cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.11075178
title: HLApollo: Towards designing improved cancer immunotherapy targets with a superior peptide-MHC-I presentation model

description: Based on the success of cancer immunotherapy, personalized cancer vaccines have recently emerged as the vanguard of oncology treatment. Because antigen presentation on MHC class I (MHC-I) is key to the adaptive immune response to cancerous cells, it is critical to have highly predictive computational methods to model which peptides are presented on MHC-I. Here, we introduce HLApollo, a transformer-based model with end-to-end treatment of MHC-I sequence, deconvolution of multi-allelic data, and ligand-flanking sequences. We develop negative-set switching, a novel training strategy that greatly reduces overfitting, which is key to HLApollo’s performance, leading to increases of 20.19% and 4.1% in average precision (AP) vs. next best model on MHC-I presentation and immunogenicity, respectively. Incorporating protein features derived from protein language models yielded further gains and reduced the need for gene expression measurements. We achieve excellent pan-allelic generalization, and create a framework for estimating performance on untrained alleles. This guides the clinical use of HLApollo, where rare alleles may be observed – particularly for individuals from underrepresented ancestries. Our work uses all facets of available MHC-I data to develop a highly accurate MHC-I presentation predictor that meaningfully improves immunogenicity prediction and allelic coverage, important for clinical applications of personalized neoantigen vaccines.
DOI: 10.5281/zenodo.12535681
title: HLApollo: Towards designing improved cancer immunotherapy targets with a superior peptide-MHC-I presentation model

description: Based on the success of cancer immunotherapy, personalized cancer vaccines have recently emerged as the vanguard of oncology treatment. Because antigen presentation on MHC class I (MHC-I) is key to the adaptive immune response to cancerous cells, it is critical to have highly predictive computational methods to model which peptides are presented on MHC-I. Here, we introduce HLApollo, a transformer-based model with end-to-end treatment of MHC-I sequence, deconvolution of multi-allelic data, and ligand-flanking sequences. We develop negative-set switching, a novel training strategy that greatly reduces overfitting, which is key to HLApollo’s performance, leading to increases of 20.19% and 4.1% in average precision (AP) vs. next best model on MHC-I presentation and immunogenicity, respectively. Incorporating protein features derived from protein language models yielded further gains and reduced the need for gene expression measurements. We achieve excellent pan-allelic generalization, and create a framework for estimating performance on untrained alleles. This guides the clinical use of HLApollo, where rare alleles may be observed – particularly for individuals from underrepresented ancestries. Our work uses all facets of available MHC-I data to develop a highly accurate MHC-I presentation predictor that meaningfully improves immunogenicity prediction and allelic coverage, important for clinical applications of personalized neoantigen vaccines.
DOI: 10.5281/zenodo.7951717
title: HLApollo: Towards designing improved cancer immunotherapy targets with a superior peptide-MHC-I presentation model

description: Based on the success of cancer immunotherapy, personalized cancer vaccines have recently emerged as the vanguard of oncology treatment. Because antigen presentation on MHC class I (MHC-I) is key to the adaptive immune response to cancerous cells, it is critical to have highly predictive computational methods to model which peptides are presented on MHC-I. Here, we introduce HLApollo, a transformer-based model with end-to-end treatment of MHC-I sequence, deconvolution of multi-allelic data, and ligand-flanking sequences. We develop negative-set switching, a novel training strategy that greatly reduces overfitting, which is key to HLApollo’s performance, leading to increases of 20.19% and 4.1% in average precision (AP) vs. next best model on MHC-I presentation and immunogenicity, respectively. Incorporating protein features derived from protein language models yielded further gains and reduced the need for gene expression measurements. We achieve excellent pan-allelic generalization, and create a framework for estimating performance on untrained alleles. This guides the clinical use of HLApollo, where rare alleles may be observed – particularly for individuals from underrepresented ancestries. Our work uses all facets of available MHC-I data to develop a highly accurate MHC-I presentation predictor that meaningfully improves immunogenicity prediction and allelic coverage, important for clinical applications of personalized neoantigen vaccines.
DOI: 10.5281/zenodo.7951718
title: HLApollo: Towards designing improved cancer immunotherapy targets with a superior peptide-MHC-I presentation model

description: <strong>Based on the success of cancer immunotherapy, personalized cancer vaccines have recently emerged as the vanguard of oncology treatment. Because antigen presentation on MHC class I (MHC-I) is key to the adaptive immune response to cancerous cells, it is critical to have highly predictive computational methods to model which peptides are presented on MHC-I. Here, we introduce HLApollo, a transformer-based model with end-to-end treatment of MHC-I sequence, deconvolution of multi-allelic data, and ligand-flanking sequences. We develop negative-set switching, a novel training strategy that greatly reduces overfitting, which is key to HLApollo’s performance, leading to increases of 20.19% and 4.1% in average precision (AP) vs. next best model on MHC-I presentation and immunogenicity, respectively. Incorporating protein features derived from protein language models yielded further gains and reduced the need for gene expression measurements. We achieve excellent pan-allelic generalization, and create a framework for estimating performance on untrained alleles. This guides the clinical use of HLApollo, where rare alleles may be observed – particularly for individuals from underrepresented ancestries. Our work uses all facets of available MHC-I data to develop a highly accurate MHC-I presentation predictor that meaningfully improves immunogenicity prediction and allelic coverage, important for clinical applications of personalized neoantigen vaccines.</strong>
DOI: 10.15468/dl.c687qy
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Microtus irani Thomas, 1921"
 ]
}

 The dataset's 1 records were derived from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093458-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t34tmk
title: Occurrence Download

description: A dataset containing 144 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Alamania punicea Lex."
 ]
}

 The dataset includes 144 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093474-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bxpsqr
title: Occurrence Download

description: A dataset containing 3961 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Schinopsis Engl."
 ]
}

 The dataset includes 3961 records from 188 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093476-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.63wrs3
title: Occurrence Download

description: A dataset containing 395 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Macroalgae from eight reefs in the Campeche Bank, collected by the National Autonomous University of Mexico (UNAM)"
 ]
}

 The dataset includes 395 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093477-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yt4gck
title: Occurrence Download

description: A dataset containing 331 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-79.63535 43.91717,-79.63062 43.91792,-79.63214 43.91969,-79.63327 43.92092,-79.63355 43.92276,-79.63535 43.92289,-79.63733 43.92194,-79.63535 43.91717))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 331 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093478-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21965/ijhpr.2024.001
title: Preferences for Monitoring Chronic Heart Failure Patients: A Multi-Profile Best–Worst Scaling Analysis
DOI: 10.15468/dl.nh7ua5
title: Occurrence Download

description: A dataset containing 152 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Prunus lusitanica subsp. lusitanica"
 ]
}

 The dataset includes 152 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093479-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/8785706
title: Student performance
DOI: 10.5281/zenodo.8422643
title: E-Supplement to the Relocation of the seismicity of the Caucasus region

description: The e-Supplement contains the Ground Truth event list in the Caucasus region, the input and output files for the Bayesloc multiple event location algorithm, as well as the event catalog and event bulletin in ISF2.1 format constructed from the Bayesloc results.


This work was produced under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344. LLNL-MI-855583
DOI: 10.5281/zenodo.8422644
title: E-Supplement to the Relocation of the seismicity of the Caucasus region

description: The e-Supplement contains the Ground Truth event list in the Caucasus region, the input and output files for the Bayesloc multiple event location algorithm, as well as the event catalog and event bulletin in ISF2.1 format constructed from the Bayesloc results.


This work was produced under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344. LLNL-MI-855583
DOI: 10.15468/dl.sb4ewx
title: Occurrence Download

description: A dataset containing 75 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bejaria laevis Benth.",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 75 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093481-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gdbvdn
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bejaria guatemalensis Camp",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 15 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093482-240506114902167/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.24944820
title: Huili_Myc_phosphorus experiment_2019-Mastertable.xlsx

description: We studied the trade-off between P homeostasis and growth in ectomycorrhizal poplar plants and non-inoculated plants. We used two P treatments (HP: 64 µM Pi, LP: 0.64 µM Pi in the nutrient solution) and four fungal treatments (<i>Paxillus involutus</i> MAJ, <i>Paxillus involutus</i> NAU, <i>Laccaria bicolor</i> dikaryon LBD, <i>Laccaria bicolor</i> monokaryon LBM) in addition to non-inoculated poplar plants (NI) to measure growth, biomass, gas exchange and P contents.
DOI: 10.6084/m9.figshare.24944820.v1
title: Huili_Myc_phosphorus experiment_2019-Mastertable.xlsx

description: We studied the trade-off between P homeostasis and growth in ectomycorrhizal poplar plants and non-inoculated plants. We used two P treatments (HP: 64 µM Pi, LP: 0.64 µM Pi in the nutrient solution) and four fungal treatments (<i>Paxillus involutus</i> MAJ, <i>Paxillus involutus</i> NAU, <i>Laccaria bicolor</i> dikaryon LBD, <i>Laccaria bicolor</i> monokaryon LBM) in addition to non-inoculated poplar plants (NI) to measure growth, biomass, gas exchange and P contents.
DOI: 10.15468/dl.865msx
title: Occurrence Download

description: A dataset containing 131 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bejaria mexicana Benth.",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 131 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093480-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s5j6rh
title: Occurrence Download

description: A dataset containing 88625 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Odocoileus hemionus (Rafinesque, 1817)"
 ]
}

 The dataset includes 88625 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093468-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.afr7cg
title: Occurrence Download

description: A dataset containing 26715 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Fossil",
 "LatestPeriodOrHighestSystem is Cambrian",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 26715 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093484-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ghqwd3
title: Occurrence Download

description: A dataset containing 212853 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Ireland, Svalbard and Jan Mayen, Portugal, Spain, France, Germany, Belgium, Netherlands, Denmark, Estonia, Latvia, Lithuania, Italy, Greece, Cyprus, Türkiye, Russian Federation, Ukraine, Romania, Bulgaria, Albania, Croatia, Austria, Slovakia, Poland)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Veronica officinalis L."
 ]
}

 The dataset includes 212853 records from 1235 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093466-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pnvj3b
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Polyplacophora)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-120 -60,-90 -60,-90 -30,-120 -30,-120 -60))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012592-251009101135966/datasets/export for details.
DOI: 10.15468/dl.94w2ju
title: Occurrence Download

description: A dataset containing 127 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Freshwater crustaceans in Antarctic and sub-Antarctic lakes"
 ]
}

 The dataset includes 127 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012593-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jzsh53
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Polyplacophora)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-150 -60,-120 -60,-120 -30,-150 -30,-150 -60))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012594-251009101135966/datasets/export for details.
DOI: 10.15468/dl.w6ytzw
title: Occurrence Download

description: A dataset containing 1714 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "GadmGid is IND.16.3_1",
 "TaxonKey is Copsychus fulicatus (Linnaeus, 1766)",
 "Year 2019-2019"
 ]
}

 The dataset includes 1714 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000011-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.az3mnt
title: Occurrence Download

description: A dataset containing 303999 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Canada",
 "TaxonKey is Odonata"
 ]
}

 The dataset includes 303999 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000014-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15510423
title: Sign Speak : Empowering Deaf And Dumb Through Gesture Recognition

description: Project Title: Sign Speak – Real-time Sign Language Detection and Recognition

Description:

This project aims to bridge the communication gap for deaf and dumb individuals by recognizing Indian Sign Language (ISL) gestures in real-time using computer vision and deep learning. It leverages MediaPipe to extract hand landmarks, which are then used as input to a Long Short-Term Memory (LSTM) neural network model built with TensorFlow and Keras. The system detects hand gestures via a webcam feed, processes the keypoints, classifies them using the trained model, and translates them into corresponding text or actions.

The project also features a Flask-based web application with user authentication and optional face recognition login. It demonstrates practical deployment of AI models, handling both accuracy and real-time performance.

Key Technologies:





Python, OpenCV, MediaPipe




NumPy, TensorFlow, Keras




LSTM Neural Network




Flask Web Framework




Face Recognition for Secure Login



Highlights:





Real-time detection of ISL gestures using webcam




Landmark extraction via MediaPipe Hands




Trained LSTM model for gesture classification




Accuracy: ~99.4% (Tanh/Softmax activation, 1000 epochs)




Lightweight and efficient compared to image-based CNN models




Interactive web interface with face login
DOI: 10.5281/zenodo.15510424
title: Sign Speak : Empowering Deaf And Dumb Through Gesture Recognition

description: Project Title: Sign Speak – Real-time Sign Language Detection and Recognition

Description:

This project aims to bridge the communication gap for deaf and dumb individuals by recognizing Indian Sign Language (ISL) gestures in real-time using computer vision and deep learning. It leverages MediaPipe to extract hand landmarks, which are then used as input to a Long Short-Term Memory (LSTM) neural network model built with TensorFlow and Keras. The system detects hand gestures via a webcam feed, processes the keypoints, classifies them using the trained model, and translates them into corresponding text or actions.

The project also features a Flask-based web application with user authentication and optional face recognition login. It demonstrates practical deployment of AI models, handling both accuracy and real-time performance.

Key Technologies:





Python, OpenCV, MediaPipe




NumPy, TensorFlow, Keras




LSTM Neural Network




Flask Web Framework




Face Recognition for Secure Login



Highlights:





Real-time detection of ISL gestures using webcam




Landmark extraction via MediaPipe Hands




Trained LSTM model for gesture classification




Accuracy: ~99.4% (Tanh/Softmax activation, 1000 epochs)




Lightweight and efficient compared to image-based CNN models




Interactive web interface with face login
DOI: 10.15468/dl.c69t2j
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is IND.16_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Copsychus malabaricus (Scopoli, 1786)",
 "Year 2024-2024"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000024-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yuryy4
title: Occurrence Download

description: A dataset containing 2985 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "Geometry POLYGON((77.09247 -18.55635,154.90753 -18.55635,154.90753 12.55635,77.09247 12.55635,77.09247 -18.55635))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is Country invalid",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 2985 records from 67 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000005-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25625/v3ysyd/5x4gf1
title: H09_BM18_overview_px=12.372um.h5

description: This dataset was acquired with a voxelsize of 6.186 µm and has been binned 2-fold.
DOI: 10.25625/v3ysyd/h57l21
title: H09_BM18_zoom_px=3.624um.h5

description: This dataset was acquired with a voxelsize of 1.812 µm and has been binned 2-fold.
DOI: 10.25625/v3ysyd/h9jl6o
title: H02_uCT_px=7.2um.h5

description: This dataset was acquired with a voxelsize of 7.2 µm and has not been binned.
DOI: 10.25625/v3ysyd/k9pxew
title: Supplementary Movie 1.mp4

description: Movie showing the Human Temporal Bone Reconstruction of sample H11 ( with Cochlea Implant), 6.2µm Voxel BM18/ESRF
J. Schaeper et al. npj Imaging 2025
DOI: 10.25625/v3ysyd/n1ap9k
title: H02_BM18_overview_px=6.186um.h5

description: This dataset was acquired with a voxelsize of 6.186 µm and has not been binned.
DOI: 10.25625/v3ysyd/nqq7xo
title: H11_uCT_zoom_px=15.53um.h5

description: This dataset was acquired with a voxelsize of 15.53 µm and has not been binned.
DOI: 10.25625/v3ysyd/svvlav
title: H02_BM18_zoom_px=4.516um.h5

description: This dataset was acquired with a voxelsize of 2.258 µm and has been binned 2-fold.