cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23301308
title: Supplementary Material for: Cause-Specific Mortality among Patients in Treatment for Opioid Use Disorder in Multiple Settings: A Prospective Comparative Cohort Study

description: <b><i>Introduction:</i></b> Among people receiving current or previous opioid maintenance treatment (OMT), the leading cause of premature death is an opioid overdose. However, other causes of mortality remain high in this group. An understanding of causes of deaths across multiple settings can be useful in informing more comprehensive prevention responses. The aim of this study was to describe all non-overdose causes of death in three national cohorts (Czechia, Denmark, and Norway) among OMT patients and to explore associations of non-overdose mortality with age and gender. <b><i>Methods:</i></b> This prospective comparative cohort study used national mortality registry databases for OMT patients from Czechia (2000–2019), Denmark (2000–2018), and Norway (2010–2019). Crude mortality rates and age-standardized mortality rates (ASMRs) were calculated as deaths per 1,000 person years for cause-specific mortality. <b><i>Results:</i></b> In total, 29,486 patients were included, with 5,322 deaths recorded (18%). We found variations in causes of death among the cohorts and within gender and age groups. The leading non-overdose causes of death were accidents in Czechia and Denmark, and neoplasms in Norway. Cardiovascular deaths were highest in Czechia, particularly for women in OMT (ASMR 3.59 vs. 1.24 in Norway and 1.87 in Denmark). <b><i>Conclusion:</i></b> This study found high rates of preventable death among both genders and all age groups. Different demographic structures, variations in risk exposure, as well as variations in coding practices can explain the differences. The findings support increased efforts towards screening and preventative health initiatives among OMT patients specific to the demographic characteristics in different settings.
DOI: 10.6084/m9.figshare.23309249
title: Supplementary Material for: Glycopeptide Antibiotics Impair Neutrophil Effector Functions

description: <b><i>Introduction:</i></b> Neutrophilic granulocytes represent the first line of defense against microorganisms. Granulocytes phagocytose microorganisms and specifically synthesize oxygen radicals against them, which eventually kills the invaders. <b><i>Methods:</i></b> Neutrophilic granulocytes were isolated from peripheral blood of healthy volunteer donors. Putative interference of new-generation antibiotics with neutrophil function was tested using a collection of granulocyte-stimulating agents and Amplex™ Red-based plate assay and flow cytometry-based respiratory burst assays. In addition, phagocytosis of <i>E. coli</i>, IL-8 production, bactericidal activity, and CD62L expression of granulocytes were evaluated. <b><i>Results:</i></b> Of note, we found that the two glycopeptide antibiotics dalbavancin and teicoplanin inhibited ROS production upon granulocyte activation via different signaling pathways in a dose-dependent manner. Dalbavancin also blocked the PMA-induced shedding of CD62L. In contrast, the oxazolidinone antibiotics tedizolid and linezolid had no effect on neutrophil function, while the combination of ceftazidime/avibactam dose dependently inhibited the fMLP/Cytochalasin B-induced granulocyte burst in a dose-dependent manner. Additionally, we showed that dalbavancin and teicoplanin as well as sulfametrole/trimethoprim and ceftazidime/avibactam inhibited baseline and PMA-induced IL-8 production by neutrophilic granulocytes. Moreover, dalbavancin impaired the bactericidal activity of neutrophilic granulocytes. <b><i>Conclusion:</i></b> We here identified hitherto unknown inhibitory effects of several classes of antibiotics on the effector functions of neutrophilic granulocytes.
DOI: 10.6084/m9.figshare.23566812
title: Supplementary Material for: Analysis of Concomitant Medications Prescribed with Antipsychotics to Patients with Dementia

description: <b><i>Introduction:</i></b> Antipsychotics are still commonly prescribed to patients with dementia, despite the many issues that have been identified. This study aimed to quantify antipsychotic prescription in patients with dementia and the types of concomitant medications prescribed with antipsychotics. <b><i>Methods:</i></b> A total of 1,512 outpatients with dementia who visited our department between April 1, 2013 and March 31, 2021, were included in this study. Demographic data, dementia subtypes, and regular medication use at the time of the first outpatient visit were investigated. The association between antipsychotic prescriptions and referral sources, dementia subtypes, antidementia drug use, polypharmacy, and prescription of potentially inappropriate medications (PIMs) was evaluated. <b><i>Results:</i></b> The antipsychotic prescription rate for patients with dementia was 11.5%. In a comparison of dementia subtypes, the antipsychotic prescription rate was significantly higher for patients with dementia with Lewy bodies (DLB) than for those with all other dementia subtypes. In terms of concomitant medications, patients taking antidementia drugs, polypharmacy, and PIMs were more likely to receive antipsychotic prescriptions than those who were not taking these medications. Multivariate logistic regression analysis showed that referrals from psychiatric institutions, DLB, N-methyl-d-aspartate (NMDA) receptor antagonists, polypharmacy, and benzodiazepine were associated with antipsychotic prescriptions. <b><i>Conclusions:</i></b> Referrals from psychiatric institutions, DLB, NMDA receptor antagonist, polypharmacy, and benzodiazepine were associated with antipsychotic prescriptions for patients with dementia. To optimise prescription of antipsychotics, it is necessary to improve cooperation between local and specialised medical institutions for accurate diagnosis, evaluate the effects of concomitant medication administration, and solve the prescribing cascade.
DOI: 10.6084/m9.figshare.23617257
title: Supplementary Material for: The 'Weekday effect' on Enhanced Recovery After Surgery Protocol for Gastrectomy

description: Introduction: While Enhanced Recovery After Surgery (ERAS) protocol demonstrated to improve outcomes after gastrectomy, some papers evidenced a detrimental effect on postoperative morbidity related to the "weekday effect". We aimed to understand whether the day of gastrectomy could affect postoperative outcomes and compliance with ERAS items. Methods: We included all patients that underwent gastrectomy for cancer between January 2017 and September 2021. Cohort was divided considering the day of surgery: Early group (Monday-Wednesday) and Late group (Thursday-Friday). Compliance with protocol and postoperative outcomes were compared. Results: 227 patients were included in Early group, while 154 in Late group. The groups were comparable in pre-operative characteristics. No significant difference in pre/intraoperative and postoperative ERAS items' compliance was apparent between Early and Late groups, with most items exceeding the 70% threshold. Median length of stay was 6.5 days and 6 days in Early and Late groups (p=0.616), respectively. Morbidity was 50% in both groups, with severe complications that occurred in 13% of Early patients and 15% of Late patients. Ninety-day mortality was 2%, and it was similar between the two groups. Conclusions: In a Center with a standardized ERAS protocol, the weekday of gastrectomy has no significant impact on the success of each ERAS item and on postoperative surgical and oncological outcomes.
DOI: 10.6084/m9.figshare.24071163
title: Supplementary Material for: Bilateral optic disc swelling with persistent visual loss in anemia: Case Report

description: A 56-year-old man with a medical history of alcoholic cirrhosis presented with acute bilateral loss of vision. On admission, the patient had pale skin and low arterial pressure. Ophthalmic examination demonstrated a visual acuity of 6/9 in the right eye and the absence of light perception in the left. Automated perimetry revealed a superior altitudinal defect in the right eye. Optic disc swelling, flame-shaped hemorrhages and several cotton-wool spots were evident in both eyes on fundoscopy. Lab results confirmed severe anemia. Following prompt correction of the anemia, the altitudinal defect remained unchanged. However, visual acuity in the right eye improved significantly in a few days. The potential association of anemia with both papilledema and NA-AION is discussed, with a focus on possible pathophysiological mechanisms. The necessity for routine anemia screening, encompassing complete blood count, serum iron and vitamin B12 levels, and subsequent rapid correction in these patients, is emphasized.
DOI: 10.7303/syn26706564
title: 11.0-public
DOI: 10.7924/r4x35002b
title: Data from: Nested circuits mediate the decision to vocalize

description: Vocalizations facilitate mating and social affiliation but may also inadvertently alert predators and rivals. Consequently, the decision to vocalize depends on brain circuits that can weigh and compare these potential benefits and risks. Male mice produce ultrasonic vocalizations (USVs) during courtship to facilitate mating, and previously isolated female mice produce USVs during social encounters with novel females. Earlier we showed that a specialized set of neurons in the midbrain periaqueductal gray (PAG-USV neurons) are an obligatory gate for USV production in both male and female mice, and that both PAG-USV neurons and USVs can be switched on by their inputs from the preoptic area (POA) of the hypothalamus and switched off by their inputs from neurons on the border between the central and medial amygdala (AmgC/M-PAG neurons) (Michael et al., 2020). Here we show that the USV-suppressing AmgC/M-PAG neurons are strongly activated by predator cues or during social contexts that suppress USV production in male and female mice. Further, we explored how vocal promoting and vocal suppressing drives are weighed in the brain to influence vocal production in male mice, where the drive and courtship function for USVs are better understood. We found that AmgC/M-PAG neurons receive monosynaptic inhibitory input from POA neurons that also project to the PAG, that these inhibitory inputs are active in USV-promoting social contexts, and that optogenetic activation of POA cell bodies that make divergent axonal projections to the amygdala and PAG is sufficient to elicit USV production in socially isolated male mice.  Accordingly, AmgC/M-PAG neurons, along with POAPAG and PAG-USV neurons, form a nested hierarchical circuit in which environmental and social information converges to influence the decision to vocalize.
DOI: 10.15785/sbgrid/967
title: X-Ray Diffraction data from Mn-bound M230A mutant Nramp/MntH divalent transition metal transporter from Deinococcus radiodurans, source of 8E6I structure

description: High resolution datasets of Mn-bound M230A mutant collected from 3 separate LCP crystals. Image files that start A131_run2 are from the first crystal, A132_run3 are from the second crystal and A133_run5 are from the third crystal.
description: Data was processed using XDS, indexed using POINTLESS in P22121 space group and scaled using AIMLESS at 2.52A
DOI: 10.17632/fjy37kc8pd.3
title: Processing of motion-boundary orientation in macaque V2

description: 1) This file contains the dataset for each main figure in "Processing of motion-boundary orientation in macaque V2". 2) Each file to each figure contains all the raw data(.mat file or sheet file mostly) and code that can be used to reproduce the results. The code is based on matlab-2018b. 3) Add "one-cell-per-channel" and "unique-unit" dataset in version 3.
DOI: 10.24432/c5xk51
title: Haberman's Survival
DOI: 10.5281/zenodo.6519821
title: Seroprevalence of SARS-CoV-2 infection in the general population in Togo in 2021

description: Results of population-based age stratified seroepidemiological investigation in Togo
DOI: 10.6084/m9.figshare.19543948
title: Pinto et al, 2022. Behavioral data in the accumulating-towers task with optogenetic inactivation of 9 sets of cortical regions during six different trial epochs

description: Hdf5 file containing a python dictionary with multiple arrays, the majority of them of length N where N is the number of behavioral trials, concatenated across mice and behavioral sessions. <br> 'choice', # N-element array of 0s and 1s indicating left or right choice, respectively 'cueOnset_L', # N-element array with arrays of left-tower onset times in sec for each trial, where t = 0 is trial start 'cueOnset_R', # N-element array with arrays of right-tower onset times in sec for each trial, where t = 0 is trial start 'cuePos_L', # N-element array with arrays of left-tower positions in cm. Towers appear when the mouse is 10 cm away from them 'cuePos_R', # N-element array with arrays of right-tower positions in cm. Towers appear when the mouse is 10 cm away from them 'epochList', # list of unique inactivation epochs. See referenced paper for details 'inactLocationList', # list of unique inactivation locations. See referenced paper for details 'laserEpoch', # N-element array with per-trial inactivation epoch 'laserEpoch_yposRange', # N-element array with [start end] position of laser inactivation in cm 'laserON', # N-element boolean array, True indicates laser inactivation trial 'loclbl', # N-element array with per-trial inactivation location 'mouseID', # N-element array with mouse number IDs 'nCues_RminusL', # N-element array with overall \Delta towers (#R - #L) for each trial 'pos', # N-element array with arrays indicating [x y theta] position for each time point in the trial. Theta is virtual view angle 'sessionID', # N-element array with unique session IDs per mouse 'time', # N-element array with arrays of time stamps in sec for each trial 'trialType', # N-element array of 0s and 1s indicating left or right trial (i.e. in which side the reward is), respectively 'viewAngle_byYpos', # N-element array with theta by position 'ypos_vals', # vector of y positions in cm used to calculate viewAngle_byYpos 'leftCode', # convention -- value used to indicate left side (= 0) 'rightCode' # convention -- value used to indicate right side (= 1)
DOI: 10.6084/m9.figshare.22047128
title: Supplementary Material for: Advances in Futile Reperfusion following Endovascular Treatment in Acute Ischemic Stroke due to Large Vessel Occlusion

description: <b><i>Background:</i></b> Futile reperfusion (FR) is becoming an urgent issue for acute ischemic stroke patients who underwent endovascular treatment (EVT). Although the recanalization rate has improved after EVT, it is far from translating to increased tissue reperfusion and functional independence. <b><i>Summary:</i></b> Many underlying mechanisms including the “no-reflow” phenomenon, poor collateral flow, venous dysfunction, and inflammation were proposed, but the pathophysiology of FR is still unclear. Clinically, reliable predictors are still yet to be identified, and ongoing trials on shortening the time delay and cytoprotection may provide novel ideas for interventions of FR. <b><i>Key Messages:</i></b> This review will summarize the latest advances in FR and hopefully shed light on potential interventions.
DOI: 10.6084/m9.figshare.22275640
title: Supplementary Material for: Patients’ perspectives on the development of prescription opioid use disorder in patients with chronic non-cancer pain

description: Introduction: In the past decade prescription opioid use increased exponentially and concomitantly opioid use disorders (OUD) are becoming more common. Several risk factors for developing OUD have been identified, but little is known regarding the patients’ perspective on developing a prescription OUD. Methods: We recruited 25 adults undergoing treatment for prescription OUD. In-depth, semi-structured interviews focussed on experiences with long term opioid use, knowledge and attitudes regarding opioids, and access to opioids. A directed content analysis was conducted on the transcribed interviews using Nvivo. Results: Participants showed that the development of an OUD is affected by various factors which could be grouped into three themes: 1) experiences driving initiation, 2) experiences driving continuation, and 3) experiences with prescription OUD. Besides the need for pain management, the dynamics of patient-provider communication, care coordination, provider vigilance, and environmental support all contributed to the way patients used their opioids. Discussion/Conclusion: Patients’ experiences illustrate that the first stage of the development of prescription OUD differs from the development of other substance addictions. Negative reinforcement might play a more prominent role in the early phase of prescription opioid use. Patients expressed a lack of guidance, both at the start of use and long-term use, easy access to new prescriptions and a lack of monitoring as main drivers of the development. Poorly controlled pain and subjective stress fuelled continuous opioid use.
DOI: 10.6084/m9.figshare.22598458
title: Supplementary Material for: Knowledge, Attitude, and Practice among Dubai Health Authority Healthcare Workers towards the COVID-19 Vaccine

description: Introduction: Vaccine attitude can change disease progress, facilitate herald immunity among the community, and stop disease progression. According to the available data, there is no current curative treatment against the virus. The only way to stop the spread of infection is to develop the vaccine and accelerate the vaccine, as shown previously with the Influenza pandemic. Objective: The study’s main goal is to investigate healthcare workers’ knowledge, attitude, and practice toward the Coronavirus Disease 2019 (COVID-19) vaccine in Dubai Health Authority, United Arab Emirates. Methods: In April 2021, an anonymous cross-sectional comparative study measured the willingness and hesitancy to take the COVID-19 vaccine among healthcare providers in the primary health care sector at Dubai Health Authority (DHA). Results: In terms of COVID-19 vaccine knowledge, there was widespread agreement on the significance of the vaccine in preventing the transmission of illness (91.6%) and on the vaccine's value for the public and community (95.6%). Furthermore, based on healthcare providers opinions, most individuals agreed to promote the COVID-19 vaccination to patients, family, and friends (92.7%), with just 6.9% doubtful. In actuality, 72.1 percent of those got the vaccination received two doses, while 27.9% received just one dosage. In terms of vaccine type, Pfizer (72.7%), Sinopharm (23.8%), and AstraZeneca (3.6%) were the available vaccines during the study period. Discussion: The majority of participants agreed that the vaccine is essential for healthcare providers and the community (more than 90%), and they were willing to recommend it to their families (92.7%). They also agreed that the vaccine is necessary to prevent the spread of the disease (91 percent), boosting vaccine confidence. Conclusion: COVID-19 vaccine was widely accepted by Dubai's healthcare workers. Several factors were identified as significant determinants of vaccine acceptance. United Arab Emirates (UAE) healthcare authorities can use the study's findings to develop public health policies and implement campaigns to address concerns about the COVID-19 vaccine and other emerging infectious diseases.
DOI: 10.6084/m9.figshare.23544708
title: Supplementary Material for: Molecular and Functional Heterogeneity of Primary Pancreatic Neuroendocrine Tumors and Metastases

description: <b><i>Introduction:</i></b> Treatment response to the standard therapy is low for metastatic pancreatic neuroendocrine tumors (PanNETs) mainly due to the tumor heterogeneity. We investigated the heterogeneity between primary PanNETs and metastases to improve the precise treatment. <b><i>Methods:</i></b> The genomic and transcriptomic data of PanNETs were retrieved from the Genomics, Evidence, Neoplasia, Information, Exchange (GENIE), and Gene Expression Omnibus (GEO) database, respectively. Potential prognostic effects of gene mutations enriched in metastases were investigated. Gene set enrichment analysis was performed to investigate the functional difference. Oncology Knowledge Base was interrogated for identifying the targetable gene alterations. <b><i>Results:</i></b> Twenty-one genes had significantly higher mutation rates in metastases which included TP53 (10.3% vs. 16.9%, <i>p</i> = 0.035) and KRAS (3.7% vs. 9.1%, <i>p</i> = 0.016). Signaling pathways related to cell proliferation and metabolism were enriched in metastases, whereas epithelial-mesenchymal transition (EMT) and TGF-β signaling were enriched in primaries. Gene mutations were highly enriched in metastases that had significant unfavorable prognostic effects included mutation of TP53 (<i>p</i> &lt; 0.001), KRAS (<i>p</i> = 0.001), ATM (<i>p</i> = 0.032), KMT2D (<i>p</i> = 0.001), RB1 (<i>p</i> &lt; 0.001), and FAT1 (<i>p</i> &lt; 0.001). Targetable alterations enriched in metastases included mutation of TSC2 (15.5%), ARID1A (9.7%), KRAS (9.1%), PTEN (8.7%), ATM (6.4%), amplification of EGFR (6.0%), MET (5.5%), CDK4 (5.5%), MDM2 (5.0%), and deletion of SMARCB1 (5.0%). <b><i>Conclusion:</i></b> Metastases exhibited a certain extent of genomic and transcriptomic diversity from primary PanNETs. TP53 and KRAS mutation in primary samples might associate with metastasis and contribute to a poorer prognosis. A high fraction of novel targetable alterations enriched in metastases deserves to be validated in advanced PanNETs.
DOI: 10.6084/m9.figshare.24131346
title: Supplementary Material for: PHACE(S) SYNDROME WITH OCULAR INVOLVEMENTS AND NO PERIOCULAR HAEMANGIOMA

description: PHACE(S) syndrome is a neurocutaneous disorder with a hallmark finding of an infantile facial hemangioma (IFH) &gt; 5cm. Eye examination of patients with PHACE(S) syndrome with no IFH at periorbital region is reported to be of low yield. We report a unique case of the syndrome with ocular manifestations without periorbital IFH or systemic findings. A 3-week-old female infant with right periauricular IFH &gt; 5cm, extending to the neck and cheek and with lower lip IFH. Examination revealed pseudoptosis due to microphthalmia with esotropia and hypertropia. Both corneas were clear with diameters of 5mm and 10mm, right eye (RE) and left eye (LE), respectively. There was a posterior polar cataract with a poor view of the fundus RE. Ocular B-scan and magnetic resonance imaging (MRI) findings were suggestive of a dysmorphic globe, vitreous hemorrhage, spherophakia and persistent fetal vasculature RE and normal findings LE. Clinical evaluation, MRI and MR angiography revealed no other systemic abnormalities. Subsequent follow-up visits revealed progressive clouding of the cornea with neovascularization and the development of phthisis bulbi RE at which point an ocular prosthesis was placed. The IFH was managed with dye laser and with oral propranolol. At one year, the patient has remained stable with no development of new local or systemic anomalies, regression of the periauricular and lip IFH and normal development of the orbital structure RE with an ocular prosthesis in situ. Ocular involvement in patients with PHACE(S) syndrome may be present without periorbital IFH. Regardless of the location of the IFH and the presence or absence of a periocular component, it is recommended that they receive a full initial ophthalmological assessment.