cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48539/hbm542.lmzf.884
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Prostate, v1.1

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 Prostate ASCT+B table represents terms related to the<br>adult human prostate. These include both macroscopic and microscopic anatomical structures, major cell types, and<br>protein biomarkers specific for each cell type listed. This table was generated based on published histopathologic<br>nomenclature, as well as published literature on cell-type specific biomarkers. Most of the markers listed are<br>observed in more than one study or orthogonally validated. Note that these are predicted markers and a single marker<br>to annotate a cell type is not likely sufficient or specific. Where more refined cell types are not available in the<br>ontologies, the closest general term is used. For example, there are likely multiple types of prostate stromal cells;<br>however, further characterization is needed to distinguish between these cell types. Where cells of similar type occur<br>in different locations, the closest and highest level of resolution available is used. For example, basal epithelial<br>cells and luminal epithelial cells occur in multiple different contexts within the prostate, including the peripheral<br>zone, central zone, and transition zone.<br><br>**Bibliography:**<br><br>* Madissoon, E., A. Wilbrey-Clark, R. J. Miragaia, K. Saeb-Parsy, K. T. Mahbubani, N. Georgakopoulos, P. Harding, et al. 2019. “scRNA-Seq Assessment of the Human Lung, Spleen, and Esophagus Tissue Stability after Cold Preservation.” *Genome Biology* 21 (1): 1. https://doi.org/10.1186/s13059-019-1906-x.<br>* Steiniger, B. S., V. Wilhelmi, M. Berthold, M. Guthe, and O. Lobachev. 2018. “Locating Human Splenic Capillary Sheaths in Virtual Reality.” *Scientific Reports* 8 (1): 15720. https://doi.org/10.1038/s41598-018-34105-3.<br>* Steiniger, Birte S. 2015. “Human Spleen Microanatomy: Why Mice Do Not Suffice.” *Immunology* 145 (3): 334–46. https://doi.org/10.1111/imm.12469.<br>* Steiniger, Birte, Vitus Stachniss, Hans Schwarzbach, and Peter J. Barth. 2007. “Phenotypic Differences between Red Pulp Capillary and Sinusoidal Endothelia Help Localizing the Open Splenic Circulation in Humans.” *Histochemistry and Cell Biology* 128 (5): 391–98. https://doi.org/10.1007/s00418-007-0320-8.
DOI: 10.48539/hbm228.cpgh.632
title: OMAP-27: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based  Imaging of Human Kidney with CODEX, v1.0

description: OMAP-27 was designed for CO-Detection by indEXing (CODEX) imaging of fresh frozen human kidney samples with the goal<br>of profiling cell types and cell states (Neumann et al. 2021). The panel contains 46 antibodies and the DAPI nuclear<br>marker for image registration. This OMAP captures spatial context for all functional tissue units (FTUs) of the<br>nephron, basement membranes, vasculature, lymphatics, the stromal compartment, and both adaptive (B and T cells) and<br>innate immune cell types, including injured cell states. OMAP-27 builds upon OMAP-3 (Neumann and Farrow 2024), the<br>original kidney-focused OMAP for CODEX imaging, and shares 24 markers with OMAP-9 (Barwinska et al. 2024), a<br>separately developed kidney CODEX panel. Additionally, this panel includes all antibodies from OMAP-26<br>(https://doi.org/10.48539/HBM677.XSHP.683), which was specifically designed for post-imaging mass spectrometry<br>workflows. This panel provides comprehensive spatial mapping for anatomical structures and cellular identities in the<br>ASCT+B kidney table v1.6 (Jain et al. 2024). Antibody validation, sample preparation, and conjugation protocols are<br>detailed by the VU Biomolecular Multimodal Imaging Center and Spraggins Research Group (2025).<br><br>**Bibliography:**<br><br>* Barwinska, Daria, Tarek M. El-Achkar, Angela R. Sabo, Michael J. Ferkowicz, Seth Winfree, and William S. Bowen. 2024. “9-Kidney-Codex (v1.3) Graph Data, v1.3.” https://lod.humanatlas.io/omap/9-kidney-codex/v1.3/.<br>* Jain, Sanjay, Todd M. Valerius, Yongqun He, Tarek El-Achkar, Michael Eadon, and Jeffrey Spraggins. 2024. “Kidney (v1.6) Graph Data, v1.6.” https://lod.humanatlas.io/asct-b/kidney/v1.6/.<br>* Neumann, Elizabeth K., and Melissa Farrow. 2024. “3-Kidney-Codex (v1.3) Graph Data, v1.3.” https://lod.humanatlas.io/omap/3-kidney-codex/v1.3/.<br>* Neumann, Elizabeth, Carrie Romer, Nathan Heath Patterson, Jamie Allen, and Jeff Spraggins. 2021. “Antibody Conjugation and CODEX Multiplexed Immunofluorescence of Fresh Frozen Tissue.” https://www.protocols.io/view/antibody-conjugation-and-codex-multiplexed-immunof-buc5nsy6.<br>* VU Biomolecular Multimodal Imaging Center / Spraggins Research Group. 2025. “VU Biomolecular Multimodal Imaging Center/ Spraggins Research Group - Research Workspace on Protocols.Io.” https://www.protocols.io/workspaces/BIOMIC.
DOI: 10.48539/hbm948.fmzr.475
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Blood Vasculature, v1.3

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 the pre-print of "Anatomical structures, cell types, and biomarkers of the healthy human blood vasculature"<br>by [(Boppana et al. 2022)](http://biorxiv.org/content/early/2022/03/01/2022.02.28.482302.abstract). The database and<br>code used to generate the more simplified view of the blood vasculature in these ASCT+B tables may be found<br>[here](https://github.com/hubmapconsortium/hra-vccf).
DOI: 10.17035/cardiff.30099778
title: In-situ Solid-state NMR Spectra of Urea and 1,10-Decanediol Co-Crystallizing

description: This project used in-situ solid-state NMR to study the crystallization of urea and 1,10-decanediol from methanol. Two solid products were formed. A urea inclusion compound appeared first, followed by a co-crystal.The data was acquired on a Bruker AVANCE III NMR spectrometer (20.0 T; <sup>13</sup>C Larmor frequency, 213.8 MHz) at the U.K. High-Field Solid-State NMR Facility.The text files contain the real and imaginary parts of the 2D dataset. They were generated by the Bruker software "TopSpin".The data can be viewed in any text editor and plotted in Excel or other similar programs. Mathematica was used to process the data for publication.
DOI: 10.17035/cardiff.30099778.v1
title: In-situ Solid-state NMR Spectra of Urea and 1,10-Decanediol Co-Crystallizing

description: This project used in-situ solid-state NMR to study the crystallization of urea and 1,10-decanediol from methanol. Two solid products were formed. A urea inclusion compound appeared first, followed by a co-crystal.The data was acquired on a Bruker AVANCE III NMR spectrometer (20.0 T; <sup>13</sup>C Larmor frequency, 213.8 MHz) at the U.K. High-Field Solid-State NMR Facility.The text files contain the real and imaginary parts of the 2D dataset. They were generated by the Bruker software "TopSpin".The data can be viewed in any text editor and plotted in Excel or other similar programs. Mathematica was used to process the data for publication.
DOI: 10.6082/uchicago.16241
title: 80s Synth Sample Pack

description: Thank you for expressing enough interest to open this document. For those unfamiliar, a sample pack is a collection of audio files sound producers use for purposes ranging from music making to video game accompaniment. This pack contains a collection of sounds I recorded, all of which emanate from a Korg M1 synthesizer.

All of these samples, loops, and stems have passed through an array of guitar pedals and/or DAWs before arriving in this pack, but they share emergence from the one synth. In the title of this pack, it says “80s Synth” instead of “Korg M1” to avoid potential issues with KORG Inc.

I rendered all of the files as WAVs at 44100 Hz and 16 bits. They all peak at about -6 dB, except for 2 of the “Song” files.

If you would like, you can see more about my practice at https://takashishallow.com/

File Types: Loop, Sample, Song, and Stem

Loop: These sounds can repeat seamlessly within an environment that manages loops, like a DAW.

Sample: Unlike loops, these sounds generally play through once. Their BPMs are not labeled, because they are not bound by tempo. Most of the samples in this pack are “Percussive” with the exception of one “Pad”. Percussive sounds emerge immediately as opposed to pad sounds which fade in.
Song: These files are complete songs. “Sample Pack Demo” presents strictly M1 sounds while the other 2 songs also feature an array of other sounds. “Sample Pack Demo” is a premaster, so it peaks at -6 dB. The other 2 songs are mastered, thus peaking closer to 0 dB. 
“1988” is a song that could have been made in 1988 even though I recorded it in 2023. It utilizes the M1, which debuted during my birth year 1988, and FM synthesis which Yamaha patented during the 70s. 
I produced “The Beat Wants You” with opera singer Jenne Carey who goes by Jenne C when she sings pop. The entire Jenne C project is a bit of an homage to the M1 because her pop name mimics Robin S whose hit “Show Me Love” famously features the M1. Carey and I were also fascinated by the relationship between opera and disco, as Donna Summer shares this transition. 
Stem: These files gather layers from songs. All of the stems are present for “Sample Pack Demo”. For the other 2 songs, only their M1 layers are in this pack.
DOI: 10.48539/hbm639.tmlm.723
title: OMAP-21: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based Imaging of Palatine Tonsil (FFPE) with MICS on MACSima, v1.1

description: OMAP-21 was designed for MICS (MACSima imaging cyclic staining) imaging of FFPE human tonsil samples. <br>Tissue fixation and antigen retrieval is described in (Spatial protein and RNA analysis on the same tissue section<br>using MICS technology). The MACSima technology is described in detail in the following publication (MACSima imaging<br>cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors). Most,<br>but not all, antibodies in this panel are recombinant antibodies with a mutated human IgG1 constant region. The<br>described mutation removes the Fc receptor binding capacity of human IgG1, eliminating the need for additional<br>blocking steps and reducing non-specific binding of human antibodies on human tissues. Highly multiplexed imaging is<br>achieved through cycles of immunolabeling with FITC, PE, and APC conjugated antibodies and photobleaching to<br>eliminate fluorescence signal between imaging cycles. The panel contains 47 antibodies and the nuclear marker DAPI<br>for image alignment and nuclear segmentation. This OMAP provides a spatial context for all anatomical structures and<br>most cell types present in the human palatine tonsil. OMAP-21 follows closely OMAP-1 described for human lymph nodes<br>(omap-1-human-lymph-node-ibex) and OMAP-10 (omap-10-palatine-tonsil-macsima). All reagents were obtained from<br>Miltenyi Biotec and have been rigorously tested through an internal quality control system to have minimal variation<br>between lots. For this reason, lot information is not included in this table. Analysis was performed by an<br>accompanied software package MACSIQ View Analysis also described in the MACSima publication<br>(https://doi.org/10.1038/s41598-022-05841-4). The result of the analysis is included in the uploaded dataset. In<br>brief, the software processes the raw images of the MACSima run, generates stitched images, and then allows<br>downstream analysis including cell segmentation, cell gating, data normalization, dimension reduction plots (tSNE,<br>UMAP), heat maps, distance analyses and cluster analyses, all of which are interactively linked together. The MACSima<br>system is continuously evolving, this is the second OMAP for the MACSima system. v1.1 updates UniProt IDs for CD45<br>splice variants: P08575-9 CD45RB, P08575-8 CD45RA, P08575-4 CD45R0 vs P08575 CD45.
DOI: 10.15468/dl.psnxhx
title: Occurrence Download

description: A dataset containing 1250 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amazona versicolor"
 ]
}

 The dataset includes 1250 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053615-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y8rxxs
title: Occurrence Download

description: A dataset containing 66 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holognathidae",
 "HasCoordinate is true",
 "Country is one of (Belgium, Netherlands, France, Germany, Italy, Spain, United Kingdom of Great Britain and Northern Ireland, Ireland, Switzerland, Austria, Portugal, Norway, Sweden, Denmark, Finland, Poland, Czechia, Slovakia, Hungary, Slovenia)",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 66 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053616-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48539/hbm699.bsql.926
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Bone Marrow, v1.5

description: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables (https://humanatlas.io/asctb-tables) aim to capture<br>the nested bone-marrow 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 bone marrow table<br>reflects sampling from the iliac crest from the ilium bone of the bony pelvis. Minor changes were made for v1.4 to<br>ensure all cell types were mapped to Cell Ontology and genes and proteins were mapped to the Human Gene Ontology<br>(HUGO) Gene Nomenclature Committee (HGNC).
DOI: 10.48539/hbm296.nbln.233
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Blood/Pelvis, v1.2

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.15991452
title: ReESH_US-GLE: GLEES

description: Regional Ecosystem Soil Hydraulics (ReESH) Project:US-GLE: GLEES

The ReESH Database includes soil characteristics of soil samples and corresponding soil water retention curves, which enable the conversion of soil water content to soil water potential.

Database Files: 1) Soil Characteristics:

"Site" -- Site Name (AmeriFlux Site Code)"Sample_ID" -- Unique Sample Identifier "Sampling_Date" -- Date of Sample Collection (YYYY-MM-DD)"Latitude" -- Site Latitude"Longitude" -- Site Longitude"Veg" -- International Geosphere-Biosphere Program (IGBP) "Depth_cm" -- Sample Collection Depth (cm)"Depth" -- Sample Collection Depth (cm)"CLAY" -- Percent Clay (%)"SILT" -- Percent Silt (%)"SAND" -- Percent Sand (%)"RootBiomass_g" -- Fine Root biomass (g per 250mL soil)"Pct_OM" -- Percent Organic Matter (%)"Bulk_Den_g_m3" -- Sample Bulk Density (g m^-3)"Med_KsSoil_m_s" -- Median Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"Min_KsSoil_m_s" -- Minimum Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"Max_KsSoil_m_s" -- Maximum Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"SD_KsSoil_m_s" -- Standard Deviation in Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"KS_Soil_Flag" -- QAQC flags for Saturated Hydraulic Conductivity measurements (0==good; 1==suspect and use with caution)

2) Soil Water Retention Curves:"Site" -- Site Name (AmeriFlux Site Code)"Sample_ID" -- Unique Sample Identifier "Plot" -- Site Personnel Defined Pit Identifier "Depth_cm" -- Sample Collection Depth (cm)"MPa_Abs" -- Sample Water Potential (-MPa)"Vol_Water" -- Sample Water Content (%)"Hypropfilter" -- Instrument Code (1==WP4C; 2==HyProp)"Sampling_Date" -- Date of Sample Collection (YYYY-MM-DD)"Bulk_Den_g_m3" -- Sample Bulk Density (g m^-3)
DOI: 10.5281/zenodo.15991453
title: ReESH_US-GLE: GLEES

description: Regional Ecosystem Soil Hydraulics (ReESH) Project:US-GLE: GLEES

The ReESH Database includes soil characteristics of soil samples and corresponding soil water retention curves, which enable the conversion of soil water content to soil water potential.

Database Files: 1) Soil Characteristics:

"Site" -- Site Name (AmeriFlux Site Code)"Sample_ID" -- Unique Sample Identifier "Sampling_Date" -- Date of Sample Collection (YYYY-MM-DD)"Latitude" -- Site Latitude"Longitude" -- Site Longitude"Veg" -- International Geosphere-Biosphere Program (IGBP) "Depth_cm" -- Sample Collection Depth (cm)"Depth" -- Sample Collection Depth (cm)"CLAY" -- Percent Clay (%)"SILT" -- Percent Silt (%)"SAND" -- Percent Sand (%)"RootBiomass_g" -- Fine Root biomass (g per 250mL soil)"Pct_OM" -- Percent Organic Matter (%)"Bulk_Den_g_m3" -- Sample Bulk Density (g m^-3)"Med_KsSoil_m_s" -- Median Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"Min_KsSoil_m_s" -- Minimum Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"Max_KsSoil_m_s" -- Maximum Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"SD_KsSoil_m_s" -- Standard Deviation in Saturated Hydraulic Conductivity (m s^-1) -minimum three replicates"KS_Soil_Flag" -- QAQC flags for Saturated Hydraulic Conductivity measurements (0==good; 1==suspect and use with caution)

2) Soil Water Retention Curves:"Site" -- Site Name (AmeriFlux Site Code)"Sample_ID" -- Unique Sample Identifier "Plot" -- Site Personnel Defined Pit Identifier "Depth_cm" -- Sample Collection Depth (cm)"MPa_Abs" -- Sample Water Potential (-MPa)"Vol_Water" -- Sample Water Content (%)"Hypropfilter" -- Instrument Code (1==WP4C; 2==HyProp)"Sampling_Date" -- Date of Sample Collection (YYYY-MM-DD)"Bulk_Den_g_m3" -- Sample Bulk Density (g m^-3)
DOI: 10.6084/m9.figshare.29844785.v1
title: Dissanayake et al_supplemental materials.pdf

description: <b>The Role of Carnitine Palmitoyl Transferase 2 in the Progression of Salt-Sensitive Hypertension</b>
DOI: 10.15468/dl.gmb4dm
title: Occurrence Download

description: A dataset containing 49656 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Holognathidae",
 "TaxonKey is Ischnomesidae",
 "TaxonKey is Antennariidae"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "TaxonKey" : [
 "is Lithobates catesbeianus"
 ]
 }
 },
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 49656 records from 190 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053614-250827131500795/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.29844785
title: Dissanayake et al_supplemental materials.pdf

description: <b>The Role of Carnitine Palmitoyl Transferase 2 in the Progression of Salt-Sensitive Hypertension</b>
DOI: 10.48539/hbm469.nhvb.448
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Lymph Vasculature, v1.2

description: The lymph vasculature table focuses on major central lymphatic structures. The primary source is Rouviere H. Anatomie<br>des Lymphatiques de l'Homme. Masson et Cie: Paris, 1932. This release adds the medial and lateral lymphatic pathways<br>of the upper arm. Additional lymphatic structures of the arm will be included in the next release. Currently,<br>“lymphatic endothelial cell” and “FLT4 (VEGFR-3)” are the only cell types and biomarkers included in the table.
DOI: 10.48539/hbm325.nzpb.589
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Large Intestine, 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/hbm336.tbnp.923
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Pancreas, v1.3

description: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables (https://humanatlas.io/asctb-tables) aim to capture<br>the nested pancreas structure of anatomical human body parts, the typology of cells, and biomarkers used to identify<br>cell types. The tables are authored and reviewed by an international team of experts. The pancreas ASCT+B table<br>delineates the organ's anatomical structures, including the head, body, tail, and lobular regions, and maps associated<br>cell types such as acinar, ductal, and various endocrine cells, along with their corresponding biomarkers. This<br>comprehensive mapping supports research into pancreatic biology and related medical conditions.
DOI: 10.15468/dl.42sz45
title: Occurrence Download

description: A dataset containing 5891 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Metrosideros robusta"
 ]
}

 The dataset includes 5891 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053620-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48539/hbm236.rgww.943
title: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) table for Knee, v1.3

description: Anatomical Structures, Cell Types, plus Biomarkers (ASCT+B) tables (https://humanatlas.io/asctb-tables) aim to capture<br>the nested knee 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 Knee ASCT+B table provides a<br>structured representation of the knee joint's anatomical components, associated cell types, and relevant biomarkers.<br>It includes detailed mappings of structures such as the femur, tibia, patella, menisci, ligaments, and cartilage,<br>along with cell types like chondrocytes, fibroblasts, and synoviocytes.This comprehensive mapping supports research<br>into musculoskeletal biology and related medical conditions.
DOI: 10.5281/zenodo.15490245
title: Supporting data and code for Leach et al. 'Is forest change confounding the influence of climate on Canada's reference hydrometric network?'

description: Supporting data and code for Leach et al. 'Is forest change confounding the influence of climate on Canada's reference hydrometric network?'. The R script contains details on the data files.
DOI: 10.5281/zenodo.17100684
title: Supporting data and code for Leach et al. 'Is forest change confounding the influence of climate on Canada's reference hydrometric network?'

description: Supporting data and code for Leach et al. 'Is forest change confounding the influence of climate on Canada's reference hydrometric network?'. The R script contains details on the data files.