cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30008665.v1
title: Supplementary Material for: Epidemiology and Clinical Characteristics of Nummular Headache in Observational Studies: A systematic review and meta-analysis

description: Abstract
Introduction Nummular headache (NH) is a rare primary headache disorder which was first described in 2002. This meta-analysis aimed to evaluate the prevalence and relative frequencies of clinical features of NH.
Methods Pubmed, Embase, Medline and ScienceDirect were thoroughly searched for observational studies reporting the relevant data regarding NH diagnosed in accordance with ICHD-2, ICHD-3β, ICHD-3 or Pareja’s original study. Random-effects meta-analysis was performed in order to calculate the pooled prevalence estimates (PPE) and the I2 statistics was used to measure the between-study heterogeneity. The PRISMA guidelines were strictly followed by the study's structure. The Joanna Briggs Institute Checklist for Studies Reporting Prevalence Data was used to evaluate the risk of bias of included studies. 
Results Out of initial 2441 records, 17 studies met all of the inclusion criteria. The pooled mean age of onset of NH was 46.91 (95%CI: 43.85-49.96). The PPE of NH in adult patients evaluated for a headache in a clinic-based setting was 0.7% (95%CI: 0.2-2.4), with slight female predominance (females = 0.5%, 95%CI: 0.2-1.4 vs males = 0.3%, 95%CI: 0.1-0.8). The majority of patients (69.4%, 95%CI: 58.1-78.8) experience chronic course of NH. The shape of the headache was round/circular in 78.4% (95%CI: 71.9-83.7) and oval/elliptical in 21.6% (95%CI: 16.3-28.1) of patients. In 7.5% (95%CI: 2.7-19.0) of individuals pain had multifocal location and 59.1% (95%CI: 49.7-68.0) of NH patients experienced pain exacerbations. The pain was most prevalent in the strictly parietal region (43.0%, 95%CI: 37.4-48.7) of the cranium and had pressing quality (51.4%, 95%CI: 41.6-61.1). Migraine has been diagnosed in 29.3% (95%CI: 18.5-42.9) of patients prior to NH diagnosis and 42.4% (95%CI: 33.5-51.8) of patients experience a complete remission, with or without medication, of headache. 
Conclusion The results of our study showed that NH is a very distinct and relatively rare to encounter headache disorder. Due to its unique clinical phenotype, physicians need to be aware when a patient presents with a small, well-localized round/oval headache in the cranium region.
DOI: 10.22002/gvmtf-1a591
title: JV6781_ΔdotLOB

description: ΔdotLOB (Deletion of Dot/Icm ATPases dotL, dotO, dotB)
description: <strong>Tilt Series Date:</strong> 2017-07-17</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -7.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal at F30, Caltech.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine. Scrape cells off a plate, dissolve in the media, adjust the cell density to 0.6 and make a dilution series. Start O/N culture with all of them and freeze cells next day from the one in early stationary phase that is OD ~ 3.0. This time cell density was ~2.6</p>
<strong>Sample Preparation:</strong> 6 grids were frozen for this strain at OD~ 2.6, cell density was increased to 2x by centrifugation. Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 4 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-07-17-46/rawdata/</p>20170717_JV67810050.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.7 GB  
        
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        20170717_JV67810050_full.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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DOI: 10.6084/m9.figshare.30008668
title: Supplementary Material for: The burden of ischemic stroke due to diet low in polyunsaturated fatty acids in global, 1990-2021

description: Introduction: Comprehensive global and regional assessments of PUFA-related Ischemic stroke (IS) burden, including age-sex stratification and temporal trends, remain limited. 
Methods: Utilizing the Global Burden of Disease (GBD) 2021 database, this study analyzed IS burden attributed to low PUFA diets across 204 countries and territories (1990–2021). Estimated Annual Percentage Changes (EAPC) for Disability-Adjusted Life Years (DALYs) was used to evaluate spatiotemporal trends. 
Results: Globally, age-standardized DALY rates declined significantly (EAPC: −1.64,95% CI：-1.75to-1.54), yet absolute DALYs cases rose 1.45fold. Gender disparities were evident, with steeper declines in females (EAPC: −1.96) than males (EAPC: −1.35). Western sub-Saharan Africa (0.39) and Afghanistan (0.64) had the highest burden, while High-Income North America (0.03) and Taiwan, China (0.02) had the lowest. Sub-Saharan Africa (EAPC: −0.21) showed minimal improvement. The significant increase in Lesotho (EAPC: 2.51) contrasting with High-income Asia Pacific (EAPC: −4.35) and South Korea (EAPC: -6.92). The age specific trend shows that the DALY rate increases with age, reaching its peak in the 75-79 age group. The annual growth rate of DALY for young adults is higher, while the downward trend is more significant for the older person. . 
Conclusions: Despite global progress in age-standardized rates, rising absolute DALYs highlight persistent challenges from demographic shifts and metabolic risks. Region-specific policies targeting dietary PUFA intake, fortified foods, and gender-sensitive interventions are critical to mitigating IS burden.
DOI: 10.6084/m9.figshare.30008668.v1
title: Supplementary Material for: The burden of ischemic stroke due to diet low in polyunsaturated fatty acids in global, 1990-2021

description: Introduction: Comprehensive global and regional assessments of PUFA-related Ischemic stroke (IS) burden, including age-sex stratification and temporal trends, remain limited. 
Methods: Utilizing the Global Burden of Disease (GBD) 2021 database, this study analyzed IS burden attributed to low PUFA diets across 204 countries and territories (1990–2021). Estimated Annual Percentage Changes (EAPC) for Disability-Adjusted Life Years (DALYs) was used to evaluate spatiotemporal trends. 
Results: Globally, age-standardized DALY rates declined significantly (EAPC: −1.64,95% CI：-1.75to-1.54), yet absolute DALYs cases rose 1.45fold. Gender disparities were evident, with steeper declines in females (EAPC: −1.96) than males (EAPC: −1.35). Western sub-Saharan Africa (0.39) and Afghanistan (0.64) had the highest burden, while High-Income North America (0.03) and Taiwan, China (0.02) had the lowest. Sub-Saharan Africa (EAPC: −0.21) showed minimal improvement. The significant increase in Lesotho (EAPC: 2.51) contrasting with High-income Asia Pacific (EAPC: −4.35) and South Korea (EAPC: -6.92). The age specific trend shows that the DALY rate increases with age, reaching its peak in the 75-79 age group. The annual growth rate of DALY for young adults is higher, while the downward trend is more significant for the older person. . 
Conclusions: Despite global progress in age-standardized rates, rising absolute DALYs highlight persistent challenges from demographic shifts and metabolic risks. Region-specific policies targeting dietary PUFA intake, fortified foods, and gender-sensitive interventions are critical to mitigating IS burden.
DOI: 10.22002/v0kpm-1hw06
title: JV1644 Legionella thyA ΔdotO

description: JV1644 Legionella thyA ΔdotO. Lacks dotO ATPase.
description: <strong>Tilt Series Date:</strong> 2016-06-14</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal at F30, Caltech.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine. Scrape cells off a plate, dissolve in the media, adjust the cell density to 0.6 and make a dilution series. Start O/N culture with all of them and freeze cells next day from the one in early stationary phase that is OD ~ 3.0.</p>
<strong>Sample Preparation:</strong> 8 grids were frozen for the JV1644 strain at OD~2.9. Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2016-06-14-8/rawdata/</p>DG1644_150620160008.mrc,  Tilt Series (Pixel Size 3.9 nm), 2.3 GB  
        
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        DG1644_150620160008.rec,  Reconstruction (Pixel Size 15.6 nm), 890.9 MB  
        
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DOI: 10.6084/m9.figshare.30008671
title: Supplementary Material for: Successful Treatment of Refractory Dermatomyositis with Deucravacitinib (Sotyktu): A Case Report.

description: Introduction:
Clinically amyopathic dermatomyositis (CADM) is a subtype of dermatomyositis (DM) characterized by cutaneous findings without clinically apparent muscle involvement. While immunosuppressive therapies such as methotrexate, mycophenolate mofetil, and hydroxychloroquine are commonly used, treatment-resistant cases remain a challenge. We present a case of refractory CADM successfully treated with Deucravacitinib, a selective TYK2 inhibitor.
Case Presentation:
A 50-year-old woman with a three-year history of CADM presented with persistent facial erythema, heliotrope rash, violaceous erythema on sun-exposed areas, and Gottron’s sign. Despite multiple systemic treatments, including methotrexate, mycophenolate mofetil, hydroxychloroquine, and topical and oral roflumilast, she continued to experience skin involvement and associated pain. Deucravacitinib 6 mg daily was initiated, leading to near-complete resolution of cutaneous lesions and complete resolution of pain within ten weeks. At six months, her response remained stable, and she continues treatment with ongoing monitoring.
Conclusion:
This case highlights Deucravacitinib as a potential treatment option for refractory CADM. By selectively inhibiting TYK2, it targets key inflammatory pathways involved in DM pathogenesis while minimizing off-target effects. Further studies are needed to evaluate its long-term safety and efficacy in this patient population.
DOI: 10.6084/m9.figshare.30008671.v1
title: Supplementary Material for: Successful Treatment of Refractory Dermatomyositis with Deucravacitinib (Sotyktu): A Case Report.

description: Introduction:
Clinically amyopathic dermatomyositis (CADM) is a subtype of dermatomyositis (DM) characterized by cutaneous findings without clinically apparent muscle involvement. While immunosuppressive therapies such as methotrexate, mycophenolate mofetil, and hydroxychloroquine are commonly used, treatment-resistant cases remain a challenge. We present a case of refractory CADM successfully treated with Deucravacitinib, a selective TYK2 inhibitor.
Case Presentation:
A 50-year-old woman with a three-year history of CADM presented with persistent facial erythema, heliotrope rash, violaceous erythema on sun-exposed areas, and Gottron’s sign. Despite multiple systemic treatments, including methotrexate, mycophenolate mofetil, hydroxychloroquine, and topical and oral roflumilast, she continued to experience skin involvement and associated pain. Deucravacitinib 6 mg daily was initiated, leading to near-complete resolution of cutaneous lesions and complete resolution of pain within ten weeks. At six months, her response remained stable, and she continues treatment with ongoing monitoring.
Conclusion:
This case highlights Deucravacitinib as a potential treatment option for refractory CADM. By selectively inhibiting TYK2, it targets key inflammatory pathways involved in DM pathogenesis while minimizing off-target effects. Further studies are needed to evaluate its long-term safety and efficacy in this patient population.
DOI: 10.22002/zh75c-gsh39
title: Agro_AD1526_GFP-VirB11_20150826

description: Agro_AD1526_GFP-VirB11 (Cb+Kan+AS plates, Mes pH5.8). Add 200 ul of induction media to one of the induction plate (containing lawn of Agrobacterium AD1526) and wash the plate by gently rolling the liquid. Take this liquid and add to the other plate. Repeat the same. This should get enough cells dissolved in the liquid.Add gold to this: 1ul of gold to 4 ul of cells.
description: <strong>Tilt Series Date:</strong> 2015-08-26</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Agrobacterium tumefaciens</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2.0°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain constructed by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline. This data was collected at the Janelia Krios.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow AD1526 cells on AB solid medium (pH 7) at 30C. For induction, use one single colony and spread on induction plates (AB Mes pH 5.8) containing  Cb (50ug/ml)+Kan (50ug/ml)+AS (200µM). Grow at 19C for 48 hr. Add 200 ul of induction media to one of the induction plate (containing lawn of Agrobacterium AD1526) and wash the plate by gently rolling the liquid. Add gold to this: 1ul of gold to 4 ul of cells, freeze.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-08-26-70/3dimage_60901/</p>AD1526tomo0084_part61_3.rec,  Reconstruction (Pixel Size 1.68 nm), 430.6 MB  
        
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        AD1526tomo0084.mrc,  Tilt Series (Pixel Size 0.42 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-08-26-70/rawdata/AD1526tomo0084.mrc"
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DOI: 10.15468/dl.9jqma5
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Corvus splendens",
 "Country is Ireland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 17 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006328-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/zdbj0-9xm27
title: FtsZ on one side

description: FtsZ on one side, complete ring
description: <strong>Tilt Series Date:</strong> 2015-03-10</p>
<strong>Data Taken By:</strong> Qing Yao</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> Undefined</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Purification / Growth Conditions / Treatment:</strong> C. crescentus was from Yi-Wei's cryo-stock and was grown in PYE medium overnight at 30°c 250 rpm. In the next days' morning, 1/20 subculture into the M2G medium. When OD600 reaches 0.30, 2 ml medium was spun down gently (3000 rpm for 3 min) and the resuspension was 100 ul for cryo-grid preparation.</p>
<strong>Sample Preparation:</strong> Glow discharged Quantifoil R2/R holey carbon film. 4 ul concentrated gold suspension was added to 16 ul bacteria and mix before plunge freezing. Plunge freezing condition: 6(force)-2(duration time)-1(dry time). Tilt Series Setting: single tilt. constant angular increment, step: 1. tilt range: (-60, 60). dosage: 180/A2. defocus: -10 um. magnification: 27500.</p>
  qya2015-03-10-21_slicer12843.jpg: FtsZ on one side qya2015-03-10-21_slicer12844.jpg: FtsZ arc one on side qya2015-03-10-21_slicer12845.jpg: Invagination on the other side.
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2015-03-10-21/rawdata/</p>Qing15_10021.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2015-03-10-21/rawdata/Qing15_10021.mrc"
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        Qing15_10021_full.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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DOI: 10.22002/peg26-bb864
title: JV7058

description: JV7058 is a triple deletion that lacks dotH (distant VirB9 homolog), dotG (distant VirB10 homolog) and dotF. Lp02.
description: <strong>Tilt Series Date:</strong> 2016-01-12</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.50°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal. Janelia Krios.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine. Scrape cells off a plate, dissolve in the media, adjust the cell density to 0.6 and make a dilution series. Start O/N culture with all of them and freeze cells next day from the one in early stationary phase that is OD ~ 3.0</p>
<strong>Sample Preparation:</strong> 6 grids were frozen for the JV7058 at OD= 3.1 Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2016-01-12-14/3dimage_72499/</p>tomo_area90008.rec,  Reconstruction (Pixel Size 1.68 nm), 861.2 MB  
        
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        tomo_area90008.mrc,  Tilt Series (Pixel Size 0.42 nm), 2.2 GB  
        
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