cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.71853/s7qv-t314
title: Application of plant-derived silver nanoparticles for control of economically important bacterial plant pathogens

description: <p>UV-Vis, EDX and SAED data from analysis of silver nanoparticles synthesized using plant extracts. Minimal inhibitory and bactericidal concentrations of silver nanoparticles against 6 different plant bacterial pathogens. Sprouting and sprout size data of 6 different plants exposed to silver nanoparticles.</p>
description: <p>UV/Vis absorption spectra were acquired with a step of 0.5 nm and in the range from 200 to 700 nm, using a double-beam UV/Vis spectrophotometer (Analytik Jena, Specord 210, Germany) and diH2O was used to zero the instrument. Size, shape, crystalline structure, and elemental composition of silver nanoparticles were described by use of high resolution transmission electron microscopy (TEM) (FEI Tecnai G2 20 X-TWIN, FEI, Hillsboro, OR, USA) assisted with the selected-area electron diffraction (SAED) and energy dispersive X-ray spectroscopy (EDX) (AZtecEnenrgy, Oxford Instruments, Abingdon, UK).</p><p><br /></p><p>The antibacterial properties of the synthesized and purified AgNPs against strains of phytopathogenic bacteria were tested with concentrations of silver in samples to 0.5, 1, 1.5, 2, 3, 5, 7, 9, 11, 15, 18, 22, 26 and 30 mg/L on 96 well plate. The concentration of AgNPs was normalized based on the results of spectrometric measurements. AgNO3 was used as positive control (Urnukhsaikhan et al., 2021). After 24 h (48 h at 21° C for C. sepedonicus), the lowest concentration of AgNPs successfully inhibiting bacterial growth, based on the OD600 measurement with the use of a spectrophotometer (Analytic Jena, Specord 210, Germany), in liquid media with AgNPs was designated as the minimal inhibitory concentration (MIC). The minimal bactericidal concentration (MBC) was revealed by transferring 10 µL of the culture from the wells with a lack of a visible bacterial growth onto solid agar plates. If within 24 h (48 h at 21° C for C. sepedonicus) no bacterial colonies grew, the lowest concentration of AgNPs for which such an event was described as MBC.</p><p><br /></p><p>Phytotoxicity of AgNPs towards plants was determined with the use of seeds belonging to six various plant species. 20 seeds were placed on MN 640 W filter paper (Macherey-Nagel, Düren, Germany) inside 96-mm Petri plates. Then, 5 mL of a 40 mg/L suspension of six types of AgNPs (each synthesized using a different plant extract) was added to the plates. Control seeds were treated with 5 mL of deionized water. The Petri plates were covered with lids and incubated in a plant growth chamber under a 16-h light period (120 μmol m⁻² s⁻¹) at 21 °C, followed by 8 h of darkness at 18 °C.To establish the seed germination efficiency, the number of germinated seeds was evaluated after each 24 h period for a duration of one week in the case of P. sativum, P. vulgaris, S. lycopersicum and T. aestivum or two weeks for B. vulgaris and S. melongena due to their different sprouting times.</p>
DOI: 10.5281/zenodo.17727066
title: MHD Warfare Dataset

description: Dataset contains all statements of warfare recorded on provenienced monuments as documented in the Maya Hieroglyphic Database.
DOI: 10.5281/zenodo.17727067
title: MHD Warfare Dataset

description: Dataset contains all statements of warfare recorded on provenienced monuments as documented in the Maya Hieroglyphic Database.
DOI: 10.5281/zenodo.17727008
title: MHD Glyph Block Dataset

description: Dataset contains all coded glyph blocks recorded in the Maya Hieroglyphic Database from provenienced monuments.
DOI: 10.5281/zenodo.17727009
title: MHD Glyph Block Dataset

description: Dataset contains all coded glyph blocks recorded in the Maya Hieroglyphic Database from provenienced monuments.
DOI: 10.6084/m9.figshare.30731012
title: Robust Predict

description: Data is used solely for research purposes.
DOI: 10.6084/m9.figshare.30731012.v1
title: Robust Predict

description: Data is used solely for research purposes.
DOI: 10.15468/dl.45eqrr
title: Occurrence Download

description: A dataset containing 36666 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Linaria alpina)",
 "BasisOfRecord is one of (Specimen, Material sample, Living Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 36666 records from 272 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011357-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17712367
title: Work directory für das Paper zur Evaluation von Datenintegration
DOI: 10.5281/zenodo.17712368
title: Work directory für das Paper zur Evaluation von Datenintegration
DOI: 10.5281/zenodo.17730820
title: A spatial transcriptomics atlas of live donors reveals unique zonation patterns in the healthy human liver - PhenoCycler Liver Panel

description: This dataset is an extension of the data presented at:

https://zenodo.org/records/14795740?token=eyJhbGciOiJIUzUxMiJ9.eyJpZCI6Ijg5NzU1MzRjLTA2ZjYtNDU1ZS04MWZhLTRhNmIwODBkNDk4YSIsImRhdGEiOnt9LCJyYW5kb20iOiJhZDNmNDdjN2JlMjVmMTRhODZlMGU2NmI3NTE2NzA4NCJ9.5dbmnWYhg8UHjzXemALu5n94drsy3YBKgPALlqbwB1ZLrBEoIyw1vPJbU4cjV6IQS0Qd-QeXdaMfYtFdDXNCYg.

and at: https://github.com/OranYak/Human-liver

We performed highly multiplexed immunofluorescence (PhenoCycler™) using a panel of 48 antibodies targeting a broad range of parenchymal and non-parenchymal cell types in 2 live-donor livers (LHDs) and 4 adjacent-normal liver samples (Supplementary Table 5 in the linked Manuscript).
DOI: 10.34740/kaggle/dsv/13891053
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5281/zenodo.17711622
title: MHD Political Network Dataset

description: Classic Maya political network derived from the Maya Hieroglyphic Database. Provides data needed for reconstructing multiplex, temporal networks of political relationships between Maya sites. Based on inscriptions from monuments, unprovenienced objects, and provenienced portable objects only when the inscription indicates a relationship between two sites and/or individuals who are known to be associated with a particuar polity.
DOI: 10.5281/zenodo.17711623
title: MHD Political Network Dataset

description: Classic Maya political network derived from the Maya Hieroglyphic Database. Provides data needed for reconstructing multiplex, temporal networks of political relationships between Maya sites. Based on inscriptions from monuments, unprovenienced objects, and provenienced portable objects only when the inscription indicates a relationship between two sites and/or individuals who are known to be associated with a particuar polity.
DOI: 10.15468/dl.47hs3r
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Strychnos umbellata"
 ]
}

 The dataset includes 141 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011359-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17732304
title: Code

description: Code
DOI: 10.5281/zenodo.17732303
title: Code

description: Code
DOI: 10.15468/dl.zmrj7h
title: Occurrence Download

description: A dataset containing 148 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((149.15872 -81.58610,189.01129 -81.58610,189.01129 -65.65190,149.15872 -65.65190,149.15872 -81.58610))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Sterechinus neumayeri",
 "Year 2000-2025"
 ]
}

 The dataset includes 148 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011362-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gz6jmp
title: Occurrence Download

description: A dataset containing 78 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhacophorus pseudomalabaricus"
 ]
}

 The dataset includes 78 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011361-251120083545085/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.30020369
title: Trio exome sequencing of an optic nerve hypoplasia cohort reveals evidence for polygenic architecture

description: Optic nerve hypoplasia (ONH), the leading congenital cause of permanent blindness, is characterized by a retinal ganglion cell (RGC) deficit at birth and frequently associated neurologic and endocrine abnormalities. Multifactorial developmental events are hypothesized to underlie ONH; however, environmental influences are unclear, and genetic causes are under-investigated. To identify monogenic, disease-causing variants among ONH patients, exomes from 34 ONH subjects and their parents were sequenced and rare variants identified. Inheritance-modelled variants were evaluated using population frequency, pathogenicity predictions, and mutational constraint metrics. Variants with the strongest genetic effect lacked evidence that they are monogenic and causal. All rare variants were filtered using mutational constraint metrics and pathogenicity predictions. The resultant variant-harboring genes were examined for recurrence within the cohort, gene ontology over-representation, RGC expression, and coincidence with neuro developmental disorder (NDD), autism, and previously proposed ONH genes. Mutationally constrained genes with potentially pathogenic mutations were enriched in gene ontologies related to neuro developmental processes, were expressed in RGCs at significantly higher levels than random exome variant genes, and were enriched in autism and NDD-associated genes. Including the genes with strong genetic effect variants, these analyses call attention to 161 genes with potentially pathogenic variants that may contribute polygenic risk for ONH.
DOI: 10.6084/m9.figshare.30020369.v1
title: Trio exome sequencing of an optic nerve hypoplasia cohort reveals evidence for polygenic architecture

description: Optic nerve hypoplasia (ONH), the leading congenital cause of permanent blindness, is characterized by a retinal ganglion cell (RGC) deficit at birth and frequently associated neurologic and endocrine abnormalities. Multifactorial developmental events are hypothesized to underlie ONH; however, environmental influences are unclear, and genetic causes are under-investigated. To identify monogenic, disease-causing variants among ONH patients, exomes from 34 ONH subjects and their parents were sequenced and rare variants identified. Inheritance-modelled variants were evaluated using population frequency, pathogenicity predictions, and mutational constraint metrics. Variants with the strongest genetic effect lacked evidence that they are monogenic and causal. All rare variants were filtered using mutational constraint metrics and pathogenicity predictions. The resultant variant-harboring genes were examined for recurrence within the cohort, gene ontology over-representation, RGC expression, and coincidence with neuro developmental disorder (NDD), autism, and previously proposed ONH genes. Mutationally constrained genes with potentially pathogenic mutations were enriched in gene ontologies related to neuro developmental processes, were expressed in RGCs at significantly higher levels than random exome variant genes, and were enriched in autism and NDD-associated genes. Including the genes with strong genetic effect variants, these analyses call attention to 161 genes with potentially pathogenic variants that may contribute polygenic risk for ONH.
DOI: 10.6084/m9.figshare.29421774
title: A novel deletion-insertion variant of <i>RS1</i> in X-linked retinoschisis

description: Structural variants such as large deletions or insertions are rarely observed in the <i>RS1</i> gene. Here, we report a 20-year-old male patient with X-linked retinoschisis (XLRS) carrying a novel deletion-insertion variant of <i>RS1</i>. In addition to ophthalmological examinations, molecular genetic analyses were performed using exome sequencing, polymerase chain reaction and Sanger sequencing. The patient was diagnosed with XLRS based on findings from funduscopy, optical coherence tomography, and full-field electroretinography. Exome sequencing identified a deletion of <i>RS1</i> exon 4, located between exons 19 and 20 of the <i>CDKL5</i> gene, which is oriented in the reverse direction relative to <i>RS1</i>. Ultimately, we confirmed a 453 bp deletion, including exon 4 of <i>RS1</i>, along with a 15 bp insertion at the deletion site, by verifying sufficient sequencing coverage for exons 19 and 20 of <i>CDKL5</i>. Exome sequencing is valuable not only for detecting single nucleotide variants but also for identifying exon deletions. Determining the coverage of exon regions in the <i>CDKL5</i> gene can assist in defining deletion-insertion variants in <i>RS1</i>.
DOI: 10.6084/m9.figshare.29421774.v1
title: A novel deletion-insertion variant of <i>RS1</i> in X-linked retinoschisis

description: Structural variants such as large deletions or insertions are rarely observed in the <i>RS1</i> gene. Here, we report a 20-year-old male patient with X-linked retinoschisis (XLRS) carrying a novel deletion-insertion variant of <i>RS1</i>. In addition to ophthalmological examinations, molecular genetic analyses were performed using exome sequencing, polymerase chain reaction and Sanger sequencing. The patient was diagnosed with XLRS based on findings from funduscopy, optical coherence tomography, and full-field electroretinography. Exome sequencing identified a deletion of <i>RS1</i> exon 4, located between exons 19 and 20 of the <i>CDKL5</i> gene, which is oriented in the reverse direction relative to <i>RS1</i>. Ultimately, we confirmed a 453 bp deletion, including exon 4 of <i>RS1</i>, along with a 15 bp insertion at the deletion site, by verifying sufficient sequencing coverage for exons 19 and 20 of <i>CDKL5</i>. Exome sequencing is valuable not only for detecting single nucleotide variants but also for identifying exon deletions. Determining the coverage of exon regions in the <i>CDKL5</i> gene can assist in defining deletion-insertion variants in <i>RS1</i>.
DOI: 10.6084/m9.figshare.29992535
title: A survey of genotypes associated with Leber congenital amaurosis and early-onset severe retinal degeneration identified in a Singaporean patient cohort

description: Leber congenital amaurosis (LCA) and early-onset severe retinal degeneration (EOSRD) are inherited retinal diseases (IRDs) characterized by visual impairment beginning in infancy or childhood. This study aimed to describe the clinical and genetic characteristics of the first prospectively enrolled Singaporean patient cohort with disease-causing variants in genes associated with LCA, EOSRD, or related early-onset phenotypes. Thirty-four patients from 30 families were prospectively recruited and underwent comprehensive clinical and genetic evaluation. Phenotypic classification and genotypic distribution were analyzed and compared with previously reported cohorts. Of the 34 patients, 24 presented with typical phenotypes of LCA (<i>n</i> = 12) or EOSRD (<i>n</i> = 11). Among the remaining cases carrying genotypes usually linked to LCA, 7 were diagnosed with retinitis pigmentosa, 3 with cone dystrophy, and 1 with macular dystrophy. The most frequently implicated gene was <i>CRB1</i>, detected in 8 families (26.7%), followed by <i>RDH12</i> (16.7%), and <i>CEP290</i> and <i>NMNAT1</i> (10% each). This genetic distribution differs from those reported in Western populations. Clinical phenotypes were heterogeneous with respect to disease course, macular involvement, retinal structural alterations, and residual photoreceptor function. This study represents the first report of a genetically confirmed cohort of LCA and EOSRD patients from Southeast Asia. The findings highlight a distinct genotypic spectrum compared with Western populations and underscore the extensive clinical heterogeneity of early-onset IRDs. These data provide a valuable foundation for patient stratification and planning of future gene therapy trials in the region.
DOI: 10.6084/m9.figshare.29992535.v1
title: A survey of genotypes associated with Leber congenital amaurosis and early-onset severe retinal degeneration identified in a Singaporean patient cohort

description: Leber congenital amaurosis (LCA) and early-onset severe retinal degeneration (EOSRD) are inherited retinal diseases (IRDs) characterized by visual impairment beginning in infancy or childhood. This study aimed to describe the clinical and genetic characteristics of the first prospectively enrolled Singaporean patient cohort with disease-causing variants in genes associated with LCA, EOSRD, or related early-onset phenotypes. Thirty-four patients from 30 families were prospectively recruited and underwent comprehensive clinical and genetic evaluation. Phenotypic classification and genotypic distribution were analyzed and compared with previously reported cohorts. Of the 34 patients, 24 presented with typical phenotypes of LCA (<i>n</i> = 12) or EOSRD (<i>n</i> = 11). Among the remaining cases carrying genotypes usually linked to LCA, 7 were diagnosed with retinitis pigmentosa, 3 with cone dystrophy, and 1 with macular dystrophy. The most frequently implicated gene was <i>CRB1</i>, detected in 8 families (26.7%), followed by <i>RDH12</i> (16.7%), and <i>CEP290</i> and <i>NMNAT1</i> (10% each). This genetic distribution differs from those reported in Western populations. Clinical phenotypes were heterogeneous with respect to disease course, macular involvement, retinal structural alterations, and residual photoreceptor function. This study represents the first report of a genetically confirmed cohort of LCA and EOSRD patients from Southeast Asia. The findings highlight a distinct genotypic spectrum compared with Western populations and underscore the extensive clinical heterogeneity of early-onset IRDs. These data provide a valuable foundation for patient stratification and planning of future gene therapy trials in the region.
DOI: 10.6084/m9.figshare.30302490
title: A novel missense <i>TUBB4B</i> variant outside of the canonical hotspot is associated with cone-rod dystrophy and sensorineural hearing loss

description: Pathogenic variants in TUBB4B, which encodes the β-tubulin 4B isotype of microtubule subunits, have been associated with Leber congenital amaurosis with early-onset deafness (LCAEOD), an autosomal dominant condition characterized by early and severe loss of photoreceptor and cochlear cells. The majority of reported cases feature early disease onset and are caused by missense mutations in the R390/R391 hotspot. Multimodal evaluation included ultra-widefield pseudocolor and autofluorescence fundus photography, spectral-domain optical coherence tomography, full-field electroretinography, Goldmann kinetic perimetry, audiography, and genetic testing with next-generation sequencing. We report seven individuals from three unrelated families affected by cone-rod dystrophy and sensorineural hearing loss associated with a novel variant in TUBB4B (c.784C &gt; T, p.R262W). Cone-rod dystrophy associated with this variant generally features a later age of onset compared to the Leber congenital amaurosis caused by variants in the canonical hotspot. This report expands the mutation spectrum and phenotypic range of TUBB4B-associated retinopathies beyond the R390/R391 hotspot and may offer insight into the pathogenesis of this rare tubulinopathy.
DOI: 10.6084/m9.figshare.30302490.v1
title: A novel missense <i>TUBB4B</i> variant outside of the canonical hotspot is associated with cone-rod dystrophy and sensorineural hearing loss

description: Pathogenic variants in TUBB4B, which encodes the β-tubulin 4B isotype of microtubule subunits, have been associated with Leber congenital amaurosis with early-onset deafness (LCAEOD), an autosomal dominant condition characterized by early and severe loss of photoreceptor and cochlear cells. The majority of reported cases feature early disease onset and are caused by missense mutations in the R390/R391 hotspot. Multimodal evaluation included ultra-widefield pseudocolor and autofluorescence fundus photography, spectral-domain optical coherence tomography, full-field electroretinography, Goldmann kinetic perimetry, audiography, and genetic testing with next-generation sequencing. We report seven individuals from three unrelated families affected by cone-rod dystrophy and sensorineural hearing loss associated with a novel variant in TUBB4B (c.784C &gt; T, p.R262W). Cone-rod dystrophy associated with this variant generally features a later age of onset compared to the Leber congenital amaurosis caused by variants in the canonical hotspot. This report expands the mutation spectrum and phenotypic range of TUBB4B-associated retinopathies beyond the R390/R391 hotspot and may offer insight into the pathogenesis of this rare tubulinopathy.
DOI: 10.6084/m9.figshare.30713086
title: Assessment of soil erosion risks and prioritizing nature-based conservation practices using RUSLE, geospatial techniques and household surveys in central Ethiopia

description: Land use and land cover changes (LULCC) have aggravated catchment degradation, threatening socio-ecohydrological services (SEHSs). This study integrates RUSLE with geospatial technologies, household surveys (HHSs), and field observations (FO) to assess soil erosion risks, LULCC drivers, and prioritize nature-based solutions (NBS) in Berga catchment. Landsat Images (1990, 2001, 2012, 20203) were analyzed using maximum likelihood classification method. Results show agricultural (60.1%) and built-up areas (9.8%) replaced by natural ecosystems and accelerating degradation. The mean soil loss rate (SLR) increased from 31.52 t/ha/yr (1990) to 57.89 t/ha/yr (2023), surpassing tolerable limits (0−20 t/ha/yr). The mean sediment yield (SY) increased from 8.82 t/ha/yr (1990) to 27.19 t/ha/yr (2023), exceeding the limits (0−10 t/ha/yr). Mann‒Kendall tests (<i>τ</i> = 1.0, <i>p</i> &lt; 0.0001) and Sen's slope confirm significant upward trends in SLR and SY. Sub-catchments 5, 7, and 8 experienced severe erosion; sub-catchments 9, 10, and 12 experienced very high erosion. SSP5-8.5 projects &gt;10% extreme rainfall increases by 2050, heightening erosion risks. The HHS and FO results align with the model findings, confirming that the SEHS decreases. These findings can inform policymakers, strengthen NBS, and guide targeted interventions. Future studies should use Monte Carlo and perturbation to improve sensitivity for better erosion prediction and NBS optimization.