cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48539/hbm788.pdvm.389
title: OMAP-30 Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based  Imaging of human salivary gland with CODEX, v1.0

description: OMAP-30 was developed for CO-Detection by indEXing (CODEX) imaging of human formalin fixed paraffin embedded (FFPE)<br>salivary gland tissue using the PhenoCycler-Fusion (PCF) platform from Akoya Biosciences (Black et al. 2021). Tissue<br>fixation was performed using 4% paraformaldehyde (PFA) instead of the more commonly used 10% formalin. A two-step<br>antigen retrieval process (pH 9) was applied prior to staining, as outlined by Houston (2024). Antigen detection in<br>salivary gland tissue was conducted using primary antibodies conjugated to fluorophore-labeled barcodes, following the<br>methodology described by Easter et al. (2024). The antibody panel consists of 40 antibodies and includes the nuclear<br>marker DAPI to facilitate both image registration and nuclear segmentation. This OMAP provides spatial context for<br>most anatomical structures and cell types listed in the ASCT+B mouth table v1. It includes essential markers for key<br>cell populations such as epithelial cells (pan-cytokeratin), fibroblasts (vimentin), immune cells (CD45), and vascular<br>structures (CD31). OMAP-30 enables comprehensive spatial profiling of cellular architecture in FFPE salivary gland<br>tissue, supporting future studies in oral and salivary gland biology.<br><br>**Bibliography:**<br><br>* Black, Sarah, Darci Phillips, John W. Hickey, Julia Kennedy-Darling, Vishal G. Venkataraaman, Nikolay Samusik, Yury Goltsev, Christian M. Schürch, and Garry P. Nolan. 2021. “CODEX Multiplexed Tissue Imaging with DNA-Conjugated Antibodies.” *Nature Protocols* 16 (8): 3802–35. https://doi.org/10.1038/s41596-021-00556-8.<br>* Easter, Quinn T., Bruno Fernandes Matuck, Germán Beldorati Stark, Catherine L. Worth, Alexander V. Predeus, Brayon Fremin, Khoa Huynh, et al. 2024. “Single-Cell and Spatially Resolved Interactomics of Tooth-Associated Keratinocytes in Periodontitis.” *Nature Communications* 15 (1): 5016. https://doi.org/10.1038/s41467-024-49037-y.<br>* Houston, Andrew. 2024. “Akoya Biosciences PhenoCycler Fusion (Formerly CODEX) User Guide,” January. https://doi.org/10.17504/protocols.io.x54v9p4j1g3e/v1.
DOI: 10.15468/dl.hxh6dv
title: Occurrence Download

description: A dataset containing 751 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-91.05457 14.31323,-91.04029 14.2984,-91.01952 14.29413,-91.00524 14.31583,-90.99337 14.34105,-90.98836 14.36683,-91.00969 14.38427,-91.0197 14.38631,-91.03603 14.35886,-91.04938 14.33326,-91.05457 14.31323))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 751 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053574-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/8u3evk
title: Replication code for "Newly Available Individual-Level U.S. Tax Data from 1969-1994"

description: This replication package provides code for the data analysis reported in “Newly Available Individual-level U.S. Tax Data from 1969-1994”. All data analysis was conducted in the Integrated Research Environment of the Federal Statistical Research Data Center (FSRDCs). The source data included IRS Form 1040 files, Current Population Survey data, and decennial Census data. The code provided with this documentation includes redacted variable names, dataset names, and dataset paths, since that information is protected by Title 13 and Title 26 of the U.S. Code. All results and replication code have been reviewed to ensure that no confidential information is disclosed. 

Researchers who would like to replicate or review this analysis within the FSRDCs should take the following steps: 
(1) Propose an FSRDC project that includes the following datasets: IRS Form 1040 from 1969, 1974, 1979, 1984, 1989, 1994, 1999; Current Population Survey ASEC from 1973, 1985, 1991, 1995, 2000; Current Population Survey PIK crosswalks from1973, 1985, 1991, 1995, 2000; Decennial Census data and PIK crosswalks from 1940, 2000; and 
(2) Request access to CES Technical Note “Replication Documentation for 'Newly Available Individual-level U.S. Tax Data from 1969-1994' by contacting an FSRDC Administrator or CES.Technical.Notes.List@census.gov. The technical note contains the same code provided here, but with unredacted information on variable names, dataset names, and dataset paths.
DOI: 10.48539/hbm577.jggh.294
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Lymph Vasculature, v1.1

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>identify cell types. The tables are authored and reviewed by an international team of experts.
DOI: 10.48539/hbm222.bjwr.353
title: OMAP-29 Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based  Imaging of human mouth mucosa with CODEX, v1.0

description: OMAP-29 was designed for CO-Detection by indEXing (CODEX) imaging of human formalin fixed paraffin embedded (FFPE)<br>oral mucosa samples using the Akoya Biosciences PhenoCycler-Fusion (PCF) platform (Black et al. 2021). Tissues were<br>fixed using 4% paraformaldehyde (PFA) instead of the more common 10% formalin prior to paraffin embedding. A two-step<br>antigen retrieval process at pH 9 was used, as detailed in Houston 2024. Antigen detection was achieved using primary<br>antibodies conjugated with fluorophore-labeled barcodes, following the methodology outlined in Easter et al. 2024. The<br>antibody panel includes 40 antibodies and the nuclear marker DAPI, which supports both image registration and nuclear<br>segmentation. This OMAP provides spatial context for most anatomical structures and cell types represented in the<br>ASCT+B mouth table v1. It includes key marker antibodies for major oral mucosa cell populations: epithelial cells<br>(pan-cytokeratin), fibroblasts (vimentin), immune cells (CD45), and vascular cells (CD31). The panel enables detailed<br>mapping of structural and immune microenvironments of the oral mucosa in FFPE samples.<br><br>**Bibliography:**<br><br>* Black, Sarah, Darci Phillips, John W. Hickey, Julia Kennedy-Darling, Vishal G. Venkataraaman, Nikolay Samusik, Yury Goltsev, Christian M. Schürch, and Garry P. Nolan. 2021. “CODEX Multiplexed Tissue Imaging with DNA-Conjugated Antibodies.” *Nature Protocols* 16 (8): 3802–35. https://doi.org/10.1038/s41596-021-00556-8.<br>* Easter, Quinn T., Bruno Fernandes Matuck, Germán Beldorati Stark, Catherine L. Worth, Alexander V. Predeus, Brayon Fremin, Khoa Huynh, et al. 2024. “Single-Cell and Spatially Resolved Interactomics of Tooth-Associated Keratinocytes in Periodontitis.” *Nature Communications* 15 (1): 5016. https://doi.org/10.1038/s41467-024-49037-y.<br>* Houston, Andrew. 2024. “Akoya Biosciences PhenoCycler Fusion (Formerly CODEX) User Guide,” January. https://www.protocols.io/view/akoya-biosciences-phenocycler-fusion-formerly-code-c7fszjne.
DOI: 10.48539/hbm332.tmxm.592
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Pancreas, v1.0

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>identify cell types. The tables are authored and reviewed by an international team of experts.
DOI: 10.5281/zenodo.17098934
title: 3D point cloud data of AFP preforms manufactured by dry fiber and obtained by a profilometer

description: This dataset includes 3D scanning point clouds of two plies from two preforms manufactured by an AFP process using dry fiber. One ply has artificial gaps and the other one has artificial overlaps. For each preform a .vtp file was also uploaded that includes the robot trajectories and other sensor data of the AFP head.
DOI: 10.5281/zenodo.17098935
title: 3D point cloud data of AFP preforms manufactured by dry fiber and obtained by a profilometer

description: This dataset includes 3D scanning point clouds of two plies from two preforms manufactured by an AFP process using dry fiber. One ply has artificial gaps and the other one has artificial overlaps. For each preform a .vtp file was also uploaded that includes the robot trajectories and other sensor data of the AFP head.
DOI: 10.48539/hbm944.svlh.825
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Kidney, v1.3

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>identify cell types. The tables are authored and reviewed by an international team of experts. The kidney ASCT+B<br>tables are generated from a variety of publicly available human kidney datasets and from data generated by HuBMAP and<br>KPMP consortia. Most of the markers listed are observed in more than one study or orthogonally validated. Note that<br>these are predicted markers and a single marker to annotate a cell type is not likely sufficient or specific.<br>Therefore, these are just a guide, more accurate annotation should be done using the entire set of enriched genes in a<br>cluster. The cell types shown here are at much higher granularity, although general markers for many of the<br>structures are also shown. There is a tradeoff in uncertainty of cell type annotation with higher granularity and as<br>spatial validation approaches become more robust we will be accordingly revising these.
DOI: 10.48539/hbm438.xkjt.666
title: 3D Reference Organ for Brain, Female, v1.0

description: [This reference organ](https://humanatlas.io/3d-reference-library) was created using data from the "[Allen Human<br>Reference Atlas – 3D, 2020](https://doi.org/10.1002/cne.24080)" representing one half of the human brain (Ding et al.,<br>2016). The 141 anatomical structures were mirrored to arrive at a whole human brain (as intended) and resized to fit<br>the Visible Human Male and Female bodies.
DOI: 10.15468/dl.dwxmfb
title: Occurrence Download

description: A dataset containing 16037 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solanum dulcamara",
 "Country is Canada",
 "HasCoordinate is true"
 ]
}

 The dataset includes 16037 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053576-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/oj5zje
title: Replication Data for: Transect-rapport 5744: Achterberg, Achterberg Zuid Gemeente Rhenen (UT) Een Archeologisch Inventariserend Veldonderzoek d.m.v. Proefsleuven (IVO-P), karterende en waarderende fase

description: Tijdens het onderzoek zijn 83 sporen aangetroffen, waarvan 11 natuurlijk bleken. Op basis van de 
scherpte van de contouren en de kleur van de vulling zijn twee groepen sporen te onderscheiden. De 
eerste groep bestaat uit sporen met scherpe contouren en een donkere vulling, die te dateren zijn in 
de Late Middeleeuwen of Nieuwe Tijd. De tweede groep sporen heeft vagere contouren en zijn 
waarschijnlijk laat-prehistorisch. De exacte datering is van beide groepen onduidelijk. Ondanks dat de 
sporen verspreid door het plangebied zijn gevonden, zijn er wel een aantal clusters aangetroffen.
In werkputten 8 en 15 zijn twee clusters van de laat-prehistorische sporen aangetroffen. De sporen in 
werkput 15 vormen een spieker. In werkput 8 zijn twee parallelle rijen paalkuilen gevonden, omringd 
door wat ‘losse’ sporen. Doordat deze worden afgesneden door de putwanden, kan de aard en 
omvang van deze structuur nog niet worden bepaald. 
Het vondstcomplex laat ook een verscheidenheid aan dateringen zien. Er zijn fragmenten steengoed 
uit de Nieuwe Tijd, een rand van laatmiddeleeuwse kogelpotaardewerk en fragmenten IJzertijd, of 
mogelijk Bronstijd, handgevormd aardewerk aangetroffen. Deze zijn met name gevonden in het oudbouwlanddek, en kunnen dus niet aan sporen worden gekoppeld. In combinatie met de sporen, 
echter, kan wel degelijk gesproken worden over een laatprehistorische en laatmiddeleeuwse 
vindplaats in het plangebied
DOI: 10.48539/hbm279.btbc.847
title: Organ Mapping Antibody Panel (OMAP)  for Multiplexed Antibody-Based Imaging of Human Liver with SIMS, v1.0

description: The OMAP Liver panel was designed for Secondary Ionization Mass Spectrometry (SIMS) imaging of fresh frozen human<br>liver samples. The panel contains 20 antibodies and a nuclear marker. Antibodies directed against EGFR and<br>Na,K-ATPase are used for cell segmentation and image alignment. This OMAP provides spatial context for the anatomical<br>structures, metabolic zonation, and cell types present in the [ASCT+B liver table<br>v1.0](https://doi.org/10.48539/HBM476.BQCC.574). This OMAP does not contain antibodies for NK cells, dendritic cells,<br>portal fibroblasts, MAIT cells, and hepatic oval cells.
DOI: 10.6084/m9.figshare.30104677
title: <i>Toxicocladosporium </i>sp. nov.

description: Table with GenBank accession numbers of the sequences used in the phylogeny, alignments and tree of a new species of <i>Toxicocladosporium</i>.
DOI: 10.6084/m9.figshare.30104677.v1
title: <i>Toxicocladosporium </i>sp. nov.

description: Table with GenBank accession numbers of the sequences used in the phylogeny, alignments and tree of a new species of <i>Toxicocladosporium</i>.
DOI: 10.48539/hbm887.jmlm.322
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Placenta Full Term, v1.2

description: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables (https://humanatlas.io/asctb-tables) aim to capture<br>anatomical human body parts, the typology of cells, and biomarkers used to identify cell types. The tables are<br>authored and reviewed by an international team of experts. The Placenta ASCT+B table represents terms related to the<br>full-term human placenta. These include both macroscopic and microscopic anatomical structures, major cell types, and<br>protein and lipid biomarkers specific for each cell type listed. This table was generated based on published placental<br>histopathologic nomenclature, as well as published literature on cell-type specific biomarkers. Most of the markers<br>listed are observed in more than one study or orthogonally validated. Note that these are predicted markers and a<br>single marker to annotate a cell type is not likely sufficient or specific. Where more refined cell types are not<br>available in the ontologies, the closest general term is used. For example, there are likely multiple types of<br>placental stromal cells; however, further characterization is needed to distinguish between these cell types. Where<br>cells of similar type occur in different locations, the closest and highest level of resolution available is used. For<br>example, vascular endothelial cells (CL:0000071) occur in multiple different contexts within the placenta, including<br>the umbilical vessels, chorionic plate vessels, chorionic stem villous vessels and capillaries, and decidual vessels;<br>similarly, vascular smooth muscle cells (CL:0000359) occur in umbilical vessels, chorionic plate vessels, and<br>chorionic stem villous vessels.
DOI: 10.48539/hbm244.xpqp.845
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Blood Vasculature, v1.7

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture anatomical human body parts, the typology of cells, and biomarkers used to identify cell types. The tables are<br>authored and reviewed by an international team of experts. A description of this blood vasculature ASCT+B table can be<br>found in "Anatomical structures, cell types, and biomarkers of the healthy human blood vasculature" by [Boppana et al.<br>2023](https://doi.org/10.1038/s41597-023-02018-0). The database and code used to generate the more simplified view of<br>the blood vasculature in these ASCT+B tables may be found [here](https://github.com/hubmapconsortium/hra-vccf).
DOI: 10.48539/hbm559.tdmb.283
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Lymph Vasculature, v1.0

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>identify cell types. The tables are authored and reviewed by an international team of experts.
DOI: 10.17026/ar/rugiaw
title: Archeologisch bureauonderzoek Hoogheem te Boxtel. Gemeente Boxtel

description: In mei 2025 is een archeologisch bureauonderzoek uitgevoerd voor de locatie aan de Hoogheem in Boxtel (gemeente Boxtel). De gemeente is voornemens de openbare ruimte opnieuw in te richten door direct ten zuiden van het speeltuintje aan de Hoogheem (hoek Hendrik Verheeslaan) een parkeerplaats te realiseren. Voor de aanleg van de parkeervakken zullen nieuwe (ondiepe) cunetten worden gegraven. Voor de verdere inrichting worden een riool voor hemelwaterafvoer inclusief inspectieputten ingegraven en zullen bestaande bomen worden verwijderd en verplaatst. 
Het onderzoek is uitgevoerd voor de aanvraag van een omgevingsvergunning voor de nieuwe inrichtingsplannen.

Op de gemeentelijke archeologische beleidsadvieskaart is aan het plangebied een hoge archeologische verwachting toegekend. Op het vigerende bestemmingsplan heeft het plangebied deels een ‘waarde archeologie 2’ en deels een ‘waarde archeologie 4’ meegekregen. De diepere ontgravingen binnen het plangebied t.b.v. riolering vinden uitsluitend plaats binnen ‘waarde archeologie 4’. 

Het plangebied is gesitueerd in het Brabantse dekzandlandschap, ten oosten van de oude bebouwingskern van Boxtel en het beekdal van de Dommel. Binnen het plangebied worden dekzandruggen al dan niet met een oud bouwlanddek verwacht. De oorspronkelijke dekzandbodem is vermoedelijk afgedekt door een humusrijk akkerdek met een dikte van 55 tot 60 cm. De kans is groot dat de bodem (deels) verstoord is geraakt tot 70-80 cm -mv als gevolg van de grootschalige herinrichting van het gebied in de jaren 70 van de vorige eeuw.
Op basis van de bekende gegevens omtrent archeologische waarden in het gebied moet worden geconcludeerd dat voor het plangebied een middelhoge archeologische verwachting geldt voor archeologische resten daterend vanaf het Neolithicum. Vanwege de afwezigheid van landschappelijke kopjes of gradiëntzones of de directe nabijheid van open water geldt een lage verwachting voor nederzettingen van jagers-verzamelaars. Daarnaast geldt een hoge verwachting voor sporen van een verdedigingslinie uit de 19e eeuw in het plangebied.

Geadviseerd wordt om de diepere (vanaf 50 cm) grondroerende werkzaamheden onder archeologische begeleiding uit te laten voeren (proefsleuven variant archeologische begeleiding).
DOI: 10.48539/hbm264.ccrf.525
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Brain, v1.0

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>identify cell types. The tables are authored and reviewed by an international team of experts.
DOI: 10.15468/dl.rgfjff
title: Occurrence Download

description: A dataset containing 256 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is BRA.6.60_2",
 "IucnRedListCategory is one of (NE, DD, LC, NT, VU, EN, CR, EW, EX)",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 256 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053581-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48539/hbm235.qftp.824
title: 3D Reference Organ for Intestine, Large, Male, v1.0

description: [This reference organ](https://humanatlas.io/3d-reference-library) was created using data provided by Arie Kaufman,<br>Stony Brook University.
DOI: 10.5281/zenodo.15772466
title: Twitter Spam Dataset

description: This dataset contains more than 78,000 tweets with 22 derived features for spam detection research. Tweets were collected using the SNScrape library, and a portion was manually annotated while the remaining were annotated using a self-training machine learning algorithm. The dataset is balanced between spam and non-spam classes, making it suitable for machine learning model training and evaluation.

Potential Applications:





Spam detection on Twitter




Machine learning classifier benchmarking




Research on social media misuse
DOI: 10.5281/zenodo.15772467
title: Twitter Spam Dataset

description: This dataset contains more than 78,000 tweets with 22 derived features for spam detection research. Tweets were collected using the SNScrape library, and a portion was manually annotated while the remaining were annotated using a self-training machine learning algorithm. The dataset is balanced between spam and non-spam classes, making it suitable for machine learning model training and evaluation.

Potential Applications:





Spam detection on Twitter




Machine learning classifier benchmarking




Research on social media misuse
DOI: 10.5281/zenodo.17100050
title: Dataset for Multiple impacts of climate change and anthropogenic activities on lacustrine trophic state

description: The dataset includes both the in situ measurements and the estimation results, with the data structure described in the corresponding .txt file. The file Model.txt contains the code for TSI estimation in GEE, with the main function provided at the beginning of the script.
DOI: 10.5281/zenodo.17100051
title: Dataset for Multiple impacts of climate change and anthropogenic activities on lacustrine trophic state

description: The dataset includes both the in situ measurements and the estimation results, with the data structure described in the corresponding .txt file. The file Model.txt contains the code for TSI estimation in GEE, with the main function provided at the beginning of the script.
DOI: 10.48539/hbm253.dkwb.737
title: 3D Reference Organ for Vasculature, Female, v1.0

description: [This reference organ](https://humanatlas.io/3d-reference-library) was created using data from the Visible Human<br>Female provided by the National Library of Medicine.
DOI: 10.48539/hbm535.bjvs.924
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Heart, v1.5

description: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables (https://humanatlas.io/asctb-tables) aim to capture<br>the nested heart structure of anatomical human body parts, the typology of cells, and biomarkers used to identify cell<br>types. The tables are authored and reviewed by an international team of experts. The Heart ASCT+B table includes<br>detailed anatomical structures such as the atria, ventricles, valves, and associated vasculature, along with<br>associated cell types like cardiomyocytes, endothelial cells, and fibroblasts. This comprehensive mapping supports<br>research into cardiovascular biology and related medical conditions.
DOI: 10.48539/hbm369.rbvn.935
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Eye, v1.0

description: [Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables](https://humanatlas.io/asctb-tables) aim to<br>capture the nested *part_of* structure of anatomical human body parts, the typology of cells, and biomarkers used to<br>characterize cell types. The tables are authored and reviewed by an international team of experts.