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opencc-by-4.0Aug 2021View details →

Visual-Evoked Potential (VEP) Event-Related Files from the General Anesthesia and Brain Activity (GABA) Study and Infant Sibling Project (ISP)

HAPPE+ER software was optimized for developmental data using a subset of EEG files from 4-month and 10-month old infants in the General Anesthesia and Brain Activity (GABA) Study. While medically necessary, 1-2 million infants each year undergo general anesthesia – a process that sedates brain activity and impacts early sensory experiences during a time typically characterized by rapid neurocognitive development. The GABA study examines sensory and socioemotional neurodevelopment longitudinally from infancy through childhood in individuals who have and who have never undergone general anesthesia during different windows in the first year of life. The GABA study was carried out in accordance with the recommendations of the Institutional Review Board at Boston Children’s Hospital. All caregivers provided assent for their child’s participation in the GABA study and for the release of the deidentified data.  To facilitate the use and understanding of HAPPE+ER software, we have provided a subset of the validation files from the GABA study to serve as a tutorial dataset for how to run event-related potential (ERP) data through this automated processing pipeline. Five files (a.raw - e.raw) are from four 4-month and one 10-month old infants during a pattern reversal visual-evoked potential (VEP) paradigm. Pattern reversal occurred every 500 milliseconds. The pattern stimulus onset is indicated in each file by the code: vep+. Data was collected using a 128-channel EGI HydroCel Geodesic Sensor Net and EGI Net Amps 400, sampled at 1000Hz with an online reference to channel CZ.  We have also included a subset of files from the Infant Sibling Project (ISP), an investigation examining infants at high versus low familial risk for autism spectrum disorder over the first 3 years of life. Baseline EEG data was collected while a young child sat in a parent’s lap watching a research assistant blow bubbles or show toys for several minutes. The Infant Sibling Project was carried out in accordance with the recommendations of the Institutional Review Board at Boston University and Boston Children’s Hospital (#X06-08-0374), with written informed consent from all caregivers prior to their child’s participation in the study.  All files here have been deidentified, including alteration of exact acquisition dates.  Acquisition times have not been altered. For additional information about data collection paradigms, and sample studies published on the larger ISP data set, please see the following references: <ol> <li>Levin, A. R., Varcin, K. J., O’Leary, H. M., Tager-Flusberg, H., and Nelson, C. A. (2017). EEG power at 3 months in infants at high familial risk for autism. J. Neurodev. Disord. 9, 1–13.</li> <li>Gabard-Durnam, L.J., Wilkinson, C., Kapur, K. et al. Longitudinal EEG power in the first postnatal year differentiates autism outcomes. Nat Commun 10, 4188 (2019). <a href="https://doi.org/10.1038/s41467-019-12202-9">https://doi.org/10.1038/s41467-019-12202-9</a></li> </ol> Here we provide a subset of the full dataset with a simulated VEP signal added into the data, as example files for HAPPE+ER. To create these files, we selected a subset of 39 spatially-distributed channels in the baseline EEG files and created sixteen 30-second files using continuous segments of relatively artifact-free (clean) baseline data from the full-length files. Next, from 30-second sections of the same individuals’ EEG that were artifact-laden, we ran ICA and extracted artifact independent components (identified by an expert and labeled artifact by both ICLabel and MARA automated algorithms). We inserted the artifact ICs into that individual’s clean 30-second data segment to create an additional 16 artifact-added files. We then selected a channel from a simulated VEP dataset (included here as simulated_full.set) with a stereotyped and prominent simulated VEP waveform, in this case Oz, and added its timeseries (included here as simulated_singleChan.set) to each channel of the clean and artifact-added files to create two VEP datasets with a known ERP morphology (sim-artifact_a-p and sim-clean_a-p). For additional information about the creation of this simulated data and VEP data with a known ERP morphology, please refer to Monachino et al., in revision; DOI: https://doi.org/10.1101/2021.07.02.450946. Additional files included below are the HAPPE+ER data and pipeline quality metric output spreadsheets for the five GABA study data files for an example run, the output spreadsheet containing the ERP timeseries from the generateERPs script, the .mat file containing the parameter settings for HAPPE+ER for that run, an Excel file with the bad channels for each file, and a tutorial document illustrating the results of this example run.

Supplementary file 30 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 30: Proportion of participants on methylphenidate with asthenia and fatigue

Supplementary file 37 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 37: Proportion of participants on methylphenidate with restlessness and agitation

Supplementary file 66 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 66: Proportion of participants on methylphenidate with gastrointestinal adverse events

Supplementary file 55 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 55: Proportion of participants on methylphenidate with upper respiratory tract infection

Supplementary file 11 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 11: Proportion of participants on methylphenidate with respiratory, thoracic and mediastinal disorders

Supplementary file 22 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 22: Proportion of participants on methylphenidate with difficulty falling asleep

Supplementary file 33 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 33: Proportion of participants on methylphenidate with involuntary movements

Supplementary file 41 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 41: Proportion of participants on methylphenidate with taciturnity (‘talking too little’)

Supplementary file 32 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 32 Proportion of participants on methylphenidate with increased need to sleep

Supplementary file 44 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 44: Proportion of participants on methylphenidate with ’zombie-like’ demeanour

Supplementary file 43 in Methylphenidate for attention deficit hyperactivity disorder (ADHD) in children and adolescents - assessment of possible adverse events in non-randomised studies

Supplementary file 43: Proportion of participants on methylphenidate with isolation and lack of interest in others

opencc-by-4.0Jul 2022View details →

Dissemination of information in event-based surveillance, a case study of Avian Influenza - dataset

This dataset contains a set of tables corresponding to the manual analysis of outbreak-related reports detected by two event-based surveillance tools, PADI-web and HealthMap, supporting the submitted article "Dissemination of information in event-based surveillance, a case study of Avian Influenza". The reports were published between 1 July 2018 and 30st June 2019 and described one or several avian influenza outbreaks.  We collected 337 reports from PADI-web and 115 from HealthMap. Two epidemiologists identified all the reported events in the news, and classified them as official (notified to the World Organization for Animal Health) or non-official. In order to trace back the source of the event’s information, the epidemiologist manually traced the information pathway of all events mentioned in the PADI-web and HealthMap news. The pathway was deducted from the sources cited in the news. When a source was cited with a hyperlink, we followed the hyperlink to retrace the information pathway as far as possible to the primary source. For each cited source, we created a pair of emitter SE and receptor sources SR. We labelled each new source with its type (e.g. online news source, national veterinary authority, etc.). We also recorded their geographical focus (local, national or international) and their specialization in the animal health news coverage (general or specialized). The script for data analyses is available at https://github.com/SarahVal/EBS-network.

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High resolution precipitation event data from a tipping bucket gauge near former Jornada Basin LTER Biodiversity study site, 1996-ongoing

This data package contains high temporal resolution values from a tipping bucket rain gauge during rain events near the former Biodiversity study site at the Jornada Basin LTER in southern New Mexico, USA. Data collection at the Biodiversity site began in 1996 and is now complete. Data collection from the tipping bucket rain gauge near this site commenced in April 1996. The data file included here reports 1-second (1997-2016) or 1-minute (2016-present) frequency precipitation data, in millimeters, from this rain gauge during precipitation events. There are no data records for rain amounts less than 0.1 mm. Data collection from this tipping bucket rain gauge is ongoing and collected on a monthly basis (data package may be updated less frequently).

openCC (other)Oct 2019View details →

Fig. 29 in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 29. Current distribution of Streblopus van Lansberge, 1874 and the Old World groups with which it is believed to be more closely related plotted on an Upper Cretaceous palaeomap (~ 80 million years ago). Based particularly on the hypothesis in Tarasov & Génier (2015) that Streblopus is part of a clade otherwise composed uniquely of dung beetle lineages either exclusively distributed in Africa (Circellium, Chalconotus and Gyronotus) or with a distribution largely centred on that continent (Scarabaeini), and on the dating of the origin of the Scarabaeini as 71 million years ago (Gunter et al. 2016), we propose that the lineage that would eventually lead to Streblopus branched off from those groups in Africa some time between 95 and 71 million years ago, and that one of its descendent lineages (the only one living today) dispersed from its original continent to South America during the late Upper Cretaceous or the early Cenozoic. Since Africa and South America have not been connected by land since the Lower Cretaceous, the only way the ancestor of Streblopus could have reached South America was through transoceanic dispersal across the early South Atlantic. That dispersal probably happened by rafting on floating pieces of plants or other debris, as probably occurred with a large number of other organisms. Palaeomap modified from Scotese (2016); distribution area based on Balthasar (1963), Scholtz & Howden (1987), Davis et al. (2008) and our own results.

Fig. 14. Profemora. A‒B. Streblopus opatroides van Lansberge, 1874. A in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 14. Profemora. A‒B. Streblopus opatroides van Lansberge, 1874. A. ♂. B. ♀. C‒D. S. punctatus (Balthasar, 1938). C. ♂. D. ♀. Note the differences between the species and sexes in relation to the overall shape of the profemora and the presence of spurs on the anterior edge in males.

Fig. 12. Pronotum. A. Streblopus opatroides van Lansberge, 1874. B. S in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 12. Pronotum. A. Streblopus opatroides van Lansberge, 1874. B. S. punctatus (Balthasar, 1938). Note the differences in the umbilicate punctation and colour between the species.

Fig. 1. Streblopus opatroides van Lansberge, 1874. A‒B. Ordinary specimens, dorsal view. A in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 1. Streblopus opatroides van Lansberge, 1874. A‒B. Ordinary specimens, dorsal view. A. ♂. B. ♀. C‒D. Lectotype, ♂. C. Dorsal view. D. Attached labels.

Fig. 3 in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 3. Streblopus punctatus (Balthasar, 1938). A‒B. Holotype, ♀. A. Dorsal view. B. Attached labels. C‒D. Ordinary specimens, dorsal view. C. ♂. D. ♀.