cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3535/jsv-ytk-40n
title: Balclutha Kirkaldy, 1900

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/9pt-vdm-l9n
title: †Tofanella decussata (Münster, 1841)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/b4l-gvr-8n5
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7z8-r13-b82
title: Lima Bruguière, 1797

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/h19-fk1-hl9
title: Soricomorpha Gregory, 1910

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d3v-b3n-c39
title: Tetraplaria Tenison-Woods, 1879

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zj1-2qw-ttm
title: Aetea Lamouroux, 1812

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/053-daj-0v8
title: Taxodium Rich.

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/r14-tqc-a30
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/p17-n54-ebt
title: Olcostephanus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/spv-wc1-f1s
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2ba-spq-ajp
title: Margaretta Gray, 1843

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nnq-lh0-r9v
title: Crisia Lamouroux, 1812

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.34740/kaggle/dsv/12801673
title: Market Prices of Commodities in South Tangerang
DOI: 10.3535/9cy-jbh-1qy
title: Celleporella hyalina (Linnaeus, 1767)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/msa-274-c1r
title: Glossus Poli, 1795

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ray-w0h-qq9
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/v8g-eap-4tv
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wt2-rjg-yq5
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.5281/zenodo.16897566
title: Data and code pertaining to: Decomposition of the S. aureus Pangenome Reveals Evolving Genetic Repertoire Responsible for Adaptation and Virulence

description: Main Manuscript: Decomposition of the S. aureus Pangenome Reveals Evolving Genetic Repertoire Responsible for Adaptation and VirulenceAll genomes and their metadata were downloaded from BV-BRC, the Bacterial and Viral Bioinformatics Resource Center (https://www.bv-brc.org/) (Olson et al. 2023). All code + metdata files needed to download, clean, process, and enrich data is included. Code needed to generate a pangenome and extract the phylon structrure is also present.

Contents:



metadata folder with all the different metadata files. enriched_metadata is the final one used for analysis

S_aureus (zip): Code files. These are jupyter notebooks that are easy to follow and ordered so you know which one runs in which order.

processed (tar.gz): processed output files. These are the processed output files used to generate and inform the analysis conducted. Large: 27GB (ZIPPED)


The only think missing are 2 folders: raw and tmp. raw stores raw data which is where most downloads went (redundant since we have procesed reannotated genomes from bakta already present in the processed folder). tmp stores temporary files which are not needed or even useful by themselves. The actual results used to generate the actual analysis are stored in processed, which is included in this repository.
DOI: 10.5281/zenodo.16897567
title: Data and code pertaining to: Decomposition of the S. aureus Pangenome Reveals Evolving Genetic Repertoire Responsible for Adaptation and Virulence

description: Main Manuscript: Decomposition of the S. aureus Pangenome Reveals Evolving Genetic Repertoire Responsible for Adaptation and VirulenceAll genomes and their metadata were downloaded from BV-BRC, the Bacterial and Viral Bioinformatics Resource Center (https://www.bv-brc.org/) (Olson et al. 2023). All code + metdata files needed to download, clean, process, and enrich data is included. Code needed to generate a pangenome and extract the phylon structrure is also present.

Contents:



metadata folder with all the different metadata files. enriched_metadata is the final one used for analysis

S_aureus (zip): Code files. These are jupyter notebooks that are easy to follow and ordered so you know which one runs in which order.

processed (tar.gz): processed output files. These are the processed output files used to generate and inform the analysis conducted. Large: 27GB (ZIPPED)


The only think missing are 2 folders: raw and tmp. raw stores raw data which is where most downloads went (redundant since we have procesed reannotated genomes from bakta already present in the processed folder). tmp stores temporary files which are not needed or even useful by themselves. The actual results used to generate the actual analysis are stored in processed, which is included in this repository.
DOI: 10.3535/h85-21z-ege
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/kq4-924-0eq
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fx9-be8-g5t
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/w83-anb-n53
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/c3r-985-ht1
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vpx-mhf-1st
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hcw-phc-smq
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cyz-g2q-w4b
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/j66-fd0-ze3
title: Sorex (Sorex) minutus Linnaeus, 1766

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hjw-rvd-khv
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/tz4-xvg-fcz
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7aq-qmm-lj8
title: Cryptosula pallasiana (Moll, 1803)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/e8t-7ed-h01
title: Poricella oranensis (Waters, 1918)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4v9-q59-76y
title: Desmana Güldenstädt, 1777

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jpd-4vr-2dy
title: Bryozoa

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/117-rkx-pby
title: Galemys Kaup, 1829

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2z4-8as-3zg
title: Beania hirtissima (Heller, 1867)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cdm-fy1-abs
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25549/inscriptifact-ouc110619535
title: Persepolis Fortification Anepigraphic Tablet 0133.201, PFAnep 0133.201

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] PFAnep 0133.201, PFUT 0133-201 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Text ❧ [Physical Object Description:] Clay tablet with seal impression on obverse, reverse, bottom edge, upper edge and flat edge. ❧ [Physical Object Note:] Minor damage on tablet. Bottom edge toward round edge chipped.
DOI: 10.25549/inscriptifact-ouc110619519
title: Persepolis Fortification Anepigraphic Tablet 0133.201, PFAnep 0133.201

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] PFAnep 0133.201, PFUT 0133-201 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Text ❧ [Physical Object Description:] Clay tablet with seal impression on obverse, reverse, bottom edge, upper edge and flat edge. ❧ [Physical Object Note:] Minor damage on tablet. Bottom edge toward round edge chipped.
DOI: 10.25549/inscriptifact-ouc110619534
title: Persepolis Fortification Anepigraphic Tablet 0133.204, PFAnep 0133.204

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] PFAnep 0133.204, PFUT 0133-204 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Text ❧ [Physical Object Description:] Clay tablet with seal impression on obverse and flat edge. ❧ [Physical Object Note:] Minor chipping throughout tablet. Round edge toward upper edge broken.
DOI: 10.25549/inscriptifact-ouc110619515
title: Persepolis Fortification Anepigraphic Tablet 0133.201, PFAnep 0133.201

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] PFAnep 0133.201, PFUT 0133-201 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Text ❧ [Physical Object Description:] Clay tablet with seal impression on obverse, reverse, bottom edge, upper edge and flat edge. ❧ [Physical Object Note:] Minor damage on tablet. Bottom edge toward round edge chipped.
DOI: 10.25549/inscriptifact-ouc110619484
title: Persepolis Fortification Anepigraphic Tablet 0132.203, PFAnep 0132.203

description: [Text Description:] Administrative text with seal ❧ [Text or Publication Number Note:] PFAnep 0132.203, PFUT 0132-203 ❧ [Excavation Description:] Found during Oriental Institute's excavations in Spring, 1933, near the northeastern corner of the stone platform of Persepolis, in two small rooms of a bastion in the fortification wall ❧ [Medium:] Clay ❧ [Script Note:] Non-Text ❧ [Physical Object Description:] Clay tablet with seal impression on obverse, bottom edge (?) and flat edge. ❧ [Physical Object Note:] Minimal damage on tablet.
DOI: 10.15468/dl.jgkjwb
title: Occurrence Download

description: A dataset listing the 3506 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rotifera"
 ]
}

 The dataset's 3506 records were derived from 561 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026706-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vryick
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002477-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tkmitq
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0092363-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bjhpkq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is 93272",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072387-240506114902167/datasets/export for details.
DOI: 10.15468/dl.1ydgfa
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0092351-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.upqbay
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017756-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ejxv5d
title: Occurrence Download

description: A dataset containing 382865164 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Plantae"
 ]
}

 The dataset includes 382865164 records from 10894 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0388964-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g9y8px
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Year is greater than or equal to 1900",
 "TaxonKey is Perotis leptopus"
 ]
}

 The dataset includes 33 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025993-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2use5f
title: Occurrence Download

description: A dataset containing 879 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-153.17982 8.23250,-43.82018 8.23250,-43.82018 84.76750,-153.17982 84.76750,-153.17982 8.23250))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cryptobranchus alleganiensis"
 ]
}

 The dataset includes 879 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025994-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28916375
title: Additional file 2 of Head and neck squamous cell carcinoma-derived extracellular vesicles mediate Ca²⁺-dependent platelet activation and aggregation through tissue factor

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.28916375.v1
title: Additional file 2 of Head and neck squamous cell carcinoma-derived extracellular vesicles mediate Ca²⁺-dependent platelet activation and aggregation through tissue factor

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.28916378
title: Additional file 3 of Head and neck squamous cell carcinoma-derived extracellular vesicles mediate Ca²⁺-dependent platelet activation and aggregation through tissue factor

description: Supplementary Material 3
DOI: 10.6084/m9.figshare.28916378.v1
title: Additional file 3 of Head and neck squamous cell carcinoma-derived extracellular vesicles mediate Ca²⁺-dependent platelet activation and aggregation through tissue factor

description: Supplementary Material 3
DOI: 10.15468/dl.88xcvl
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001055-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6wvtdh
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007782-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qutcxy
title: Occurrence Download

description: A dataset containing 1679905746 species occurrences available in GBIF matching the query:
{ }

 The dataset includes 1679905746 records from 18939 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013521-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x83dtw
title: Occurrence Download

description: A dataset containing 734 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepidium appelianum",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 734 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091368-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9z3ag7
title: Occurrence Download

description: A dataset containing 375 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heliotropium indicum",
 "Country is Colombia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 375 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091370-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29712965.v2
title: A Multilayered Retaining Strategy for Enhancing Slope Safety in Low-Infrastructure Mountainous Terrains

description: This research presents a bold and much-needed engineering solution tailored for the often-ignored realities of rural and infrastructure-deficient mountainous regions where landslides pose a recurring threat to life, livelihood, and local development. Instead of relying on expensive geotechnical interventions such as deep piling, reinforced concrete retaining systems, or sensor-based monitoring, this study introduces a simple yet scientifically sound <b>multilayered retaining wall strategy</b> that is modular, field-adaptable, and economically feasible even for the most remote village environments.The strategy integrates four crucial components—(1) <b>gabion walls</b> for foundational support and drainage, (2) <b>biodegradable geotextile wraps</b> made of jute or coir for shallow soil reinforcement, (3) <b>manual surface drainage channels</b> to prevent water accumulation, and (4) <b>low-cost tilt rods</b> as a passive visual early-warning system. Derived from the synthesis of over 25 globally recognized research papers and technical reports, this framework represents the first unified model that combines these elements in a structured, observationally driven design without the need for heavy machinery or digital instrumentation.To validate feasibility, a hypothetical slope case study was developed based on terrain characteristics typical of Himalayan rural belts, including a 30-degree slope inclination, silty soil composition, and seasonal rainfall intensity between 400–600 mm/month. Through sequential application of the layered system, the estimated Factor of Safety (FOS) improved from an unsafe 0.85 to a stable 1.55, demonstrating the theoretical strength of the proposed design. Visual tables, construction checklists, slope profiles, and monitoring logs further enhance its educational and practical usability.This paper is more than an academic exercise—it is a <b>blueprint for grassroots resilience</b>. It bridges the divide between elite engineering models and under-resourced communities, offering a system that is not only technically valid but also <b>implementable by diploma students, local engineers, panchayats, and NGOs</b>. The framework is especially valuable for polytechnic institutions seeking meaningful field projects, for governments aiming to protect rural infrastructure, and for disaster management bodies exploring cost-efficient, community-inclusive approaches to slope stabilization.By championing affordability, modularity, and hands-on observation, this research proves that <b>civil engineering innovation can thrive without high budgets—only requiring clear vision, layered design thinking, and a commitment to protect those most at risk</b>.