cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.wsqema
title: Occurrence Download

description: A dataset containing 849 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crotalus lepidus klauberi Gloyd, 1936"
 ]
}

 The dataset includes 849 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008840-240626123714530/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/8838800
title: Nepali Number Plate Characters Dataset
DOI: 10.15468/dl.bcnpqt
title: Occurrence Download

description: A dataset containing 7769 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Podocarpus aristulatus Parl., Podocarpus brasiliensis de Laub., Podocarpus capuronii de Laub., Podocarpus celatus de Laub., Podocarpus coriaceus Rich., Podocarpus costaricensis de Laub. ex Silba, Podocarpus elongatus (Aiton) L'Herit. ex Pers., Podocarpus glomeratus D.Don, Podocarpus guatemalensis Standl., Podocarpus henkelii Stapf ex Dallim. & A.B.Jacks., Podocarpus hispaniolensis de Laub., Podocarpus lambertii Klotzsch ex Endl., Podocarpus latifolius (Thunb.) R.Br. ex Mirb., Podocarpus madagascariensis Baker, Podocarpus magnifolius J.T.Buchholz & N.E.Gray, Podocarpus matudae Lundell, Podocarpus milanjianus Rendle, Podocarpus oleifolius D.Don, Podocarpus parlatorei Pilg., Podocarpus purdieanus Hook., Podocarpus rusbyi J.T.Buchholz & N.E.Gray, Podocarpus sellowii Klotzsch ex Endl., Podocarpus sprucei Parl., Podocarpus transiens (Pilg.) de Laub. ex Silba, Podocarpus trinitensis J.T.Buchholz & N.E.Gray, Podocarpus urbanii Pilg.)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 }
 ]
}

 The dataset includes 7769 records from 289 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008842-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xnnj4t
title: Occurrence Download

description: A dataset containing 18392 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phylloscopus whistleri (Ticehurst, 1925)"
 ]
}

 The dataset includes 18392 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008841-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.83td9r
title: Occurrence Download

description: A dataset containing 34906 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Actinidia Lindl."
 ]
}

 The dataset includes 34906 records from 410 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008843-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.expyw3
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Lamprotornis chalcurus Nordmann, 1835"
 ]
}

 The dataset includes 9 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008844-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nzyae4
title: Occurrence Download

description: A dataset containing 255 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Handroanthus chrysanthus (Jacq.) S.O.Grose"
 ]
}

 The dataset includes 255 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008846-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v8u9s7
title: Occurrence Download

description: A dataset containing 255 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Handroanthus chrysanthus (Jacq.) S.O.Grose"
 ]
}

 The dataset includes 255 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008847-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c5dz03c9d
title: MassIVE MSV000095215 - Mindbomb1 is a Novel Negative Regulator of BMP Signaling
title: Mindbomb1 is a Novel Negative Regulator of BMP Signaling.
DOI: 10.15468/dl.v2kbcw
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Leucopsar rothschildi Stresemann, 1912"
 ]
}

 The dataset includes 38 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008848-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8dyr2u
title: Occurrence Download

description: A dataset containing 34906 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Actinidia Lindl."
 ]
}

 The dataset includes 34906 records from 410 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008850-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6anrgk
title: Occurrence Download

description: A dataset containing 39394 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "TaxonKey is Acer rubrum L."
 ]
}

 The dataset includes 39394 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008851-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uu8ez7
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Acridotheres melanopterus (Daudin, 1800)"
 ]
}

 The dataset includes 22 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008852-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n8cp9d
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Puerulus sewelli Ramadan, 1938"
 ]
}

 The dataset includes 28 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008854-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12519678
title: Single-cell transcriptomic analysis of B cells reveals new insights into atypical memory B cells in COVID-19

description: Here, we performed single-cell RNA sequencing of S1 and RBD protein-specific B cells from convalescent COVID-19 patients with different clinical manifestations. This study aimed to evaluate the role and developmental pathway of atypical memory B cells in response to SARS-CoV-2 infection. The results revealed a proinflammatory signature across B cell subsets associated with disease severity, as evidenced by the upregulation of genes such as GADD45B, MAP3K8, and NFKBIA in critical and severe individuals. Furthermore, the analysis of atypical memory B cells suggested a developmental pathway similar to that of conventional memory B cells through germinal centers, as indicated by the expression of several genes involved in germinal center processes, including CXCR4, CXCR5, BCL2, and MYC. Additionally, the upregulation of genes characteristic of the immune response in COVID-19, such as ZFP36 and DUSP1, suggested that the differentiation and activation of atypical memory B cells may be influenced by exposure to SARS-CoV-2 and that these genes may contribute to the immune response for COVID-19 recovery. Our study contributes to a better understanding of atypical memory B cells in COVID-19 and the role of other B cell subsets across different clinical manifestations.
DOI: 10.5281/zenodo.12519679
title: Single-cell transcriptomic analysis of B cells reveals new insights into atypical memory B cells in COVID-19

description: Here, we performed single-cell RNA sequencing of S1 and RBD protein-specific B cells from convalescent COVID-19 patients with different clinical manifestations. This study aimed to evaluate the role and developmental pathway of atypical memory B cells in response to SARS-CoV-2 infection. The results revealed a proinflammatory signature across B cell subsets associated with disease severity, as evidenced by the upregulation of genes such as GADD45B, MAP3K8, and NFKBIA in critical and severe individuals. Furthermore, the analysis of atypical memory B cells suggested a developmental pathway similar to that of conventional memory B cells through germinal centers, as indicated by the expression of several genes involved in germinal center processes, including CXCR4, CXCR5, BCL2, and MYC. Additionally, the upregulation of genes characteristic of the immune response in COVID-19, such as ZFP36 and DUSP1, suggested that the differentiation and activation of atypical memory B cells may be influenced by exposure to SARS-CoV-2 and that these genes may contribute to the immune response for COVID-19 recovery. Our study contributes to a better understanding of atypical memory B cells in COVID-19 and the role of other B cell subsets across different clinical manifestations.
DOI: 10.5281/zenodo.10528602
title: Unsupervised behaviour analysis and magnification (uBAM) using deep learning Dataset

description: Abstract

Motor behaviour analysis is essential to biomedical research and clinical diagnostics as it provides a non-invasive strategy for identifying motor impairment and its change caused by interventions. State-of-the-art instrumented movement analysis is time- and cost-intensive, because it requires the placement of physical or virtual markers. As well as the effort required for marking the keypoints or annotations necessary for training or fine-tuning a detector, users need to know the interesting behaviour beforehand to provide meaningful keypoints. Here, we introduce unsupervised behaviour analysis and magnification (uBAM), an automatic deep learning algorithm for analysing behaviour by discovering and magnifying deviations. A central aspect is unsupervised learning of posture and behaviour representations to enable an objective comparison of movement. Besides discovering and quantifying deviations in behaviour, we also propose a generative model for visually magnifying subtle behaviour differences directly in a video without requiring a detour via keypoints or annotations. Essential for this magnifica-tion of deviations, even across different individuals, is a disentangling of appearance and behaviour. Evaluations on rodents and human patients with neurological diseases demonstrate the wide applicability of our approach. Moreover, combining optoge-netic stimulation with our unsupervised behaviour analysis shows its suitability as a non-invasive diagnostic tool correlating function to brain plasticity

 



 
description: Dataset

This dataset contains the data used in the paper "Unsupervised behaviour analysis and magnification (uBAM) using deep learning" published in NATURE MACHINE INTELLIGENCE | VOL 3 | JUNE 2021 | 495–506. 

It consists of the rat data, the optogenetics data and the mice data. 

The human dataset cannot be publicly released because of privacy issues (please contact the authors if needed).

 

Code



The code for training and evaluating our models is publicly available on GitHub at the following address:

https://github.com/utabuechler/uBAM



Our uBAM (unsupervised behavior analysis and magnification) interface is freely available online and interactive demos are provided on https://utabuechler.github.io/behaviorAnalysis/
description: Contributions

B.B., U.B. and B.O. developed uBAM. B.B. and U.B. implemented and evaluated the framework and M.D. and P.R. the VAE. A.-S.W., L.F. and F.H. conducted the biomedical experiments and validated the results.

 



Acknowledgements



This work was supported in part by German Research Foundation (DFG) projects 371923335 and 421703927 to B.O. as well as the Branco Weiss Fellowship Society in Science and the Swiss National Foundation Grant (Nr. 192678) to ASW.
DOI: 10.5281/zenodo.10528603
title: Unsupervised behaviour analysis and magnification (uBAM) using deep learning Dataset

description: Abstract

Motor behaviour analysis is essential to biomedical research and clinical diagnostics as it provides a non-invasive strategy for identifying motor impairment and its change caused by interventions. State-of-the-art instrumented movement analysis is time- and cost-intensive, because it requires the placement of physical or virtual markers. As well as the effort required for marking the keypoints or annotations necessary for training or fine-tuning a detector, users need to know the interesting behaviour beforehand to provide meaningful keypoints. Here, we introduce unsupervised behaviour analysis and magnification (uBAM), an automatic deep learning algorithm for analysing behaviour by discovering and magnifying deviations. A central aspect is unsupervised learning of posture and behaviour representations to enable an objective comparison of movement. Besides discovering and quantifying deviations in behaviour, we also propose a generative model for visually magnifying subtle behaviour differences directly in a video without requiring a detour via keypoints or annotations. Essential for this magnifica-tion of deviations, even across different individuals, is a disentangling of appearance and behaviour. Evaluations on rodents and human patients with neurological diseases demonstrate the wide applicability of our approach. Moreover, combining optoge-netic stimulation with our unsupervised behaviour analysis shows its suitability as a non-invasive diagnostic tool correlating function to brain plasticity

 



 
description: Dataset

This dataset contains the data used in the paper "Unsupervised behaviour analysis and magnification (uBAM) using deep learning" published in NATURE MACHINE INTELLIGENCE | VOL 3 | JUNE 2021 | 495–506. 

It consists of the rat data, the optogenetics data and the mice data. 

The human dataset cannot be publicly released because of privacy issues (please contact the authors if needed).

 

Code



The code for training and evaluating our models is publicly available on GitHub at the following address:

https://github.com/utabuechler/uBAM



Our uBAM (unsupervised behavior analysis and magnification) interface is freely available online and interactive demos are provided on https://utabuechler.github.io/behaviorAnalysis/
description: Contributions

B.B., U.B. and B.O. developed uBAM. B.B. and U.B. implemented and evaluated the framework and M.D. and P.R. the VAE. A.-S.W., L.F. and F.H. conducted the biomedical experiments and validated the results.

 



Acknowledgements



This work was supported in part by German Research Foundation (DFG) projects 371923335 and 421703927 to B.O. as well as the Branco Weiss Fellowship Society in Science and the Swiss National Foundation Grant (Nr. 192678) to ASW.
DOI: 10.26030/z92y-7b97
title: Influence of gonadectomy on muscle health in micro- and partial-gravity environments in rats (Grip; force transducer)

description: Gonadal hormones, such as testosterone and estradiol, modulate muscle size and strength in males and females. However, the influence of sex hormones on muscle strength in micro- and partial-gravity environments (e.g., the Moon or Mars) is not fully understood. The purpose of this study was to determine the influence of gonadectomy (castration/ovariectomy) on progression of muscle atrophy in both micro- and partial-gravity environments in male and female rats. Male and female Fischer rats (n equals 120) underwent castration/ovariectomy (CAST/OVX) or sham surgery (SHAM) at 11 weeks of age. After 2 weeks of recovery, rats were exposed to hindlimb unloading (0g), partial weight bearing at 40% of normal loading (0.4g, Martian gravity), or normal loading (1.0g) for 28 days. In males, CAST did not exacerbate body weight loss or other metrics of musculoskeletal health. In females, OVX animals tended to have greater body weight loss and greater gastrocnemius loss. Within 7 days of exposure to either microgravity or partial gravity, females had detectable changes to estrous cycle, with greater time spent in low-estradiol phases diestrus and metestrus (∼47% in 1g vs. 58% in 0g and 72% in 0.4g animals, P equals 0.005). We conclude that in males testosterone deficiency at the initiation of unloading has little effect on the trajectory of muscle loss. In females, initial low estradiol status may result in greater musculoskeletal losses. This study derives results from Grip (Force Transducer).
DOI: 10.15468/dl.u9jjph
title: Occurrence Download

description: A dataset containing 229085 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pinus arizonica Engelm., Pinus attenuata Lemmon, Pinus banksiana Lamb., Pinus caribaea Morelet, Pinus clausa (Chapm. ex Engelm.) Sarg., Pinus contorta Douglas ex Loudon, Pinus coulteri D.Don, Pinus cubensis Griseb., Pinus devoniana Lindl., Pinus douglasiana Martínez, Pinus durangensis Martínez, Pinus echinata Mill., Pinus elliottii Engelm., Pinus engelmannii Carrière, Pinus georginae Pérez de la Rosa, Pinus glabra Walter, Pinus greggii Engelm. ex Parl., Pinus hartwegii Lindl., Pinus herrerae Martínez, Pinus jaliscana Pérez de la Rosa, Pinus jeffreyi Balf., Pinus latteri Mason, Pinus lawsonii Roezl ex Gordon, Pinus leiophylla Schiede ex Schltdl. & Cham., Pinus lumholtzii B.L.Rob & Fernald, Pinus luzmariae Pérez de la Rosa, Pinus maestrensis Bisse, Pinus maximinoi H.E.Moore, Pinus montezumae Lamb., Pinus muricata D.Don, Pinus nubicola J.P.Perry, Pinus occidentalis Sw., Pinus oocarpa Schiede ex Schltdl., Pinus palustris Mill., Pinus patula Schiede ex Schltdl. & Cham., Pinus ponderosa Douglas ex C.Lawson, Pinus praetermissa Styles & McVaugh, Pinus pringlei Shaw, Pinus pseudostrobus Lindl., Pinus pungens Lamb., Pinus radiata D.Don, Pinus rigida Mill., Pinus sabiniana Douglas ex D.Don, Pinus serotina Michx., Pinus taeda L., Pinus tecunumanii Eguiluz & J.P.Perry, Pinus teocote Schiede ex Schltdl. & Cham., Pinus torreyana Parry ex Carrière, Pinus torreyana Parry ex Carrière, Pinus virginiana Mill., Pinus washoensis Mason & Stockw.)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 }
 ]
}

 The dataset includes 229085 records from 772 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008845-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yglebs
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Melanorrhoea usitata Wall."
 ]
}

 The dataset includes 22 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029708-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dvk8en
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Asplenium rasoloheryi Viane"
 ]
}

 The dataset includes 28 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030537-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j5zgzz
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Justicia vahlii Roth"
 ]
}

 The dataset includes 10 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0183486-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r5v42v
title: Occurrence Download

description: A dataset containing 258 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Brachythecium helminthocladum Broth. & Paris"
 ]
}

 The dataset includes 258 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0153631-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rlgse7
title: Occurrence Download

description: A dataset containing 2417 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Trichechus manatus Linnaeus, 1758"
 ]
}

 The dataset includes 2417 records from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029709-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q4mc8p
title: Occurrence Download

description: A dataset containing 1392 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-31.565747 65.07073733333334, 2.479608666666667 65.07073733333334, 2.479608666666667 82.15736799999999, -31.565747 82.15736799999999, -31.565747 65.07073733333334))",
 "EventDate is 2016-02-01,2016-02-29"
 ]
}

 The dataset includes 1392 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030547-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a5myp2
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Lagothrix cana cana"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0168386-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.