cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.11286187
title: OMAP-21: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based Imaging of Human Palatine Tonsil with MICS on MACSima 1.5

description: OMAP-21 was designed for MICS  (MACSima imaging cyclic staining) imaging of FFPE human tonsil samples.  Tissue fixation and antigen retrieval is described in (Spatial protein and RNA analysis on the same tissue section using MICS technology). The MACSima technology is described in detail in the following publication (MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors). Most, but not all, antibodies in this panel are recombinant antibodies with a mutated human IgG1 constant region. The described mutation removes the Fc receptor binding capacity of human IgG1, eliminating the need for additional blocking steps and reducing non-specific binding of human antibodies on human tissues. Highly multiplexed imaging is achieved through cycles of immunolabeling with FITC, PE, and APC conjugated antibodies and photobleaching to eliminate fluorescence signal between imaging cycles. The panel contains 47 antibodies and the nuclear marker DAPI for image alignment and nuclear segmentation. This OMAP provides a spatial context for all anatomical structures and most cell types present in the human palatine tonsil. OMAP-21 follows closely OMAP-1 described for human lymph nodes (omap-1-human-lymph-node-ibex) and OMAP-10 (omap-10-palatine-tonsil-macsima).

All reagents were obtained from Miltenyi Biotec and have been rigorously tested through an internal quality control system to have minimal variation between lots. For this reason, lot information is not included in this table. Analysis was performed by an accompanied software package MACSIQ View Analysis also described in the MACSima publication (https://doi.org/10.1038/s41598-022-05841-4). The result of the analysis is included in the uploaded dataset. In brief, the software processes the raw images of the MACSima run, generates stitched images, and then allows downstream analysis including cell segmentation, cell gating, data normalization, dimension reduction plots (tSNE, UMAP), heat maps, distance analyses and cluster analyses, all of which are interactively linked together. The MACSima system is continuously evolving,  this is the second OMAP for the MACSima system. A representative dataset created using OMAP-21 can be found here:  10.5281/zenodo.11281609 .
DOI: 10.5281/zenodo.11281608
title: OMAP-21: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based Imaging of Human Palatine Tonsil with MICS on MACSima 1.5

description: OMAP-21 was designed for MICS  (MACSima imaging cyclic staining) imaging of FFPE human tonsil samples.  Tissue fixation and antigen retrieval is described in (Spatial protein and RNA analysis on the same tissue section using MICS technology). The MACSima technology is described in detail in the following publication (MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors). Most, but not all, antibodies in this panel are recombinant antibodies with a mutated human IgG1 constant region. The described mutation removes the Fc receptor binding capacity of human IgG1, eliminating the need for additional blocking steps and reducing non-specific binding of human antibodies on human tissues. Highly multiplexed imaging is achieved through cycles of immunolabeling with FITC, PE, and APC conjugated antibodies and photobleaching to eliminate fluorescence signal between imaging cycles. The panel contains 47 antibodies and the nuclear marker DAPI for image alignment and nuclear segmentation. This OMAP provides a spatial context for all anatomical structures and most cell types present in the human palatine tonsil. OMAP-21 follows closely OMAP-1 described for human lymph nodes (omap-1-human-lymph-node-ibex) and OMAP-10 (omap-10-palatine-tonsil-macsima).

All reagents were obtained from Miltenyi Biotec and have been rigorously tested through an internal quality control system to have minimal variation between lots. For this reason, lot information is not included in this table. Analysis was performed by an accompanied software package MACSIQ View Analysis also described in the MACSima publication (https://doi.org/10.1038/s41598-022-05841-4). The result of the analysis is included in the uploaded dataset. In brief, the software processes the raw images of the MACSima run, generates stitched images, and then allows downstream analysis including cell segmentation, cell gating, data normalization, dimension reduction plots (tSNE, UMAP), heat maps, distance analyses and cluster analyses, all of which are interactively linked together. The MACSima system is continuously evolving,  this is the second OMAP for the MACSima system. A representative dataset created using OMAP-21 can be found here:  10.5281/zenodo.11281609 .
DOI: 10.5281/zenodo.11281609
title: OMAP-21: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based Imaging of Human Palatine Tonsil with MICS on MACSima 1.5

description: OMAP-21 was designed for MICS  (MACSima imaging cyclic staining) imaging of FFPE human tonsil samples.  Tissue fixation and antigen retrieval is described in (Spatial protein and RNA analysis on the same tissue section using MICS technology). The MACSima technology is described in detail in the following publication (MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors). Most, but not all, antibodies in this panel are recombinant antibodies with a mutated human IgG1 constant region. The described mutation removes the Fc receptor binding capacity of human IgG1, eliminating the need for additional blocking steps and reducing non-specific binding of human antibodies on human tissues. Highly multiplexed imaging is achieved through cycles of immunolabeling with FITC, PE, and APC conjugated antibodies and photobleaching to eliminate fluorescence signal between imaging cycles. The panel contains 47 antibodies and the nuclear marker DAPI for image alignment and nuclear segmentation. This OMAP provides a spatial context for all anatomical structures and most cell types present in the human palatine tonsil. OMAP-21 follows closely OMAP-1 described for human lymph nodes (omap-1-human-lymph-node-ibex) and OMAP-10 (omap-10-palatine-tonsil-macsima). 

All reagents were obtained from Miltenyi Biotec and have been rigorously tested through an internal quality control system to have minimal variation between lots. For this reason, lot information is not included in this table. Analysis was performed by an accompanied software package MACSIQ View Analysis also described in the MACSima publication (https://doi.org/10.1038/s41598-022-05841-4). The result of the analysis is included in the uploaded dataset. In brief, the software processes the raw images of the MACSima run, generates stitched images, and then allows downstream analysis including cell segmentation, cell gating, data normalization, dimension reduction plots (tSNE, UMAP), heat maps, distance analyses and cluster analyses, all of which are interactively linked together. The MACSima system is continuously evolving,  this is the second OMAP for the MACSima system. A representative dataset created using OMAP-21 can be found here:  10.5281/zenodo.11281609 .
DOI: 10.5281/zenodo.13132639
title: OMAP-21: Organ Mapping Antibody Panel (OMAP) for Multiplexed Antibody-Based Imaging of Human Palatine Tonsil with MICS on MACSima 1.5

description: OMAP-21 was designed for MICS  (MACSima imaging cyclic staining) imaging of FFPE human tonsil samples.  Tissue fixation and antigen retrieval is described in (Spatial protein and RNA analysis on the same tissue section using MICS technology). The MACSima technology is described in detail in the following publication (MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors). Most, but not all, antibodies in this panel are recombinant antibodies with a mutated human IgG1 constant region. The described mutation removes the Fc receptor binding capacity of human IgG1, eliminating the need for additional blocking steps and reducing non-specific binding of human antibodies on human tissues. Highly multiplexed imaging is achieved through cycles of immunolabeling with FITC, PE, and APC conjugated antibodies and photobleaching to eliminate fluorescence signal between imaging cycles. The panel contains 47 antibodies and the nuclear marker DAPI for image alignment and nuclear segmentation. This OMAP provides a spatial context for all anatomical structures and most cell types present in the human palatine tonsil. OMAP-21 follows closely OMAP-1 described for human lymph nodes (omap-1-human-lymph-node-ibex) and OMAP-10 (omap-10-palatine-tonsil-macsima).

All reagents were obtained from Miltenyi Biotec and have been rigorously tested through an internal quality control system to have minimal variation between lots. For this reason, lot information is not included in this table. Analysis was performed by an accompanied software package MACSIQ View Analysis also described in the MACSima publication (https://doi.org/10.1038/s41598-022-05841-4). The result of the analysis is included in the uploaded dataset. In brief, the software processes the raw images of the MACSima run, generates stitched images, and then allows downstream analysis including cell segmentation, cell gating, data normalization, dimension reduction plots (tSNE, UMAP), heat maps, distance analyses and cluster analyses, all of which are interactively linked together. The MACSima system is continuously evolving,  this is the second OMAP for the MACSima system. A representative dataset created using OMAP-21 can be found here:  10.5281/zenodo.11281609 .
DOI: 10.5281/zenodo.13309712
title: Eiserfeld Schwanen-Apotheke (ca. 1924/1947)

description: Historical questionnaire/s 1924/1948 and index cards, partly selected enclosures regarding the history of a German pharmacy, catalogued via Kalliope portal (Historischer Fragebogen 1924/1948 und Karteikarten, ggf. gemeinfreie Anlagen zur Apothekengeschichte; als Katalog dient das Nachlassportal Kalliope): https://kalliope-verbund.info/DE-611-BF-70963 [Funktion: Im Findbuch anzeigen]Please note: The Kalliope catalogue entry might indicate related material in the archival folder which cannot be published due to copyright or other legal restrictions (NB: Das Katalogisat bei Kalliope kann auch auf Materialien - teils erheblichen Umfangs - verweisen, die aus archiv- oder urheberrechtlichen Gründen nicht veröffentlicht werden dürfen).
DOI: 10.6084/m9.figshare.26553002
title: Additional file 11 of Accumulation of DNA damage alters microRNA gene transcription in Arabidopsis thaliana

description: Additional file 11: Supplementary Table S7. Statistical analysis in Fig. 3.
DOI: 10.15468/dl.vmdrub
title: Occurrence Download

description: A dataset containing 24143 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((-0.34817 38.9017,-0.07934 38.9017,-0.07934 39.06834,-0.34817 39.06834,-0.34817 38.9017))",
 "OccurrenceStatus is Present",
 "Year 2014-2024"
 ]
}

 The dataset includes 24143 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064005-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zge2sx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.809678 -33.595439, 148.809678 -33.597685, 148.81417 -33.597685, 148.81417 -33.595439, 148.809678 -33.595439))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064006-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26556899
title: Additional file 1 of Assessing the collection and reporting of patient-reported outcome data in interventional cancer trials: a single institution, retrospective systematic evaluation

description: Additional file 1: Table S1. Protocol data extraction table.
DOI: 10.6084/m9.figshare.26556899.v1
title: Additional file 1 of Assessing the collection and reporting of patient-reported outcome data in interventional cancer trials: a single institution, retrospective systematic evaluation

description: Additional file 1: Table S1. Protocol data extraction table.
DOI: 10.5281/zenodo.13309717
title: Eisfeld Apotheke (ca. 1924/1947)

description: Historical questionnaire/s 1924/1948 and index cards, partly selected enclosures regarding the history of a German pharmacy, catalogued via Kalliope portal (Historischer Fragebogen 1924/1948 und Karteikarten, ggf. gemeinfreie Anlagen zur Apothekengeschichte; als Katalog dient das Nachlassportal Kalliope): https://kalliope-verbund.info/DE-611-BF-70963 [Funktion: Im Findbuch anzeigen]Please note: The Kalliope catalogue entry might indicate related material in the archival folder which cannot be published due to copyright or other legal restrictions (NB: Das Katalogisat bei Kalliope kann auch auf Materialien - teils erheblichen Umfangs - verweisen, die aus archiv- oder urheberrechtlichen Gründen nicht veröffentlicht werden dürfen).
DOI: 10.6084/m9.figshare.26556902
title: Additional file 2 of Assessing the collection and reporting of patient-reported outcome data in interventional cancer trials: a single institution, retrospective systematic evaluation

description: Additional file 2: Table S2. Publication data extraction table.
DOI: 10.6084/m9.figshare.26553146
title: Additional file 10 of Transcriptomic landscape of TIMP3 oncosuppressor activity in thyroid carcinoma

description: Additional file 10: Table S9. GO functional enriched terms in NIM1-T23 versus NIM1-EV clones. Details of the top 30 significantly enriched GO-BP terms in NIM1-T23 clone compared to NIM1-EV control by cluster Profiler analysis on 290 differentially expressed genes.
DOI: 10.6084/m9.figshare.26553143.v1
title: Additional file 9 of Transcriptomic landscape of TIMP3 oncosuppressor activity in thyroid carcinoma

description: Additional file 9: Table S8. Supervised gene expression analysis results in NIM1-T23 versus NIM1-EV clones. List of 290 differentially expressed genes in NIM1-T23 (expressing a high level of TIMP3 protein) and NIM1-EV (control empty vector) triplicates by Rank product at PFP &lt; 1% and FC &gt; 2 or &lt; − 2. Up- and down-regulated genes are ordered according to absolute value of FC.
DOI: 10.6084/m9.figshare.26553146.v1
title: Additional file 10 of Transcriptomic landscape of TIMP3 oncosuppressor activity in thyroid carcinoma

description: Additional file 10: Table S9. GO functional enriched terms in NIM1-T23 versus NIM1-EV clones. Details of the top 30 significantly enriched GO-BP terms in NIM1-T23 clone compared to NIM1-EV control by cluster Profiler analysis on 290 differentially expressed genes.
DOI: 10.6084/m9.figshare.26552984
title: Additional file 5 of Accumulation of DNA damage alters microRNA gene transcription in Arabidopsis thaliana

description: Additional file 5: Supplementary Table S1. Summary of sRNA-seq library in Col-0 and zdp-1/ape2-2.
DOI: 10.6084/m9.figshare.26556878.v1
title: Additional file 2 of Evolutionary trade-offs associated with copy number variations in resistance alleles in Culex pipiens mosquitoes

description: Additional file 2. This file basically contains all the raw data supporting each analysis.
DOI: 10.15468/dl.x9txht
title: Occurrence Download

description: A dataset containing 219 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mozambique",
 "OccurrenceStatus is Present",
 "TaxonKey is Afzelia quanzensis Welw."
 ]
}

 The dataset includes 219 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064007-240626123714530/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.26552999.v1
title: Additional file 10 of Accumulation of DNA damage alters microRNA gene transcription in Arabidopsis thaliana

description: Additional file 10: Supplementary Table S6. Statistical analysis in Fig. 2.
DOI: 10.6084/m9.figshare.26553047.v1
title: Additional file 1 of Drug-induced liver injury following the use of tocilizumab or sarilumab in patients with coronavirus disease 2019

description: Additional file 1. Information on COVID-19 patients treated with TCZ or SAR obtained from the FEARS database.
DOI: 10.6084/m9.figshare.26556812.v1
title: Additional file 6 of Sex differences in early and term placenta are conserved in adult tissues

description: Additional file 6: Table S6. Sex differences in innate immune genes.
DOI: 10.15468/dl.m3uyz7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((148.827645 -33.633618, 148.829891 -33.633618, 148.829891 -33.631372, 148.827645 -33.631372, 148.827645 -33.633618)), ((148.827645 -33.633618, 148.825399 -33.633618, 148.825399 -33.635864, 148.827645 -33.635864, 148.827645 -33.633618)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064008-240626123714530/datasets/export for details.
DOI: 10.15468/dl.ghtxmf
title: Occurrence Download

description: A dataset containing 1089 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Europe",
 "Country is Germany",
 "DatasetKey is one of (Pl@ntNet observations, EOD – eBird Observation Dataset, iNaturalist Research-grade Observations, naturgucker, Pl@ntNet automatically identified occurrences, KTP Ring Data, Birda - Global Observation Dataset, Observation.org, Nature data from around the World)",
 "Geometry POLYGON((9.98311 53.54293,9.98074 53.54216,9.98772 53.5384,10.00664 53.53694,10.02995 53.53198,10.02389 53.53904,10.01188 53.54095,10.00726 53.54521,10.00165 53.54741,9.98311 53.54293))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is one of (Country derived from coordinates, Continent derived from coordinates, Taxon match fuzzy, Taxon match higher rank, The taxon concept ID was not used in backbone matching, The taxon ID was not used in backbone matching, Multimedia URI invalid, Occurrence status unparsable, Occurrence status inferred from individual count)",
 "License is one of (CC-BY 4.0, CC-BY-NC 4.0, CC0 1.0)",
 "Year 2000-2024"
 ]
}

 The dataset includes 1089 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064009-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zqxadd
title: Occurrence Download

description: A dataset containing 255 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mozambique",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Dialium holtzii Harms, Afzelia quanzensis Welw.)"
 ]
}

 The dataset includes 255 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064010-240626123714530/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.26553050.v1
title: Additional file 1 of Transcriptome analysis of PK-15 cells expressing CSFV NS4A

description: Additional file 1: Supplementary Table S2. Up-regulated and down-regulated genes in CSFV NS4A expressing PK-15 cells compared to those in NC expressing PK-15 cells.
DOI: 10.15468/dl.vxt9ng
title: Occurrence Download

description: A dataset containing 567 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.850103 -33.608914, 148.850103 -33.61116, 148.845611 -33.61116, 148.845611 -33.613406, 148.84112 -33.613406, 148.84112 -33.615651, 148.845611 -33.615651, 148.845611 -33.617897, 148.843365 -33.617897, 148.843365 -33.622389, 148.84112 -33.622389, 148.84112 -33.617897, 148.834382 -33.617897, 148.834382 -33.615651, 148.832136 -33.615651, 148.832136 -33.617897, 148.829891 -33.617897, 148.829891 -33.622389, 148.827645 -33.622389, 148.827645 -33.617897, 148.823153 -33.617897, 148.823153 -33.620143, 148.818662 -33.620143, 148.818662 -33.624635, 148.820907 -33.624635, 148.820907 -33.622389, 148.825399 -33.622389, 148.825399 -33.624635, 148.827645 -33.624635, 148.827645 -33.62688, 148.834382 -33.62688, 148.834382 -33.631372, 148.836628 -33.631372, 148.836628 -33.638109, 148.852349 -33.638109, 148.852349 -33.642601, 148.85684 -33.642601, 148.85684 -33.649338, 148.863578 -33.649338, 148.863578 -33.644847, 148.859086 -33.644847, 148.859086 -33.640355, 148.854594 -33.640355, 148.854594 -33.638109, 148.859086 -33.638109, 148.859086 -33.629126, 148.868069 -33.629126, 148.868069 -33.62688, 148.863578 -33.62688, 148.863578 -33.617897, 148.859086 -33.617897, 148.859086 -33.61116, 148.854594 -33.61116, 148.854594 -33.608914, 148.850103 -33.608914), (148.852349 -33.617897, 148.85684 -33.617897, 148.85684 -33.622389, 148.852349 -33.622389, 148.852349 -33.617897))"
 ]
}

 The dataset includes 567 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064013-240626123714530/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.26553071.v1
title: Additional file 2 of Social dynamics impact scolding behaviour in captive groups of common ravens (Corvus corax)

description: Additional file 2: Table S2. Data used for the analysis on scolding latency and order.
DOI: 10.6084/m9.figshare.26553074.v1
title: Additional file 3 of Social dynamics impact scolding behaviour in captive groups of common ravens (Corvus corax)

description: Additional file 3. R script used for statistical analysis and plotting.
DOI: 10.5281/zenodo.13309735
title: Eisleben Berg- u. Hütten-Apotheke (ca. 1924/1947)

description: Historical questionnaire/s 1924/1948 and index cards, partly selected enclosures regarding the history of a German pharmacy, catalogued via Kalliope portal (Historischer Fragebogen 1924/1948 und Karteikarten, ggf. gemeinfreie Anlagen zur Apothekengeschichte; als Katalog dient das Nachlassportal Kalliope): https://kalliope-verbund.info/DE-611-BF-70963 [Funktion: Im Findbuch anzeigen]Please note: The Kalliope catalogue entry might indicate related material in the archival folder which cannot be published due to copyright or other legal restrictions (NB: Das Katalogisat bei Kalliope kann auch auf Materialien - teils erheblichen Umfangs - verweisen, die aus archiv- oder urheberrechtlichen Gründen nicht veröffentlicht werden dürfen).
DOI: 10.6084/m9.figshare.26553212
title: Additional file 2 of Stool energy density is positively correlated to intestinal transit time and related to microbial enterotypes

description: Additional file 2.
DOI: 10.6084/m9.figshare.26552993
title: Additional file 8 of Accumulation of DNA damage alters microRNA gene transcription in Arabidopsis thaliana

description: Additional file 8: Supplementary Table S4. List of primers used in this study.
DOI: 10.6084/m9.figshare.26552996
title: Additional file 9 of Accumulation of DNA damage alters microRNA gene transcription in Arabidopsis thaliana

description: Additional file 9: Supplementary Table S5. Statistical analysis in Fig. 1.