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Predictors of depression, anxiety and stress indicators in a cohort of women with chronic pelvic pain - data set 2
<p>Data set for PPSA study - 2. A second data set was created for the PPSA study publication to isolate variables of interest to make the statistics manageable, due to the sheer number of variables in the initial data set </p>
The viral load monitoring cascade in a resource-limited setting: a prospective multicentre cohort study after introduction of routine viral load monitoring in rural Lesotho
<p>Anonymised dataset for the submitted manuscript "The viral load monitoring cascade in a resource-limited setting: a prospective multicentre cohort study after introduction of routine viral load monitoring in rural Lesotho"</p>
Dataset of a melanoma patient cohort in the Veneto region of Italy
<p>This record contains original data concerning the research article intitled "Polygenic Risk Score improves melanoma risk assessment in a patient cohort from the Veneto region of Italy.", Pellegrini et al.</p>
Introduction to the TOPS SCHOOL Project: NLU Fall 2024 Student Cohort
<p>In this video, Juan Martinez and Kytt MacManus give an overview of the TOPS SCHOOL project to the fall 2024 NLU student cohort. They provide an overview of the project, <a href="https://ciesin-geospatial.github.io/TOPSTSCHOOL/" target="_blank" rel="noopener">website</a>, <a href="https://github.com/ciesin-geospatial/TOPSTSCHOOL" target="_blank" rel="noopener">GitHub</a>, and tasks. You can watch the video below or find a link in the 'Additional details' section.</p>
Data from: Incidence of cancer-associated thromboembolism in Japanese gastric and colorectal cancer patients receiving chemotherapy: a single-institutional retrospective cohort analysis (Sapporo CAT study)
Objective: Few data regarding the incidence of cancer-associated thromboembolism (TE) are available for Asian populations. We investigated the incidence of TE (TEi) and its risk factors among gastric and colorectal cancer (GCC) patients who received chemotherapy in a daily practice setting. Design: A retrospective cohort study. Setting: A single institutional study that used data from Sapporo City General Hospital, Japan, on patients treated between January 2008 and May 2015. Participants: Five hundred Japanese GCC patients who started chemotherapy from January 2008 to May 2015. Primary and secondary outcome measures: TE was diagnosed by reviewing all the reports of contrast-enhanced computed tomography (CT) performed during the follow-up period. All types of thrombosis detected by CT or additional imaging tests, such as venous TE, arterial TE, and cerebral infarction, were defined as TE. Medical records of all identified patients were reviewed and potential risk factors for TE including clinicopathological backgrounds were collected. We defined the following patients as 'active cancer'; patients with unresectable advanced GCC, cancer recurrence during or after completing adjuvant (Adj) chemotherapy, and/or presence of other malignant tumours. Results: Of the 500 patients, 70 patients (14.0%) developed TE during the follow-up period. TEi was 9.2% and 17.3% in gastric and colorectal cancer patients, 18.1% and 3.5% in active and non-active cancer patients, and 24.0% and 12.9% in multiple and single primary, respectively. Multivariate logistic regression analysis showed that colorectal cancer (odds ratio [OR], 2.371; 95% confidence interval [CI], 1.328 to 4.233), active cancer (OR 7.593; 95% CI 2.950 to 19.543), and multiple primary (OR 2.527; 95% CI 1.189 to 5.370) were independently associated with TEi. Conclusion: TEi was 14.0% among Japanese GCC patients received chemotherapy, and was significantly higher among patients with colorectal cancer, active cancer, and multiple primary than among those with gastric cancer, non-active cancer, and single primary, respectively.
Antibody features towards VAR2CSA and CSA binding infected erythrocytes in a cohort of pregnant women from PNG
<p><i>Plasmodium falciparum </i>causes placental malaria, which results in adverse outcomes for mother and child. <i>P. falciparum</i> infected erythrocytes that express the parasite protein VAR2CSA on their surface can bind to placental chondroitin sulfate-A. It has been hypothesized that naturally acquired antibodies towards VAR2CSA protect against placental infection, but it has proven difficult to use measures of antibody to identify individuals protected from disease. We used a systems serology approach to identify naturally acquired antibody features mid pregnancy that were associated with protection from placental malaria at delivery. Machine learning techniques selected six out of 169 measured antibody features towards VAR2CSA that could predict (with 86% accuracy) whether a woman would subsequently have active placental malaria infection at delivery. Selected features were associated with inhibition of placental binding and/or opsonic phagocytosis of infected erythrocytes, and network analysis indicated that there are not one but multiple pathways to protection from placental malaria.</p>
EEG abnormalities and their radiographic correlates in a COVID-19 inpatient cohort
<p>Objective: To identify the prevalence of EEG abnormalities in patients with COVID-19 with neurologic changes, their associated neuroimaging abnormalities and rates of mortality.</p> <p>Methods: A retrospective case series of 192 adult COVID-19 positive inpatients with EEG performed between March and June 2020 at 4 hospitals: 161 undergoing continuous, 24 routine, and 7 reduced-montage EEG. Study indication, epilepsy history, intubation status, administration of sedatives or antiseizure medications, metabolic abnormalities, neuroimaging pathology associated with epileptiform abnormalities, and in-hospital mortality were analyzed.</p> <p>Results: EEG indications included encephalopathy (54.7%), seizure (18.2%), coma (17.2%), focal deficit (5.2%), and abnormal movements (4.6%). Epileptiform abnormalities occurred in 39.6% of patients: focal intermittent epileptiform discharges in 25.0%, lateralized periodic discharges in 6.3%, and generalized periodic discharges in 19.3%. Seizures were recorded in 8 patients, 3 with status epilepticus. Antiseizure medication administration, epilepsy history, and older age were associated with epileptiform abnormalities. Only 26.3% of patients with any epileptiform abnormality, 37.5% with electrographic seizures, and 25.7% patients with clinical seizures had known epilepsy. Background findings included generalized slowing (88.5%), focal slowing (15.6%), burst suppression (3.6%), attenuation (3.1%), and normal EEG (3.1%). Neuroimaging pathology was identified in 67.1% of patients with epileptiform abnormalities, over two-thirds acute. In-hospital mortality was 39.5% for patients with epileptiform abnormalities, 36.2% for those without. Risk factors for mortality were coma and ventilator support at time of EEG.</p> <p>Significance: This article highlights the range of EEG abnormalities frequently associated with acute neuroimaging abnormalities in COVID-19. Mortality rates were high, particularly for patients in coma requiring mechanical ventilation. These findings may guide the prognosis and management of patients with COVID-19 and neurologic changes.</p>
Is High Milk Intake Good for Children's Health? A National Population-based Observational Cohort Study
<p>Milk is widely considered as a beneficial product for growing children. This study was designed to describe the milk consumption status in Korean children aged 30–36 months and to investigate its association with the risk of obesity and iron deficiency anemia (IDA). This nationwide administrative study used data from the Korean national health insurance system and child health screening examinations consists of children born in 2008 and 2009. In total, 425,583 children were included, and they were divided into three groups based on daily milk consumption; low milk group (do not drink or drink <200 mL milk per day, n = 139,659), reference group (drink 200–499 mL milk per day, n = 255,670), and high milk group (drink ≥500 mL milk per day, n = 30,254). After adjusting variable confounding factors, consumption of a large amount of milk of ≥500 mL per day at the age of 30–36 months was associated with an increased risk of obesity at the age of 42–72 months and IDA after the age of 30 months. These results may provide partial evidence for dietary guidelines for milk consumption in children that are conducive to health.</p>
The predictive role of executive functions and psychological factors on chronic pain after orthopaedic surgery A longitudinal cohort study
<p>This is a dataset from a longitudinal cohort study. Patients listed for orthopaedic surgery were enrolled. Variables measured<br> before surgery were pain intensity, the sensory, affective, cognitive and mixed components of pain, state and trait variables associated with the psychological status of the patient, fear of movement, pain catastrophizing, visual attention and cognitive flexibility. Pain intensity and the components<br> of pain were re-evaluated after surgery and after three months. 167 patients were enrolled.</p>
Prehabilitation program in elderly patients: a prospective cohort study
<p>The preoperative period may be an opportune period to optimize the patients' physical condition with a multimodal preoperative program. The impact of a "prehabilitation" program in elderly patients is discussed. This mono-centre observational cohort study included consecutively 139 patients planned for major abdominal and thoracic surgery: 44 in the control group (age<65) and 95 in the elderly group (age> 65). All patients followed a "prehabilitation" program including exercise training, nutritional optimization, psychological support, and behavior change. Seventeen patients in the control group and 45 in the elderly group completed the study at six months. The 6-minute walk test (6MWT) increased in both groups from the initial evaluation to the last one (median value of 80 m [interquartile range 51] for those under 65 years; 59 m [34] for the older ones; P=0.114). The 6MWT was also similar after one month of prehabilitation for both populations. The rate of postoperative complications was similar in the two groups. Prehabilitation showed equivalence in patients over 65 years of age compared to younger patients in terms of increase in functional capabilities and of postoperative evolution. This multimodal program represents a bundle of care which can benefit the frailer population.</p>
Dataset from "Predictors of clinically meaningful results of bracing in a cohort of 1050 adolescents with idiopathic scoliosis"
<p>Dataset from a still non-published study titled "Predictors of clinically meaningful results of bracing in a cohort of 1050 adolescents with idiopathic scoliosis"</p>
Data and Code for "Behavioral factors and SARS-CoV-2 transmission heterogeneity within a household cohort in Costa Rica"
<p>Data and Code for "Behavioral factors and SARS-CoV-2 transmission heterogeneity within a household cohort in Costa Rica"</p>
St. Jude Lifetime Study Cohort variables of determinants of health-related quality-of-life in adult survivors of childhood cancer
<p>The dataset contains variables from the St. Jude Lifetime Cohort Study used in the study of determinants of utility-based health-related quality-of-life in adult survivors of childhood cancer reported in Horan et al., 2023 (DOI:<a href="https://doi.org/10.1016/j.eclinm.2023.101921">https://doi.org/10.1016/j.eclinm.2023.101921</a>). Please cite the appropriate publications (this repository and corresponding publication above) in any communications or publications arising directly or indirectly from these data. </p> <p><strong>Funding:</strong></p> <p>The research reported in the manuscript was supported by the U.S. National Cancer Institute under award numbers U01CA195547 (Hudson/Ness), R01CA238368 (Huang/Baker), R01CA258193 (Huang/Yasui), R01CA270157 (Bhakta/Yasui), and T32CA225590 (Krull). The content is solely the responsibility of the authors and does not necessarily represent the official views of the funding agencies.</p>
Dabrafenib plus trametinib versus anti-PD-1 monotherapy as adjuvant therapy in BRAF V600-mutant stage III melanoma after definitive surgery: a prospectively-powered multicenter, retrospective cohort study
<p><strong>Summary </strong></p> <p>Background Both dabrafenib/trametinib (D/T) and anti-PD-1 monotherapy (PD-1) are approved adjuvant therapies for patients with stage III BRAF V600-mutant melanoma. However, there is still a lack of head-to-head comparative data. We aimed to describe efficacy and toxicity outcomes for these two standard therapies across melanoma centers.</p> <p>Methods This prospectively-powered multicenter, retrospective cohort study was conducted in 15 melanoma centers in Australia, China, Germany, Italy, Japan, UK, and US. We included adult patients with resected stage III BRAF V600-mutant melanoma who received either adjuvant D/T or PD-1. The primary endpoint was recurrence-free survival (RFS). Secondary endpoints included overall survival (OS), recurrence pattern and toxicity.</p> <p>Findings We included 598 patients with stage III BRAF V600-mutant melanoma who received either adjuvant D/T (n=393 [66%]) or PD-1 (n=205 [34%]) post definitive surgery between Jul 2015 and Oct 2022. At a median follow-up of 33 months (IQR 21-43), the median RFS was 51∙0 months (95%CI 41∙0-not reached [NR]) in the D/T group, significantly longer than 44∙8 (95%CI 28∙5-NR) in the PD-1 group (univariate: HR 0∙658, 95%CI 0∙498-0∙869, P=0∙003; multivariate: HR 0∙687, 95% CI 0∙512-0∙922, P = 0∙012), with comparable OS with PD-1 (multivariate, HR 1∙011, 95%CI 0∙637-1∙604, P>0∙95). Similar findings were observed using a restricted-mean-survival-time model. D/T survival benefits were consistent in most subgroups, except for older, male patients and those with V600K mutation. Among those who experienced recurrence, the proportion of distant metastases was higher in the D/T cohort. D/T had a higher incidence of treatment modification due to adverse events (AEs) than PD-1, but fewer persistent AEs.</p> <p>Interpretation In patients with stage III BRAF V600-mutant melanoma post definitive surgery, D/T yielded better RFS than PD-1, with higher transient but lower persistent toxicity, and comparable OS. D/T is potentially a superior adjuvant option compared with PD-1. </p>
Intensive training programme improves handwriting in a community cohort of people with Parkinson's disease
<p><strong>Background</strong>: People with Parkinson’s disease (PwP) often report problems with their handwriting before they receive a formal diagnosis. Many PwP suffer from deteriorating handwriting throughout their illness, which has detrimental effects on many aspects of their quality of life. </p> <p><strong>Aims:</strong> To assess a 6-week online training programme aimed at improving handwriting of PwP. </p> <p><strong>Methods</strong>: Handwriting samples from a community-based cohort of PwP (n=48) were analysed using Systematic Detection of Writing Problems (SOS-PD) by two independent raters, before and after a 6-week remotely-monitored Physiotherapy-led training programme. Inter-rater variability on multiple measures of handwriting quality was analysed. The handwriting data was analysed using pre/post design in the same individuals. Multiple aspects of the handwriting samples were assessed, including writing fluency, transitions between letters, regularity in letter size, word spacing, and straightness of lines. </p> <p><strong>Results</strong>: Analysis of inter-rater reliability showed high agreement for total handwriting scores, letter size, as well as speed and legibility scores, whereas there were mixed levels of inter-rater reliability for other handwriting measures. Overall handwriting quality (p=0.001) and legibility (p=0.009) significantly improved, while letter size (p=0.012), fluency (p=0.001), regularity of letter size (p=0.009) and straightness of lines (p=0.036) were also enhanced. </p> <p><strong>Conclusions</strong>: The results of this study show that this 6-week intensive remotely-monitored Physiotherapy-led handwriting programme, improved handwriting in PwP. This is the first of its kind study using this tool remotely and it demonstrated that the SOS-PD is reliable for measuring handwriting in PwP.</p> <p><strong>Background</strong>: People with Parkinson’s disease (PwP) often report problems with their handwriting before they receive a formal diagnosis. Many PwP suffer from deteriorating handwriting throughout their illness, which has detrimental effects on many aspects of their quality of life. </p> <p><strong>Aims:</strong> To assess a 6-week online training programme aimed at improving handwriting of PwP. </p> <p><strong>Methods</strong>: Handwriting samples from a community-based cohort of PwP (n=48) were analysed using Systematic Detection of Writing Problems (SOS-PD) by two independent raters, before and after a 6-week remotely-monitored Physiotherapy-led training programme. Inter-rater variability on multiple measures of handwriting quality was analysed. The handwriting data was analysed using pre/post design in the same individuals. Multiple aspects of the handwriting samples were assessed, including writing fluency, transitions between letters, regularity in letter size, word spacing, and straightness of lines. </p> <p><strong>Results</strong>: Analysis of inter-rater reliability showed high agreement for total handwriting scores, letter size, as well as speed and legibility scores, whereas there were mixed levels of inter-rater reliability for other handwriting measures. Overall handwriting quality (p=0.001) and legibility (p=0.009) significantly improved, while letter size (p=0.012), fluency (p=0.001), regularity of letter size (p=0.009) and straightness of lines (p=0.036) were also enhanced. </p> <p><strong>Conclusions</strong>: The results of this study show that this 6-week intensive remotely-monitored Physiotherapy-led handwriting programme, improved handwriting in PwP. This is the first of its kind study using this tool remotely and it demonstrated that the SOS-PD is reliable for measuring handwriting in PwP.</p>
CCBB congenital CMV cohort immune cell subset RNA seq analysis
<p>CCBB congenital CMV cohort immune cell subset RNA seq analysis includes:</p> <p>1) metadata file with sample cell type and CMV infection status</p> <p>2) read counts for FAC-sorted cord blood immune cell subsets</p> <p>3) sample code for bulk RNA seq analysis and data visualization</p>
Investigating the Impact of Internet Use in Patients with Cardiac Arrhythmias: A Cohort Study - Full Dataset SPSSv27
<p><span lang="EN-GB">The full dataset used for calculations. Statistical analysis was performed on IBM SPSS V27.</span></p>
Blood cell differential count discretization modeling predicts survival in adults reporting to the emergency room: a retrospective cohort study
<p><strong>Objectives</strong>: to assess survival predictivity of baseline blood cell differential count (BCDC), discretized according to two different methods, in adults visiting the Emergency Room (ER) for illness or trauma over one-year. </p> <p><strong>Design</strong>: Retrospective cohort study of hospital records. </p> <p><strong>Setting</strong>: Tertiary care public hospital in northern Italy. </p> <p><strong>Participants</strong>: 11052 patients aged > 18 years, consecutively admitted to the ER in one year, and for whom BCDC collection was indicated by ER medical staff at first presentation.</p> <p><strong>Primary outcome</strong>: Survival was the referral outcome for explorative model development. Automated BCDC analysis at baseline assessed hemoglobin, red cell mean volume (MCV) and distribution-width (RDW), platelet distribution-width (PDW), plateletcrit (PCT), absolute red blood cells, white blood cells, neutrophils, lymphocytes, monocytes, eosinophils, basophils, and platelets. Discretization cutoffs were defined by Benchmark and Tailored methods. Benchmark cutoffs were stated on laboratory reference values (CLSI). Tailored cutoffs for linear, sigmoid-shaped and for U-shaped distributed variables were discretized by Maximally Selected Rank Statistics and by Optimal-Equal Hazard Ratio respectively. Explanatory variables (age, gender, ER admission during SARS-CoV2 surges, in-hospital admission) were analyzed using Cox multivariable regression. ROC curves were drawn by sum of Cox-significant variables for each method.</p> <p><strong>Results</strong>: Of 11052 patients (median age 67 years, IQR 51–81, 48% female), 59% (n=6489) were discharged and 41% (n=4563) were admitted in hospital. After a 306-day median follow up (IQR 208–417 days), 9455 (86%) patients were alive and 1597 (14%) deceased. Increased HRs were associated with age >73-years (HR=4.6 CI=4.0–5.2), in-hospital admission (HR=2.2 CI=1.9–2.4), ER admission during SARS-CoV2 surges (Wave-I HR=1.7 CI=1.5–1.9); Wave-II HR=1.2 CI=1.0–1.3). Gender, hemoglobin, MCV, RDW, PDW, neutrophils, lymphocytes and eosinophils counts were significant in overall. Benchmark-BCDC model included basophils and platelet count (AUROC 0.74). Tailored-BCDC model included monocyte counts and plateletcrit (AUROC 0.79).</p> <p><strong>Conclusions</strong>: baseline discretized BCDC provides meaningful insight regarding Emergency Room patients survival.</p>
Dataset and Code: Associations of Seven Measures of Biological Age Acceleration with Frailty and All-Cause Mortality Among Adult Survivors of Childhood Cancer in the St. Jude Lifetime Cohort
Open the record for dataset details and reuse information.
Cohort Study of Adult Patients With Down Syndrome at Risk of Developing Alzheimer's Disease (TriAL21)
ClinicalTrials.gov study NCT03901261. IPD Sharing: Not stated. Countries: 1. Publications: 15.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.