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Data supplement for "Efficient calculation of phase coexistence and phase diagrams: application to a binary phase-field crystal model"
<p>This dataset contains the data and source files for the diagrams of the following publication:</p> <p><em>Holl, M. P., Archer, A.J., & Thiele, U.<br> Efficient calculation of phase coexistence and phase diagrams: application to a binary phase-field crystal model<br> arXiv preprint </em><br> <a href="https://arxiv.org/abs/2009.02946">arXiv:2009.02946</a><em>, 2020 </em></p> <p>We provide the data and sources necessary to generate figures 10-14 of the manuscript.</p> <p>Additionally we provide the MATLAB codes to run all the continuations for the results in sections 4.2 and 5. </p> <p>For more information, please see the included README.md</p>
Supplemental material for: PROMISE-2: Efficacy and safety of eptinezumab in patients with chronic migraine
Objective: To evaluate the efficacy and safety of eptinezumab, a humanized anti–calcitonin gene-related peptide monoclonal antibody, in the preventive treatment of chronic migraine (CM). Methods: The PRevention Of Migraine via Intravenous ALD403 Safety and Efficacy–2 (PROMISE-2) study was a phase 3, multicenter, randomized, double-blind, placebo-controlled, parallel-group study. Adults with CM were randomly assigned to receive intravenous (IV) eptinezumab 100 mg, eptinezumab 300 mg, or placebo, administered on day 0 and week 12. The primary endpoint was change from baseline in mean monthly migraine days (MMDs) over weeks 1–12. Results: Among treated participants (n = 1072), baseline mean MMDs was ~16.1 across groups. Treatment with eptinezumab 100 mg and 300 mg was associated with significant reductions in MMDs across weeks 1–12 compared with placebo (placebo, −5.6, 100 mg, −7.7, p < 0.0001 vs placebo; 300 mg, −8.2, p < 0.0001 vs placebo). Treatment-emergent adverse events (TEAEs) were reported by 43.5% (100 mg), 52.0% (300 mg), and 46.7% (placebo) of patients. Nasopharyngitis was the only TEAE reported for >2% of eptinezumab treated patients at an incidence of greater than 2% over placebo; it occurred in the 300 mg eptinezumab arm (eptinezumab 9.4%, placebo 6.0%). Conclusion: In patients with CM, eptinezumab 100 mg and 300 mg was associated with a significant reduction in MMDs from the day following IV administration through week 12, was well tolerated, and demonstrated an acceptable safety profile.
Midlife Plasma AB and Latelife Risk of MCI/Dementia Supplemental Material
<p><b>Objective. </b>To evaluate the association between midlife plasma amyloid-beta (Aβ<sub>1-42</sub>, Aβ<sub>1-40</sub>, Aβ<sub>42</sub>:Aβ<sub>40</sub>) and risk of MCI and dementia.</p> <p>Plasma Aβ<sub>42</sub> and Aβ<sub>40</sub> were retrospectively measured using a fluorimetric bead-based immunoassay in a subsample of the Atherosclerosis Risk in Communities study (n=2284) at the third (1993-95, mean age=59.2±5.2, 57% female, 22% Black) and fifth in-person visits (2011-13, mean age=77.0±5.3). We investigated the relationship of plasma Aβ<sub>42</sub>, Aβ<sub>40</sub>, and Aβ<sub>42</sub>:Aβ<sub>40</sub> ratio measured in midlife, late-life, and the change from midlife to late-life, to risk of MCI, dementia, and combined MCI/dementia outcomes in late-life (from 2011-19). We used multinomial logistic regressions estimating relative risk ratios (RRR) of these cognitive outcomes vs cognitively normal adjusted for age, sex, education, site-race, APOE, hypertension, diabetes, and body mass index. Each doubling of midlife Aβ<sub>42</sub>:Aβ<sub>40</sub> was associated with 37% lower risk of MCI/dementia (RRR=0.63, 95% CI: 0.46, 0.87), but only up to approximately the median (spline model threshold 0.20). Every standard deviation increase in plasma Aβ<sub>42</sub> (10 pg/mL) was associated with 13% lower risk of MCI/dementia (RRR=0.87, 95% CI: 0.77, 0.98), whereas every standard deviation increase in plasma Aβ<sub>40</sub> (67 pg/mL) was associated with 15% higher risk of MCI/dementia (RRR=1.15, 95% CI: 1.01, 1.29). Associations were comparable, but slightly weaker statistically, when repeating models using late-life plasma Aβ predictors. Aβ<sub>42</sub> and Aβ<sub>40</sub> increased from midlife to late-life, but changes were not associated with cognitive outcomes. Midlife measurement of plasma Aβ may have utility as a blood-based biomarker indicative of risk for future cognitive impairment.</p>
Berends_vandeWal_2016_GMD_supplement
<p>Data files required to run the Matlab scripts provided as a supplement to the paper by Berends and van de Wal in GMD, 2016.</p>
Self Supervised Cloud Classification Data Supplement
<p>Supplementary data for: "Self Supervised Cloud Classification" Geiss et al. 2023.</p> <p>Includes trained neural networks and a copy of the image chips extracted from the "SGFF" dataset that were used for evaluating the trained networks.</p> <p>Update 9-16-2025: Uploaded the correct 'modis_encoder' file. Previously the 'modis_projector' file was mistakenly uploaded as both the encoder and projector.</p>
Pareto Curves for Compositionally Model Checking String Diagrams of MDPs: Supplemental Material
<p>Supplemental material for the paper: Pareto Curves for Compositionally Model Checking String Diagrams of MDPs</p> <p>Submitted to TACAS 2024</p>
Figure 1 from: Abu-Zaid A, Abu-Zaid S, Barakat M, Al-Huniti R, Khair H (2024) Effectiveness of combination therapy of magnesium, vitamin B2 and Co-enzyme 10 supplementation on vestibular migraine: a retrospective cohort study. Pharmacia 71: 1-7. https://doi.org/10.3897/pharmacia.71.e112909
Figure 1 Decrease in vestibular migraine symptom duration following supplementation (n = 57).
Figure 3 from: Abu-Zaid A, Abu-Zaid S, Barakat M, Al-Huniti R, Khair H (2024) Effectiveness of combination therapy of magnesium, vitamin B2 and Co-enzyme 10 supplementation on vestibular migraine: a retrospective cohort study. Pharmacia 71: 1-7. https://doi.org/10.3897/pharmacia.71.e112909
Figure 3 Decrease in frequency of vestibular migraines following supplementation (n = 57).
Figure 2 from: Abu-Zaid A, Abu-Zaid S, Barakat M, Al-Huniti R, Khair H (2024) Effectiveness of combination therapy of magnesium, vitamin B2 and Co-enzyme 10 supplementation on vestibular migraine: a retrospective cohort study. Pharmacia 71: 1-7. https://doi.org/10.3897/pharmacia.71.e112909
Figure 2 Decrease in severity of vestibular migraine following supplementation (n = 57).
Supplements for "The Proteomic Code: Novel Amino Acid Residue Pairing Models "Encode" Protein Folding and Protein-Protein Interactions"
<p><strong>Supplements for "The Proteomic Code: Novel Amino Acid Residue Pairing Models “Encode” Protein Folding and Protein-Protein Interactions"</strong></p> <p>This supplement includes the following files:</p> <ul> <li>Main_v02.R --- Script in R language to process protein structures and produce the datasets.</li> <li>datasets_v02.zip --- final filtered version of datasets produced in R language (by "Main_v02.R"). </li> <li>Dataset key v02.txt --- key and descriptions to column names in ("datasets.zip"). </li> </ul> <p>The article featuring these datasets is submitted to:</p> <p>Journal: Computers in Biology and Medicine (Reference: CBM_110033)<br>Title: "The Proteomic Code: Novel Amino Acid Residue Pairing Models "Encode" Protein Folding and Protein-Protein Interactions"<br>Authors: Hameduh, Tareq; Miller, Andrew D. ; Heger, Zbynek; Haddad, Yazan</p> <p> </p> <p> </p>
Figure 2 from: Koleva P, Tsanova-Savova S, Paneva S, Velikov S, Savova Z (2021) Polyphenols content of selected medical plants and food supplements present at Bulgarian market. Pharmacia 68(4): 819-826. https://doi.org/10.3897/pharmacia.68.e71460
Figure 2 Chromatogram of Sambucus nigra fruit at 275 nm (a) and at 355 nm (b).
Figure 3 from: Koleva P, Tsanova-Savova S, Paneva S, Velikov S, Savova Z (2021) Polyphenols content of selected medical plants and food supplements present at Bulgarian market. Pharmacia 68(4): 819-826. https://doi.org/10.3897/pharmacia.68.e71460
Figure 3 Chromatogram of Sambucus nigra food supplement at 275 nm (a) and at 355 nm (b).
Hölzchen et al. (2022) Supplement B. Supplementary data
<p>This dataset contains Supplement B (supplementary data) for Hölzchen et al. (2022) "Estimating crossing success of human agents across sea straits out of Africa in the Late Pleistocene".</p>
Figure 3 from: Tzankova D, Mateeva A, Mitkov J, Peikova L, Georgieva M (2022) Development and validation of RP-HPLC method for analytical characterization of the anabolic steroid Methenolone acetate in food supplements. Pharmacia 69(1): 151-155. https://doi.org/10.3897/pharmacia.69.e78176
Figure 3 Chromatogram of Methenolone standard solution.
Figure 2 from: Tzankova D, Mateeva A, Mitkov J, Peikova L, Georgieva M (2022) Development and validation of RP-HPLC method for analytical characterization of the anabolic steroid Methenolone acetate in food supplements. Pharmacia 69(1): 151-155. https://doi.org/10.3897/pharmacia.69.e78176
Figure 2 Linearity of the developed RP-HPLC method.
Figure 5 from: Tzankova D, Mateeva A, Mitkov J, Peikova L, Georgieva M (2022) Development and validation of RP-HPLC method for analytical characterization of the anabolic steroid Methenolone acetate in food supplements. Pharmacia 69(1): 151-155. https://doi.org/10.3897/pharmacia.69.e78176
Figure 5 Chromatogram of test solution.
Figure 4 from: Tzankova D, Mateeva A, Mitkov J, Peikova L, Georgieva M (2022) Development and validation of RP-HPLC method for analytical characterization of the anabolic steroid Methenolone acetate in food supplements. Pharmacia 69(1): 151-155. https://doi.org/10.3897/pharmacia.69.e78176
Figure 4 Chromatogram of Methenolone acetate standard solution.
Figure 1 from: Tzankova D, Mateeva A, Mitkov J, Peikova L, Georgieva M (2022) Development and validation of RP-HPLC method for analytical characterization of the anabolic steroid Methenolone acetate in food supplements. Pharmacia 69(1): 151-155. https://doi.org/10.3897/pharmacia.69.e78176
Figure 1 Structure of Methenolone.
Supplemental Table: Video breakdown of 1,895 NeuroByte user satisfaction survey responses
<p>Objective <br> To determine whether NeuroBytes is a helpful e-Learning tool in neurology through usage, viewer type, estimated time and cost of development, and post-course survey responses. <br> <br> Background <br> A sustainable continuing professional development (CPD) system is vital in neurology due to the field's expanding therapeutic options and vulnerable patient populations. In an effort to offer concise, evidence based updates to a wide range of neurology professionals, the AAN launched NeuroBytes in 2018. NeuroBytes are brief (<5 min) videos that provide high-yield updates to AAN members. </p> <p>Methods <br> NeuroBytes was beta tested from August–December 2018 and launched for pilot circulation from January–April 2019. Usage was assessed by quantifying course enrollment and completion rates; feasibility by cost and time required to design and release a module; appeal by user satisfaction; and impact by self-reported change in practice. <br> <br> Results <br> A total of 5,130 NeuroBytes enrollments (1,026±551/month) occurred from January 11–May 28, 2019 with a median of 588 enrollments per module (interquartile range, 194-922) and 37% course completion. The majority of viewers were neurologists (54%), neurologists in training (26%), and students (8%). NeuroBytes took 59 hours to develop at an estimated $77.94/hour. Of the 1,895 users who completed the survey, 82% were "extremely" or "very likely" to recommend NeuroBytes to a colleague and 60% agreed that the depth of educational content was "just right." </p> <p>Conclusions <br> NeuroBytes is a user-friendly, easily accessible CPD product that delivers concise updates to a broad range of neurology practitioners and trainees. Future efforts will explore models where NeuroBytes combines with other CPD programs to impact quality of training and clinical practice. <br> </p>
Supplement to: Global impact of the COVID-19 pandemic on stroke care and intravenous thrombolysis
<p><span><span><span><span><span><span><span><span><span><span><span><b>Objective: </b></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span>The objectives of this study were to measure the global impact of the pandemic on the volumes for intravenous thrombolysis (IVT), IVT transfers, and stroke hospitalizations over 4 months at the height of the pandemic (March 1 to June 30, 2020) compared with two control 4-month periods. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Methods:</b></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span>We conducted a cross-sectional, observational, retrospective study across 6 continents, 70 countries, and 457 stroke centers. Diagnoses were identified by their ICD-10 codes and/or classifications in stroke databases. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Results:</b></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span>There were 91,373 stroke admissions in the 4 months immediately before compared to 80,894 admissions during the pandemic months, representing an 11.5% (95%CI, -11.7 to - 11.3, p<0.0001) decline. There were 13,334 IVT therapies in the 4 months preceding compared to 11,570 procedures during the pandemic, representing a 13.2% (95%CI, -13.8 to -12.7, p<0.0001) drop. Interfacility IVT transfers decreased from 1,337 to 1,178, or an 11.9% decrease (95%CI, -13.7 to -10.3, p=0.001). Recovery of stroke hospitalization volume (9.5%, 95%CI 9.2-9.8, p<0.0001) was noted over the two later (May, June) versus the two earlier (March, April) pandemic months. There was a 1.48% stroke rate across 119,967 COVID-19 hospitalizations. SARS-CoV-2 infection was noted in 3.3% (1,722/52,026) of all stroke admissions. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Conclusions: </b></span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span>The COVID-19 pandemic was associated with a global decline in the volume of stroke hospitalizations, IVT, and interfacility IVT transfers. Primary stroke centers and centers with higher COVID19 inpatient volumes experienced steeper declines. Recovery of stroke hospitalization was noted in the later pandemic months.</span></span></span></span></span></span></span></span></span></span></span></p>
ScienceDex guides
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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.