example dataset for demonstration of the QuantEscape quantification tools for endosomal escape and damage.<br><b><i>Dataset description</i></b><b>Channel 1 (c1): </b>YFP-galectin-9<b>Channel 2 (c2): </b>mCherry-Rab5<b><i>x</i> Dimension:</b> 512 px<b><i>y</i> Dimension:</b> 512 px<b><i>z</i> Dimension:</b> 10 planes<b><i>t</i> Dimension:</b> 250 frames (<i>dt</i> = 3.2 s)<b>Image format:</b> 16-bit tif
DOI: 10.6084/m9.figshare.11866386
title: Thermal diversity of North American ants

description: The data accompanies the manuscript Bujan et al. 2020 accepted in Global Ecology and Biogeography with the same running title.
DOI: 10.6084/m9.figshare.11866389
title: Transcriptome annotations for Erysimum species

description: Here we present the transcriptome annotations of 18 <i>Erysimum populations</i> (Brassicaceae) from seven species: <i>Erysimum bastetanum</i> (populations: Ebt01, Ebt12, Ebt13, Ebt22), <i>E. mediohispanicum</i> (populations: Em21, Em39, Em71), <i>E. nevadense</i> (populations: En05,En10, En12), <i>E. popovii</i> (Ep16, Ep20, Ep27), <i>E. baeticum</i> (populations: Ebb07, Ebb10, Ebb12), <i>E. fitzii</i> (population Ef01), and <i>E. lagascae</i> (population Ela07).<br>
DOI: 10.6084/m9.figshare.11866386.v1
title: Thermal diversity of North American ants

description: The data accompanies the manuscript Bujan et al. 2020 accepted in Global Ecology and Biogeography with the same running title.
DOI: 10.6084/m9.figshare.11866329
title: 10. DataInBrief: AntiSMASH analysis of contigs & BGC expression data for gradient plots

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866326
title: 2. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866389.v1
title: Erysimum annotations

description: Here we present the transcriptome annotations of 18 Erysimum populations from seven species.<br>
DOI: 10.6084/m9.figshare.11866389.v3
title: Transcriptome annotations for Erysimum species

description: Here we present the transcriptome annotations of 18 <i>Erysimum populations</i> (Brassicaceae) from seven species: <i>Erysimum bastetanum</i> (populations: Ebt01, Ebt12, Ebt13, Ebt22), <i>E. mediohispanicum</i> (populations: Em21, Em39, Em71), <i>E. nevadense</i> (populations: En05,En10, En12), <i>E. popovii</i> (Ep16, Ep20, Ep27), <i>E. baeticum</i> (populations: Ebb07, Ebb10, Ebb12), <i>E. fitzii</i> (population Ef01), and <i>E. lagascae</i> (population Ela07).<br>
DOI: 10.6084/m9.figshare.11866389.v2
title: Erysimum transcriptome annotations

description: Here we present the transcriptome annotations of 18 Erysimum populations from seven species.<br>
DOI: 10.6084/m9.figshare.11866326.v1
title: AntiSMASH analysis of contigs- antiSMASH annotated genes filtered

description: AntiSMASH analysis of contigs that met the following filtering criteria:
DOI: 10.6084/m9.figshare.11866329.v1
title: AntiSMASH analysis of contigs- BGC expression data for gradient plots

description: BGC expression data (raw counts) for gradient plots_raw data_CPM_stats
DOI: 10.6084/m9.figshare.11866326.v2
title: Differential analyses

description: Differential statistics for each taxon comparing season and sample type separately, using the raw counts from the taxonomic annotation and quantification.
DOI: 10.6084/m9.figshare.11866326.v3
title: 4 Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866326.v4
title: 4. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866326.v5
title: 4. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866326.v6
title: 5. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866197
title: Clinical features and treatment of endolymphatic sac tumor

description: <b>Background:</b> Endolymphatic sac tumor (ELST) is an extremely rare disease that does not have established clinical guidelines. <b>Objective:</b> To provide guidance for the diagnosis and management of ELSTs. <b>Methods:</b> We retrospectively reviewed the medical records of patients who were suspected to have a lesion in the location of endolymphatic sac. Seven patients were included. Histopathologic diagnosis confirmed five ELSTs and two other diseases. <b>Results:</b> All of the enrolled patients had hearing impairment. Facial palsy was found in four out of five patients with ELST, whereas none of the patients in other disease group showed facial palsy. CT and MRI findings were consistent with those in previous literatures; however, angiographic findings were not consistent with those previously reported. All patients underwent surgery. Recurrence occurred in two patients with ELST, although there was no visible remnant tumor after the operation. These patients were treated with stereotactic radiosurgery. <b>Conclusion:</b> Hearing impairment and facial palsy were representative symptoms of ELST. All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images, and smaller tumors could have blood supply from AICA in the radiologic study. Complete surgical resection with optional stereotactic radiosurgery should be considered in ELST.HighlightsHearing impairment and facial weakness are remarkable symptoms of ELST compared to other diseases that invade the endolymphatic sac.All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images.ELST less than 3 cm in diameter could have blood supply from AICA.A complete surgical excision with optional stereotactic radiosurgery is required. Hearing impairment and facial weakness are remarkable symptoms of ELST compared to other diseases that invade the endolymphatic sac. All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images. ELST less than 3 cm in diameter could have blood supply from AICA. A complete surgical excision with optional stereotactic radiosurgery is required.
DOI: 10.6084/m9.figshare.11866329.v3
title: DataInBrief: AntiSMASH analysis of contigs & BGC expression data

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866326.v8
title: 2. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866326.v7
title: 4. Differential analyses of taxa and functional genes

description: Differential statistics for taxa (e.g., diff_sediment_xx, diff_summer_xx, table_norm_xx)) and KEGG-annotated open reading frames (diff_all and diff_rna) comparing season and sample type separately, using the raw counts from the taxonomic annotation or transcript abundance and quantification. Diff_rna.xls refers to the differential expression of KEGG-annotated open reading frames.<br>
DOI: 10.6084/m9.figshare.11866197.v2
title: Clinical features and treatment of endolymphatic sac tumor

description: <b>Background:</b> Endolymphatic sac tumor (ELST) is an extremely rare disease that does not have established clinical guidelines. <b>Objective:</b> To provide guidance for the diagnosis and management of ELSTs. <b>Methods:</b> We retrospectively reviewed the medical records of patients who were suspected to have a lesion in the location of endolymphatic sac. Seven patients were included. Histopathologic diagnosis confirmed five ELSTs and two other diseases. <b>Results:</b> All of the enrolled patients had hearing impairment. Facial palsy was found in four out of five patients with ELST, whereas none of the patients in other disease group showed facial palsy. CT and MRI findings were consistent with those in previous literatures; however, angiographic findings were not consistent with those previously reported. All patients underwent surgery. Recurrence occurred in two patients with ELST, although there was no visible remnant tumor after the operation. These patients were treated with stereotactic radiosurgery. <b>Conclusion:</b> Hearing impairment and facial palsy were representative symptoms of ELST. All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images, and smaller tumors could have blood supply from AICA in the radiologic study. Complete surgical resection with optional stereotactic radiosurgery should be considered in ELST.HighlightsHearing impairment and facial weakness are remarkable symptoms of ELST compared to other diseases that invade the endolymphatic sac.All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images.ELST less than 3 cm in diameter could have blood supply from AICA.A complete surgical excision with optional stereotactic radiosurgery is required. Hearing impairment and facial weakness are remarkable symptoms of ELST compared to other diseases that invade the endolymphatic sac. All ELSTs showed ‘salt and pepper’ signal in MRI T1-weighted images. ELST less than 3 cm in diameter could have blood supply from AICA. A complete surgical excision with optional stereotactic radiosurgery is required.
DOI: 10.6084/m9.figshare.11866329.v4
title: DataInBrief: AntiSMASH analysis of contigs & BGC expression data for gradient plots

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866329.v5
title: 10. DataInBrief: AntiSMASH analysis of contigs & BGC expression data for gradient plots

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866329.v7
title: 10. DataInBrief: AntiSMASH analysis of contigs & BGC expression data for gradient plots

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866329.v6
title: 11. DataInBrief: AntiSMASH analysis of contigs & BGC expression data for gradient plots

description: AntiSMASH annotation and coexpression of the following genes: 1) <i>mdtA</i> with <i>ppsE</i> in contig 4698 (20390 nucleotides long ; 2) <i>mgtA</i> with <i>Igr</i> in contig 80; 3) <i>czcA</i> with a ligase/MSMEI_5285 gene in contig 185 (85942 nucleotides long; 4) <i>smtB</i> with a gene annotated to be involved in the biosynthesis of a terpene in contig 214 (80995 nucleotides long); and 5) <i>mdtA</i> with genes annotated to be involved in terpene biosynthesis in contig 12335 (11958 nucleotides long).
DOI: 10.6084/m9.figshare.11866116
title: JRC2018F_JRC2018FIBF_h5

description: Transformation between JRC 2018 Female template and the Janelia FlyEM Hemibrain FIB-SEM dataset. https://www.janelia.org/project-team/flyem/hemibrain<br><br>This transformation operates in units of microns. Therefore, any point coordinates must be converted to micron units before applying this transformation. <br>
DOI: 10.6084/m9.figshare.11866116.v1
title: JRC2018F_JRC2018FIBF_h5

description: Transformation between JRC 2018 Female template and the Janelia FlyEM Hemibrain FIB-SEM dataset. https://www.janelia.org/project-team/flyem/hemibrain<br><br>This transformation operates in units of microns. Therefore, any point coordinates must be converted to micron units before applying this transformation. <br>
DOI: 10.6084/m9.figshare.11866086
title: DNA and cDNA counts for all samples

description: All counts and normalized counts for the metagenome and metatranscriptome.<br>
DOI: 10.6084/m9.figshare.11866086.v1
title: AntiSMASH analysis of contigs- AntiSMASH annotated Contigs

description: AntiSMASH annotated Contigs
DOI: 10.6084/m9.figshare.11866086.v3
title: DNA and cDNA counts for all samples

description: All counts and normalized counts for the metagenome and metatranscriptome.<br>
DOI: 10.6084/m9.figshare.11866083.v1
title: Contig data- Contig gene annotation

description: Contig gene annotation of metagenomic datasets.<br>
DOI: 10.6084/m9.figshare.11866077
title: 4. KEGG data- annotation and differential expression

description: KEGG ortholog (KO) numbers as well as the KO annotation and counts of the metagenomic and metatranscriptomic data. Differentially expressed KOs,
DOI: 10.6084/m9.figshare.11866086.v2
title: AntiSMASH analysis of contigs- AntiSMASH annotated Contigs

description: AntiSMASH annotated Contigs
DOI: 10.6084/m9.figshare.11866083.v2
title: Contig data- Contig gene annotation

description: Contig data, raw counts, and gene annotation of metagenomic datasets.<br>
DOI: 10.6084/m9.figshare.11866074
title: 1. DataInBrief: read-based taxonomic annotation data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866077.v1
title: Contig data- Contig Sequences

description: Contigs from metagenomic data<br>
DOI: 10.6084/m9.figshare.11866083.v3
title: PLoS One: Contig data- Contig gene annotation

description: Contig data, raw counts, and gene annotation of metagenomic datasets.<br>
DOI: 10.6084/m9.figshare.11866077.v2
title: Contig data- Contig Sequences

description: Contigs from metagenomic data<br>
DOI: 10.6084/m9.figshare.11866074.v1
title: Contig data- Contig Counts

description: Contig counts<br>
DOI: 10.6084/m9.figshare.11866083.v4
title: Contig data- Contig gene annotation

description: Contig data, raw counts, and gene annotation of metagenomic datasets.<br>
DOI: 10.6084/m9.figshare.11866071
title: PLoS One: Beta Diversity- by season

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11866074.v2
title: Contig data- Contig Counts

description: Contig counts<br>
DOI: 10.6084/m9.figshare.11866077.v3
title: KEGG data- annotation

description: KEGG ortholog (KO) numbers as well as the KO annotation and counts of the metagenomic and metatranscriptomic data.<br>
DOI: 10.6084/m9.figshare.11866077.v4
title: KEGG data- annotation

description: KEGG ortholog (KO) numbers as well as the KO annotation and counts of the metagenomic and metatranscriptomic data. Differentially expressed KOs,
DOI: 10.6084/m9.figshare.11866074.v3
title: Taxonomic Annotation

description: Taxonomic annotation of metagenome.<br>
DOI: 10.6084/m9.figshare.11866071.v1
title: Alpha Diversity- sediment_archaea_indices

description: Alpha diversity (Shannon diversity) of archaea from sediments from different seasons.
DOI: 10.6084/m9.figshare.11866077.v5
title: 6. KEGG data- annotation and differential expression

description: KEGG ortholog (KO) numbers as well as the KO annotation and counts of the metagenomic and metatranscriptomic data. Differentially expressed KOs,
DOI: 10.6084/m9.figshare.11866077.v6
title: 4. KEGG data- annotation and differential expression

description: KEGG ortholog (KO) numbers as well as the KO annotation and counts of the metagenomic and metatranscriptomic data. Differentially expressed KOs,
DOI: 10.6084/m9.figshare.11866074.v4
title: Taxonomic Annotation-Data used to generate Figure 2

description: Taxonomic annotation of metagenome. Data used to generate Figure 2.<br>
DOI: 10.6084/m9.figshare.11866071.v2
title: Beta Diversity- sediment samples

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11866074.v5
title: Read-Based Taxonomic Annotation-Data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866071.v3
title: Beta Diversity- by seasons

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11866074.v6
title: DataInBrief: read-based taxonomic annotation data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866059
title: PLoS One: Beta Diversity_by sample type

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different sample types (i.e., sediment versus water).
DOI: 10.6084/m9.figshare.11866071.v5
title: PLoS One: Beta Diversity- by season

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11866071.v4
title: Beta Diversity- by season

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11866059.v1
title: Alpha Diversity_sediment_bacteria_indices

description: Alpha diversity (Shannon diversity) of bacteria from sediments from different seasons. <br>
DOI: 10.6084/m9.figshare.11866074.v7
title: 1. DataInBrief: read-based taxonomic annotation data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866074.v8
title: 2. DataInBrief: read-based taxonomic annotation data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866074.v9
title: 1. DataInBrief: read-based taxonomic annotation data

description: Read-based taxonomic annotation of metagenome. <br>
DOI: 10.6084/m9.figshare.11866059.v2
title: Beta Diversity_by sample type

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different sample types (i.e., sediment versus water).
DOI: 10.6084/m9.figshare.11866059.v3
title: PLoS One: Beta Diversity_by sample type

description: Beta diversity indices of bacteria, eukaryota, and archaea in sediment samples from different sample types (i.e., sediment versus water).
DOI: 10.6084/m9.figshare.11866047
title: Optimization outputs

description: Outputs from multi-objective genetic algorithm
DOI: 10.6084/m9.figshare.11865969
title: Shrimp sequences and accession numbers for Korzik et al 2020

description: Sequences and GenBank accession numbers for all samples used in the analysis for:<br><br>Korzik, Morgan L., Hannah M. Austin, Brittany Cooper, Caroline Jasperse, Grace Tan, Emilie Richards, Erin T. Spencer, Blaire Steinwand, F. Joel Fodrie, John F. Bruno. 2020. Marketplace Shrimp Mislabeling in North Carolina. PLOS ONE In press <br>GenBank Batch number is MT072698:MT072786[accn]<br>