cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/tcc2mbmys4.1
title: The role of B cells in immune cell activation in polycystic ovary syndrome

description: Variations in B cell numbers are associated with polycystic ovary syndrome (PCOS) through unknown mechanisms. Here we demonstrate that B cells are not central mediators of PCOS pathology and that their frequencies are altered as a direct effect of androgen receptor activation. Hyperandrogenic women with PCOS have increased frequencies of age-associated double-negative B memory cells and increased levels of circulating immunoglobulin M (IgM). However, the transfer of serum IgG from women into wild-type female mice induces only an increase in body weight. Furthermore, RAG1 knock-out mice, which lack mature T- and B cells, fail to develop any PCOS-like phenotype. In wild-type mice, co-treatment with flutamide, an androgen receptor antagonist, prevents not only the development of a PCOS-like phenotype but also alterations of B cell frequencies induced by dihydrotestosterone (DHT). Finally, B cell-deficient mice, when exposed to DHT, are not protected from developing a PCOS-like phenotype. These results urge further studies on B cell functions and their effects on autoimmune comorbidities highly prevalent among women with PCOS.
DOI: 10.18112/openneuro.ds001942.v1.2.0
title: Auditory localization with 7T fMRI
DOI: 10.25493/cfba-s36
title: Cytoarchitectonic areas of human auditory cortex on individual brain surfaces

description: We have analyzed post mortem MRI data (10 whole brain images) used in Julich-Brain cyto-architectonic Atlas in order to segment and reconstruct individual brain cortical surface models. The resulting surfaces are used to visualize cyto-architectonic areas on cortical surfaces. These surfaces can be reused in the future to visualize other cyto-architectonic maps acquired from the same individual brains or generate surface-based probabilistic group average atlases.
DOI: 10.5281/zenodo.4454508
title: Replication Data for: "Ocean acidification increases susceptibility to sub-zero air temperatures in ecosystem engineers and limit poleward range shifts"

description: These datasets contain all the raw data needed to replicate the results from our paper <em>Ocean acidification increases susceptibility to sub-zero air temperatures in ecosystem engineers and limit poleward range shifts</em> published in eLife - https://doi.org/10.7554/eLife.81080
DOI: 10.5281/zenodo.4564638
title: Phasic oxygen dynamics confounds fast choline-sensitive biosensor signals in the brain of behaving rodents

description: This dataset includes all source code and data for reproducing figures, as well as raw data from <em>the vitro</em> experiments and mathematical model used in the publication "Phasic oxygen dynamics confounds fast choline-sensitive biosensor signals in the brain of behaving rodents" published in eLife, https://doi.org/10.7554/eLife.61940
DOI: 10.5281/zenodo.5209064
title: SARS-CoV-2 viral loads across the upper and lower respiratory tract, sex, disease severity and age groups for adult and pediatric COVID-19

description: This dataset shows SARS-CoV-2 respiratory viral loads (viral RNA concentration in the respiratory tract) in the upper and lower respiratory tract for age, sex and COVID-19 severity groups. The data were obtained from a systematic review. The model outputs show the Weibull distributions, case percentiles, and sensitivity & specificity when using SARS-CoV-2 viral load (URT or LRT) as a prognostic indicator. See our paper for more information.
DOI: 10.5281/zenodo.6534557
title: Neutron spin echo and intramolecular FRET and DEER-EPR measurements on hGBP1 (human guanylate binding protein 1)

description: Neutron spin echo (NSE), double electron–electron resonance (<em>DEER</em>) <em>EPR</em>, ensemble time-correlated single photon counting (eTCSPC) fluorescence, and single-molecule detection (SMD) fluorescence spectroscopy data of the human guanylate binding protein 1 (hGBP1). CSH prepared samples for smFRET and performed protein activity assays. TV prepared sampled for EPR measurements. TOP, CSH, and AV performed the smFRET measurements under the supervision of CAMS. TOP analyzed the smFRET measurements. JPK performed and analyzed the EPR measurements.
DOI: 10.5281/zenodo.6565895
title: Screening routine for integrative dynamic structural biology using SAXS and intramolecular FRET and DEER-EPR on hGBP1 (human guanalyte binding protein 1)

description: Initial and selected ensemble for major and minor species of the human guanalyte binding protein 1 with scripts for the reading routine to combine and analyse jointly SAXS, EPR and FRET data.
DOI: 10.5281/zenodo.7752777
title: Inferring neutral winds in the ionospheric transition region from AGW-TID observations with the EISCAT VHF radar and the Nordic Meteor Radar Cluster

description: [Dataset] Inferring neutral winds in the ionospheric transition region from AGW-TID observations with the EISCAT VHF radar and the Nordic Meteor Radar Cluster
DOI: 10.5281/zenodo.8383238
title: Supporting data for Herviou et al. (2023).

description: Supporting data for Herviou C., Agard P., Verlaguet A., Gyomlai T., Bonnet G., Mendes K., Plunder A. 2023. Fractal distribution of subduction-related crack-seal veins (Schistes Lustrés, W. Alps): Implications for fluid flow and rupture processes at the downdip end of the seismogenic zone.
DOI: 10.6084/m9.figshare.21378003
title: Supplementary Material for: Plaque and dental caries risk in mid-life

description: Dental caries is an endogenous microbial-community-based disease resulting from an ecological shift from dynamic stability to metabolic imbalance in a consortium of acidogenic and aciduric bacteria comprising the dental plaque biofilm. Participants were members of the Dunedin Multidisciplinary Health and Development Study, a longitudinal investigation of health and behaviour in a cohort born in Dunedin, New Zealand. Oral biofilm samples (collected at age 32) from anterior labial supragingival, posterior lingual supragingival, posterior subgingival and the dorsum of the tongue habitats for 841 participants were analysed using checkerboard DNA-DNA hybridisation (CKB), focussing on 30 ecologically significant bacteria. Associations of CKB data with dental caries at ages 32 and 45 years were assessed using regression modelling, adjusting for potential confounders including sex, xerostomia and oral hygiene. The putative periodontitis pathobiont Tannerella forsythia (in the anterior supragingival biofilm) was associated with untreated caries at age 32. The percentage of total summed cell number counts (%TPC) for two putative periodontitis-associated species (T. forsythia and Micromonas micros) were associated with greater caries experience at age 32 and the development of new caries between age 32 and 45. Additionally, severe caries (3+ cavities) was associated with putative caries pathobionts (Lactobacillus fermentum, Lactobacillus plantarum), periodontitis-associated species and commensals (M. micros, Campylobacter rectus, Streptococcus mitis biovar I, Streptococcus mitis biovar II) in the subgingival biofilm. Participants with sustained poor oral hygiene through to age 32 not only had greater experience of caries by that age than those with good oral hygiene (fully-adjusted IRR = 5.10, 95% CI 3.30, 7.89) but also experienced greater incidence of new caries from age 32 to 45 years (IRR=3.69, 95% CI 2.62, 5.20). These findings provide evidence in support for the extended caries ecological plaque hypotheses, the polymicrobial aetiology of caries, and the integrated aetiology of dental caries and periodontal diseases. They also underscore the roles of poor oral self-care (particularly over the life-course) and xerostomia in the occurrence and progression of caries.
DOI: 10.6084/m9.figshare.21976184
title: Supplementary Material for: Bilateral Acute Iris Transillumination Syndrome (BAIT) after topical moxifloxacin/dexamethasone initially misdiagnosed as uveitis: case report

description: Bilateral acute iris transillumination (BAIT) syndrome is a rare condition of unknown cause, characterised by acute onset of pigment dispersion in the anterior chamber, depigmentation of the iris, and heavy pigment deposition in the anterior chamber angle, with bilateral involvement in most cases. We present a case of a 46-year-old healthy woman, who developed BAIT in both eyes, following the use of topical moxifloxacin/dexamethasone for bilateral bacterial conjunctivitis, leading to a nonarteritic anterior ischemic optic neuropathy in the left eye.
DOI: 10.6084/m9.figshare.22086533
title: Supplementary Material for: Characteristics and graft outcomes of kidney transplant candidates with enteric risk factors and elevated plasma oxalate levels

description: Introduction: This study describes patient characteristics and examines graft function of kidney transplant recipients (without primary hyperoxaluria) with elevated plasma oxalate (POx) and enteric risk factors prior to transplant at our institution. Methods: Kidney transplant recipients between 2012 to 2020 with elevated POx at the time of kidney transplant evaluation were included. A matched control cohort was gathered using patient/donor age, living/deceased donor type, panel reactive antibody (PRA), kidney donor profile index (KDPI), and human leukocyte antigen (HLA) mismatch as matching variables. Graft function at 1 year and at last follow-up was reported. Results: A total of 106 patients with elevated POx were identified. A third of the patients had Roux-en-Y gastric bypass, a third had other enteric risks, and a third did not have an identifiable enteric risk. Median eGFR (estimated glomerular filtration rate) at 1-year and at last follow-up were similar between cases and controls except for subgroup of patients with pre-transplant POx &gt;30mcmol/L where 1-year eGFR was lower compared to controls. Across eGFR categories, more cases were in eGFR category &lt;30ml/min/1.73m2 compared to controls. Discussion/Conclusion: Roux-en-Y gastric bypass is the most common identifiable risk for elevated POx in kidney transplant candidates. 1-year graft function was not inferior in cases compared to matched controls except for subgroup with POx&gt;30mcmol/L pre-transplant.
DOI: 10.6084/m9.figshare.22093697
title: Supplementary Material for: Bacillary layer detachment in diabetic retinopathy: a case report

description: To our knowledge, this is the first report to describe bacillary layer detachment (BLD) in a patient with diabetic retinopathy treated with anti-vascular endothelial growth factor (anti-VEGF). We present a case of a 55-year-old diabetic female who was referred to our hospital complaining of decreased vision in her left eye for 2 weeks. Fundus examination of both eyes was compatible with diabetic retinopathy. Spectral-domain optical coherence tomography (SD-OCT) of the left eye showed a large dome-shaped cystic space with marginal septa, splitting the myoid zone (MZ) consistent with the BLD phenotype. A single dose of intravitreal Bevacizumab injection was administered. After 4 weeks, BCVA was improved significantly with complete resolution of BLD. Underlying choroidal ischemia in patients with different vascular disorders like diabetes mellitus may lead to photoreceptor stress and BLD. This study adds to the growing literature, which describes BLD as a marker of fluid accumulation in relation to several macular diseases.
DOI: 10.6084/m9.figshare.22231480
title: Supplementary Material for: Triglycerides and Renal Outcomes according to Albuminuria and in Consideration of other Metabolic Syndrome Components in Diabetic US Veterans

description: Objective: Hypertriglyceridemia, a component of the metabolic syndrome, is a known independent predictor of albuminuria and chronic kidney disease (CKD) in the general population. Previous studies have shown that the relationship of triglycerides with outcomes changes across stages of CKD. Our objective is to examine the association of triglycerides independent of other metabolic syndrome components with renal outcomes in diabetic patients with or without CKD. Research Design and Methods: This retrospective cohort study included diabetic US veteran patients with valid data on triglycerides (TG), estimated glomerular filtration rate (eGFR) and albuminuria (UACR), between fiscal years 2004 to 2006. Using Cox models adjusted for clinical characteristics and laboratory markers, we evaluated the relationship of TG with incident albuminuria (stratified by eGFR category) and based on eGFR (stratified by baseline albuminuria categories). To evaluate the relationship of TG with time to end-stage renal disease (ESRD), we stratified models by baseline CKD stage (eGFR category) and baseline albuminuria stage ascertained at time of TG measurement. Results: In a cohort of 138,675 diabetic veterans, the mean±SD age was 65±11 years old, and included 3% females and 14% African Americans. The cohort also included 28% of patients with non-dialysis dependent CKD (eGFR&lt;60 mL/min/173m2), as well as 28% of patients with albuminuria (≥30 mg/g). The median[IQR] of serum TG was 148[100, 222] mg/dL. We observed a slight positive linear association between TG and incident CKD after adjustment for case-mix and laboratory variables among non-albuminuric and microalbuminuric patients. High TG levels were associated with ESRD in CKD 3A non-albuminuric patients and in CKD 3A and 4/5 in patients with microalbuminuria. Conclusions: In a large cohort, we have shown that elevated TG are associated with all kidney outcomes tested independently of other metabolic syndrome components in diabetic patients with normal eGFR and normal albumin excretion rate, but the association is weaker in some groups of diabetic patients with pre-existing renal complications.
DOI: 10.6084/m9.figshare.22323997
title: Supplementary Material for: High Neutrophil-to-Lymphocyte Ratio Predicts One-Year Risk of Pneumonia Post-Stroke Discharge

description: <b><i>Introduction:</i></b> The neutrophil-to-lymphocyte ratio (NLR) may predict stroke-associated pneumonia, which is generally defined as pneumonia occurring in the first week after stroke. However, little is known whether the initial NLR is associated with pneumonia risk during the long-term follow-up in stroke survivors. We aimed to determine the relationship between admission NLR and the risk of post-stroke pneumonia within 1 year after discharge from acute stroke care. <b><i>Methods:</i></b> Hospital databases were searched to identify adult patients hospitalized for acute stroke. Admission NLR was extracted using differential leukocyte counts. The outcome of interest was hospitalized pneumonia occurring within 1 year after discharge from hospitalization for stroke. Multivariable Cox proportional-hazards models were used to determine the independent effects of the NLR on the risk of pneumonia. <b><i>Results:</i></b> In this study, 5,741 patients with acute stroke (mean age, 68 years; men, 62.1%) were analyzed. The median NLR was 2.72 (interquartile range, 1.78–4.49). Of the patients, 342 (6.0%) developed pneumonia within 1 year after discharge. In the multivariable models, the NLR was a significant predictor of pneumonia after discharge whether it was analyzed as a continuous or dichotomized variable. The corresponding adjusted hazard ratios were 1.037 (95% confidence interval [CI], 1.013–1.061) and 1.361 (95% CI, 1.087–1.704), respectively. <b><i>Conclusion:</i></b> The NLR could predict the risk of post-stroke pneumonia up to 1 year after discharge from acute stroke care. It may help identify high-risk stroke survivors, for whom appropriate interventions can be targeted.
DOI: 10.6084/m9.figshare.22331347
title: Supplementary Material for: A MARKED EOSINOPHILIC INFILTRATION IN MUCOSA COULD BE A BETTER PREDICTIVE FACTOR FOR INTRACTABLE NON-ESOPHAGEAL EOSINOPHILIC GASTROINTESTINAL DISORDERS.

description: Introduction：Non-esophageal eosinophilic gastrointestinal disorders (non-EoE EGIDs) are rare, but their prevalence has recently increased. Although it has been reported that one-half of patients with non-EoE EGIDs have intractable clinical courses, their clinical features are not fully understood. Methods：This is a multicenter retrospective study in which 10 institutions in Japan participated. Clinical databases from January 1998 to December 2020 were reviewed to identify patients with non-EoE EGIDs. A total of 44 patients were identified; they were divided into two groups based on their clinical course: An intractable and a non-intractable group. The clinical features were compared between the two groups by a logistic regression analysis. Remarkable eosinophilic infiltration (REI) was defined histologically when the maximal counts of mucosal eosinophils reached a threshold level in the respective area of biopsy. Results：Prevalence of drug allergy, and eosinophil counts more than 500/μl (EOS), vomiting symptoms (Vomit), abnormalities of the stomach, duodenum and jejunum on computed tomography (UACT) and REI were significantly different between the two groups. Among the factors that were potentially associated with an intractable clinical course, logistic regression revealed that REI, EOS, and UACT were significant factors. Based on an analysis of the area under the ROC curve, a combination of REI and EOS had the lowest AIC, indicating the best model to predict an intractable clinical course. Conclusions：REI may predict an intractable course in patients with non-EoE EGIDs. In addition, the combination of REI and EOS was a better predictor than REI alone.
DOI: 10.6084/m9.figshare.22361770
title: Supplementary Material for: Ultra-wide field optical coherence tomography in transvitreal and subretinal fibrinoid syndrome: a case report

description: Introduction We report a case of fibrinoid reaction after diabetic vitrectomy surgery. Clinical course, management and multimodal imaging including evaluation with ultra-wide field optical coherence tomography (OCT) will be reported. Methods A case report of a male patient with severe fibrinoid reaction with both intravitreal fibrin bands and subretinal fibrin and fluid following vitrectomy for diabetic retinopathy. He was managed with intravitreal injection (IVI) of tissue plasminogen activator (TPA), followed by fluid-air exchange and air-fluid exchange to remove the fibrin degradation product 2 days later. About 1 millimeter air was left inside the vitreous cavity for air tamponade to displace the remains of subretinal fibrin with another IVI of 25 µg TPA at the mean time. Posterior subtenon and suprachoroidal injection of triamcinolone was performed during the course. Results OCT including ultrawide field OCT showed transvitreal fibrin bands, subretinal fibrin, as well as subretinal fluid in the right eye. The degradation of intravitreal fibrin bands, as well as decrease of subretinal fluid were noted 2 days after intravitreal TPA and suprachoroidal injection of triamcinolone acetonide. The subretinal fibrin was subtotally reabsorbed and displaced after repeated injection of TPA and air tamponade another 1 week later. Subsequent follow up showed complete resolution of subretinal fibrin and subretinal fluid as well as improved visual acuity. Conclusion We describe a case of fibrinoid reaction after vitrectomy for diabetic retinopathy which was successfully treated. Wide-field OCT may also be used to assist in the recognition of this complication.
DOI: 10.6084/m9.figshare.22606201
title: Supplementary Material for: Expanded Spectrum Torpedo Retinopathy: A Case Series

description: Purpose: Torpedo lesions in the retina are rare and their clinical significance has not been well established. This case series highlights patients with atypical torpedo lesions with varying orientations and pigmentation patterns. We describe the first documented case of an inferiorly oriented lesion, to our knowledge, and add to the few previous descriptions of double-torpedo lesions. Methods: A case series of patients presenting with torpedo lesions was performed at a community-based institution by collecting the following parameters: demographics, best- corrected visual acuity (BCVA), fundus photography, spectral-domain optical coherence tomography (SD-OCT), and fundus autofluorescence (FAF). Results: Three patients with torpedo lesions were identified. At presentation, mean age was 56.3 (range: 53–59) years. All patients were male. BCVA was 20/20 in all eyes. All torpedo lesions were located in the temporal macula. Vertical, horizontal, and oblique lesion alignments were appreciated. One patient had a “double-torpedo” with one lesion oriented obliquely and one horizontally. SD-OCT demonstrated outer retinal cavitations in two patients, focal hyper- reflectivity in two patients, and retinal atrophy in all patients. FAF revealed diffuse hypo- autofluorescence consistent with RPE disruption in all patients. Conclusion: Despite the differences in lesion orientation and pigmentation, outer retinal atrophy and cavitations were consistent with prior reports of torpedo lesions. This case series serves to expand the clinical spectrum of torpedo retinopathy.
DOI: 10.6084/m9.figshare.23584908
title: Supplementary Material for: Right heart structure and function after electrical cardioversion for atrial fibrillation

description: Introduction: Atrial fibrillation (AF) adversely impacts right ventricular (RV) and right atrial (RA) structure and function. There is limited data on these changes after electrical cardioversion (ECV) and the relative contribution of heart rate. To evaluate the immediate (1-2 hours) and short-term (4-6 weeks) changes in right cardiac chamber dimensions and RV function after ECV in patients with persistent AF. Methods: RV and RA dimensions and RV function were measured in 64 patients using transthoracic echocardiography 1-2 hours before, immediately after, and 4-6 weeks after ECV. Associations between changes in right heart measures and rhythm status at follow-up were assessed using linear regression models. Results: For patients who remained in sinus rhythm 4-6 weeks after ECV (n=48), fractional area change (FAC) at baseline, immediately after ECV, and 4-6 weeks after ECV were 39(35-42)%, 42(39-46)%, 46(43-49)% (p&lt;0.01); tricuspid annular plane systolic excursion (TAPSE) values at the same time points were 18(17-20)mm, 20(18-23)mm and, 24(22-26)mm (p&lt;0.01), respectively. There was no significant difference in RV end systolic area and RA volume index before and after ECV. However, RV end systolic area and RA volume index decreased significantly after 4-6 weeks from 10(8-13)cm2 to 8(7-10)cm2 (p&lt;0.01), and from 30(24-36) ml/m² to 24(20-27) ml/m² (p&lt;0.01). Changes in FAC and TAPSE were significantly associated with sinus rhythm at follow-up (β coefficient: 9.19; 95% CI: 3.89-14.5; p&lt;0.053 and 5.74; 95% CI: 2.81-8.66; p=0.027), this was not true for RA measures (β coefficient: 2.01; 95% CI: -6.65-10.67; p=0.64). Conclusions: Among AF patients who remained in sinus rhythm after ECV, RV function improved immediately after ECV with a further improvement at 4-6 weeks following sinus rhythm restoration.