cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.13127085
title: Identifying genetic variants associated with chromatin looping and genome function

description: Here we present a comprehensive HiChIP dataset on naïve CD4 T cells (nCD4) from 30 donors and identify QTLs that associate with genotype-dependent and/or allele-specific variation of HiChIP contacts defining loops between active regulatory regions (iQTLs). We observe a substantial overlap between iQTLs and previously defined eQTLs and histone QTLs, and an enrichment for fine-mapped QTLs and GWAS variants. Furthermore, we describe a distinct subset of nCD4 iQTLs, for which the significant variation of chromatin contacts in nCD4 are translated into significant eQTL trends in CD4 T cell memory subsets. Finally, we define connectivity-QTLs as iQTLs that are significantly associated with concordant genotype-dependent changes in chromatin contacts over a broad genomic region (e.g., GWAS SNP in the RNASET2 locus). Our results demonstrate the importance of chromatin contacts as a complementary modality for QTL mapping and their power in identifying novel classes of QTLs linked to cell-specific gene expression and connectivity.

 

This repository contains the source code, supplementary datasets for the manuscript (Nature Communications 2024).
DOI: 10.5281/zenodo.13127086
title: Identifying genetic variants associated with chromatin looping and genome function

description: Here we present a comprehensive HiChIP dataset on naïve CD4 T cells (nCD4) from 30 donors and identify QTLs that associate with genotype-dependent and/or allele-specific variation of HiChIP contacts defining loops between active regulatory regions (iQTLs). We observe a substantial overlap between iQTLs and previously defined eQTLs and histone QTLs, and an enrichment for fine-mapped QTLs and GWAS variants. Furthermore, we describe a distinct subset of nCD4 iQTLs, for which the significant variation of chromatin contacts in nCD4 are translated into significant eQTL trends in CD4 T cell memory subsets. Finally, we define connectivity-QTLs as iQTLs that are significantly associated with concordant genotype-dependent changes in chromatin contacts over a broad genomic region (e.g., GWAS SNP in the RNASET2 locus). Our results demonstrate the importance of chromatin contacts as a complementary modality for QTL mapping and their power in identifying novel classes of QTLs linked to cell-specific gene expression and connectivity.

 

This repository contains the source code, supplementary datasets for the manuscript (Nature Communications 2024).
DOI: 10.5281/zenodo.13127992
title: Modeling fluid flow in ship systems for controller tuning using an artificial neural network

description: Dataset used to develop ANN NARX models
DOI: 10.5281/zenodo.13127993
title: Modeling fluid flow in ship systems for controller tuning using an artificial neural network

description: Dataset used to develop ANN NARX models
DOI: 10.5281/zenodo.13091020
title: STEM and citizen science in the Western Balkans
DOI: 10.5281/zenodo.13091021
title: STEM and citizen science in the Western Balkans
DOI: 10.25919/a3mr-8m57
title: Parkes observations for project P1328 semester 2024APRS_13

description: Fast radio bursts are peculiar micro-millisecond duration transients, which have been seen to be extragalactic in origin. Since their discovery, a dichotomy has emerged in their population. Some FRBs have been seen to be repeating, while others have not been seen to be repeating. The repeating FRBs, such as FRB 20180301A, provide an unparalleled window into their circumburst environment due to their repeating nature, which can be used to constrain possible progenitor models and test underlying emission mechanisms. Additionally, FRB 20180301A has been seen to have interesting polarisation properties, such as a switch in the sign of RM, indicating a reversal in the magnetic field and a marked reduction in the linear polarisation fraction towards lower frequencies (depolarisation). The previous Parkes/Murriyang source follow-up has also revealed a temporal evolution in the dispersion measure (DM) of the source and tentative evidence for correlation in the DM and rotation measure (RM). The ultra-wideband low (UWL) receiver on Parkes/Murriyang is ideally suited to explore the wideband spectro-temporal and polarimetric behaviour of the source. We propose regular monitoring of FRB 20180301A using UWL to model the magnetic field evolution, study its circumburst media using depolarisation behaviour, and constrain any correlation of DM and RM.
DOI: 10.25919/s0dj-2v89
title: Parkes observations for project P1281 semester 2023OCTS_10

description: The physical origins of Fast Radio Bursts (FRBs) have been highly debated in the past decade, until a bright radio burst from the Galactic magnetar was detected in 2020. The discovery of Galactic FRB has proved that at least some faint FRBs can originate from normal magnetars. Theoretically, young magnetar can give rise to wind nebula with persistent emission in radio band, while it has not been observed among the Galactic magnetars yet. So far, there are two active FRB repeaters confirmed to be associated with persistent radio sources, which are thought to be magnetar wind nebulae near the FRB progenitors. Recently, a special radio source, VT 1137-0337, was discovered in the VLA Sky Survey. All the observational facts strongly indicate its origin of magnetar wind nebula. We propose to observe this radio source with the Parkes UWL receiver to search for possible fast radio transients. If detection made, the PRS-FRB association would be strengthened deeply, and we would be able to directly uncover the nature of active repeaters.
DOI: 10.25919/svp5-7n84
title: Parkes observations for project P1281 semester 2023OCTS_11

description: The physical origins of Fast Radio Bursts (FRBs) have been highly debated in the past decade, until a bright radio burst from the Galactic magnetar was detected in 2020. The discovery of Galactic FRB has proved that at least some faint FRBs can originate from normal magnetars. Theoretically, young magnetar can give rise to wind nebula with persistent emission in radio band, while it has not been observed among the Galactic magnetars yet. So far, there are two active FRB repeaters confirmed to be associated with persistent radio sources, which are thought to be magnetar wind nebulae near the FRB progenitors. Recently, a special radio source, VT 1137-0337, was discovered in the VLA Sky Survey. All the observational facts strongly indicate its origin of magnetar wind nebula. We propose to observe this radio source with the Parkes UWL receiver to search for possible fast radio transients. If detection made, the PRS-FRB association would be strengthened deeply, and we would be able to directly uncover the nature of active repeaters.
DOI: 10.15468/dl.agnjyn
title: Occurrence Download

description: A dataset containing 928562 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Squalius cephalus (Linnaeus, 1758)"
 ]
}

 The dataset includes 928562 records from 511 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041768-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/e113705v1-155678
title: Replication data for: The Neighborhood Impacts of Local Infrastructure Investment: Evidence from Urban Mexico

description: This paper reports on the results of a large infrastructure investment experiment in which $68 million in spending was randomly allocated across a set of low-income urban neighborhoods in Mexico. We show that the program resulted in substantial improvements in access to infrastructure and increases in private investment in housing. While a pre-committed index of social capital did not improve, we find an apparent decrease in the incidence of personal assault and teen misbehavior in neighborhoods where investments were made. The program increased the aggregate real estate value in program neighborhoods by two dollars for every dollar invested.
DOI: 10.3886/e113705v1-155677
title: Replication data for: The Neighborhood Impacts of Local Infrastructure Investment: Evidence from Urban Mexico

description: This paper reports on the results of a large infrastructure investment experiment in which $68 million in spending was randomly allocated across a set of low-income urban neighborhoods in Mexico. We show that the program resulted in substantial improvements in access to infrastructure and increases in private investment in housing. While a pre-committed index of social capital did not improve, we find an apparent decrease in the incidence of personal assault and teen misbehavior in neighborhoods where investments were made. The program increased the aggregate real estate value in program neighborhoods by two dollars for every dollar invested.
DOI: 10.15468/dl.uyc8qn
title: Occurrence Download

description: A dataset containing 413272 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is DATAVES"
 ]
}

 The dataset includes 413272 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041774-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7jnvfw
title: Occurrence Download

description: A dataset containing 1547 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Acrocalanus gracilis Giesbrecht, 1888"
 ]
}

 The dataset includes 1547 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041783-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.3739197
title: Benchmark datasets used in "Classification of Periodic Variables with Cyclic-Permutation Invariant Neural Networks"

description: To aid the reproducibility of the results in the paper “Classification of Periodic Variables with Cyclic-Permutation Invariant Neural Networks,” we make our aggregation of the following data available. Code used to load the data and generate the results can be found at https://github.com/kmzzhang/periodicnetwork. These datasets have been constructed from publicly available data sources. If you use these datasets, please cite the original papers [1, 2, 3], in addition to ours [TBD]. Others might find this data useful for testing time-series inference techniques.


[1] Jayasinghe, T. et al. The ASAS-SN catalogue of variable stars I: The Serendipitous Survey. Monthly Notices of the Royal Astronomical Society 477, 3145–3163 (2018). URL https://academic.oup.com/mnras/article/477/3/3145/4961151.
[2] Alcock, C. et al. The MACHO Project LMC Variable Star Inventory.II.LMC RR Lyrae Stars- Pulsational Characteristics and Indications of a Global Youth of the LMC. The Astronomical Journal 111, 1146 (1996). URL http://adsabs.harvard.edu/abs/1996AJ....111.1146A.
[3] Udalski, A. The Optical Gravitational Lensing Experiment. Real Time Data Analysis Systems in the OGLE-III Survey. Acta Astronomica 53, 291–305 (2003). URL http: //adsabs.harvard.edu/abs/2003AcA....53..291U.
DOI: 10.5281/zenodo.3739198
title: Benchmark Datasets Used in "Improved Classification of Variable Stars with Phase-Invariant Neural Networks"

description: To aid the reproducibility of the results in the paper “Improved Classification of Variable Stars with Phase-Invariant Neural Networks,” we make our aggregation of the following data available. Code used to load the data and generate the results can be found at https://github.com/kmzzhang/periodicnetwork. These datasets have been constructed from publicly available data sources. If you use these datasets, please cite the original papers [1, 2, 3], in addition to ours [TBD]. Others might find this data useful for testing time-series inference techniques. [1] Jayasinghe, T. et al. The ASAS-SN catalogue of variable stars I: The Serendipitous Survey. Monthly Notices of the Royal Astronomical Society 477, 3145–3163 (2018). URL https://academic.oup.com/mnras/article/477/3/3145/4961151.<br> [2] Alcock, C. et al. The MACHO Project LMC Variable Star Inventory.II.LMC RR Lyrae Stars- Pulsational Characteristics and Indications of a Global Youth of the LMC. The Astronomical Journal 111, 1146 (1996). URL http://adsabs.harvard.edu/abs/1996AJ....111.1146A.<br> [3] Udalski, A. The Optical Gravitational Lensing Experiment. Real Time Data Analysis Systems in the OGLE-III Survey. Acta Astronomica 53, 291–305 (2003). URL http: //adsabs.harvard.edu/abs/2003AcA....53..291U.
DOI: 10.5281/zenodo.3903015
title: Benchmark datasets used in "Classification of Periodic Variables with Cyclic-Permutation Invariant Neural Networks"

description: To aid the reproducibility of the results in the paper “Classification of Periodic Variables with Cyclic-Permutation Invariant Neural Networks,” we make our aggregation of the following data available. Code used to load the data and generate the results can be found at https://github.com/kmzzhang/periodicnetwork. These datasets have been constructed from publicly available data sources. If you use these datasets, please cite the original papers [1, 2, 3], in addition to ours [TBD]. Others might find this data useful for testing time-series inference techniques.


[1] Jayasinghe, T. et al. The ASAS-SN catalogue of variable stars I: The Serendipitous Survey. Monthly Notices of the Royal Astronomical Society 477, 3145–3163 (2018). URL https://academic.oup.com/mnras/article/477/3/3145/4961151.
[2] Alcock, C. et al. The MACHO Project LMC Variable Star Inventory.II.LMC RR Lyrae Stars- Pulsational Characteristics and Indications of a Global Youth of the LMC. The Astronomical Journal 111, 1146 (1996). URL http://adsabs.harvard.edu/abs/1996AJ....111.1146A.
[3] Udalski, A. The Optical Gravitational Lensing Experiment. Real Time Data Analysis Systems in the OGLE-III Survey. Acta Astronomica 53, 291–305 (2003). URL http: //adsabs.harvard.edu/abs/2003AcA....53..291U.
DOI: 10.3886/9tgt-ra16
title: Namibia Compact - Community-Based Rangeland & Livestock Management: Baseline Data Set - Cattle Assessment Survey
DOI: 10.3886/nsk6-5g76
title: Namibia Compact - Community-Based Rangeland & Livestock Management: Baseline Data Set - Cattle Assessment Survey
DOI: 10.15468/dl.gwm6b2
title: Occurrence Download

description: A dataset containing 115946 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "CoordinateUncertaintyInMeters 0.0-1019.0",
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (EX, EW, CR, EN, VU, NT, LC, DD, NE)",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 115946 records from 81 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041782-240626123714530/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.3761562.v3010
title: Online Labour Index: Measuring the Online Gig Economy for Policy and Research

description: Data repository for the data underlying the Online Labour Index. See http://ilabour.oii.ox.ac.uk online-labour-index/ for details.
DOI: 10.15468/dl.tp3z7e
title: Occurrence Download

description: A dataset containing 286368 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Barbus barbus (Linnaeus, 1758)"
 ]
}

 The dataset includes 286368 records from 249 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041770-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t4m8s6
title: Occurrence Download

description: A dataset containing 102 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Canada, unknown or invalid)",
 "DatasetKey is one of (Herbier du Québec (QUE) - Collection de plantes vasculaires, Marie-Victorin Herbarium (MT) - Plantes vasculaires, McGill University Herbarium Database, Herbier Louis-Marie (QFA) - Collection de plantes vasculaires, Canadian Museum of Nature Herbarium, New Brunswick Museum - Vascular Plants, Carnegie Museum of Natural History Herbarium, University of Colorado Museum of Natural History Herbarium Vascular Plant Collection, Auburn University, John D. Freeman Herbarium, University of Alberta Vascular Plant Herbarium (ALTA-VP), NMNH Extant Specimen Records (USNM, US), Desert Botanical Garden Herbarium, Vascular Plant Herbarium, Oslo (O) UiO, E. C. Smith Herbarium (ACAD))",
 "OccurrenceStatus is Present",
 "StateProvince is one of (QUebec, Québec, QuébeC, QUEBEC PROV., Québec (Prov.), Québec.)",
 "TaxonKey is Hypericum canadense L."
 ]
}

 The dataset includes 102 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041787-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/eqt3-4b75
title: Namibia Compact - Community-Based Rangeland & Livestock Management: Baseline Data Set - Household Assessment Survey
DOI: 10.3886/tess-nm76
title: Namibia Compact - Community-Based Rangeland & Livestock Management: Baseline Data Set - Household Assessment Survey
DOI: 10.15468/dl.peykx7
title: Occurrence Download

description: A dataset containing 887145 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is one of (Field Museum of Natural History (Botany) Seed Plant Collection, Field Museum of Natural History (Botany) Bryophyte Collection, Field Museum of Natural History (Botany) Pteridophyte Collection, Field Museum of Natural History (Botany) Fungi Collection, Field Museum of Natural History (Botany) Lichen Collection)",
 "HostingOrganizationKey is 7b8aff00-a9f8-11d8-944b-b8a03c50a862",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 887145 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041786-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5wwafg
title: Occurrence Download

description: A dataset containing 636 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Clausocalanus farrani Sewell, 1929"
 ]
}

 The dataset includes 636 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041788-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13128416
title: The use of the Prognostic Nutritional Index to predict chemotherapy toxicities in patients with ovarian cancer: Long-term experience of a tertiary center
DOI: 10.5281/zenodo.13128417
title: The use of the Prognostic Nutritional Index to predict chemotherapy toxicities in patients with ovarian cancer: Long-term experience of a tertiary center
DOI: 10.15468/dl.k3u5uw
title: Occurrence Download

description: A dataset containing 97 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-105.141 24.64357,-104.94356 24.63153,-104.93152 24.77961,-105.17832 24.79044,-105.141 24.64357))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 97 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041790-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d7vfub
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Callimorpha quadripunctaria (Poda, 1761)"
 ]
}

 The dataset includes 44 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069065-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vzzv7w
title: Occurrence Download

description: A dataset containing 520 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is LACM Vertebrate Collection",
 "StateProvince is Alagoas"
 ]
}

 The dataset includes 520 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048063-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6a7sg6
title: Occurrence Download

description: A dataset containing 2148 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Melica transsilvanica Schur"
 ]
}

 The dataset includes 2148 records from 95 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069059-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mkmy8k
title: Occurrence Download

description: A dataset containing 69 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Cobitis bilineata Canestrini, 1865",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 69 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002726-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.enhn2q
title: Occurrence Download

description: A dataset containing 23020 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rangifer C.H.Smith, 1827"
 ]
}

 The dataset includes 23020 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048632-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fajhna
title: Occurrence Download

description: A dataset containing 363 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Flourensia cernua DC."
 ]
}

 The dataset includes 363 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048072-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fhls8p
title: Occurrence Download

description: A dataset containing 234 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is United States of America",
 "Country is Mexico"
 ]
 },
 "TaxonKey is Centaurea americana Nutt."
 ]
}

 The dataset includes 234 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002726-190307172214381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jcc5h6
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eurema hecabe (Linnaeus, 1758)",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 {
 "or" : [
 "Country is Poland",
 "Country is Poland"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0394302-210914110416597/datasets/export for details.