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  1. 11401
    “…The changes to MetFrag were evaluated on the original dataset as well as a dataset of 473 merged high resolution tandem mass spectra (HR-MS/MS) and compared with another open source in silico fragmenter, CFM-ID. Using HR-MS/MS information only, MetFrag2.2 and CFM-ID had 30 and 43 Top 1 ranks, respectively, using PubChem as a database. …”
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    MetFrag relaunched: incorporating strategies beyond in silico fragmentation
  2. 11402
    “…The method described in this article has been implemented into ARX, an open source de-identification software for biomedical data.…”
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    Efficient and effective pruning strategies for health data de-identification
  3. 11403
    “…Sequencing data were blindly analyzed with two methods: (1) Subchromosomal changes were called using an open source algorithm WISECONDOR (WIthin-SamplE COpy Number aberration DetectOR). …”
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    Abnormal plasma DNA profiles in early ovarian cancer using a non-invasive prenatal testing platform: implications for cancer screening
  4. 11404
    “…Manual segmentation for volumetric analyses was performed using the open source software 3D Slicer version 4.2.2.3 (www.slicer.org). …”
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    Fully Automated Enhanced Tumor Compartmentalization: Man vs. Machine Reloaded
  5. 11405
    “…This first time application of CIV to tMR image analysis is implemented using an existing open source Matlab-based software called UVMAT. The method, which requires two main input parameters namely correlation box size (C (B)) and search box size (S (B)), is first validated using a synthetic grid image with grid sizes representative of typical tMR images. …”
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    Estimation of myocardial deformation using correlation image velocimetry
  6. 11406
    “…METHODS: We built the educational visualization tool on the open source Weave software platform. We designed the tool as the centerpiece of a multimodal and intergenerational educational intervention about the health risk of traffic-related air pollution. …”
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    Making Air Pollution Visible: A Tool for Promoting Environmental Health Literacy
  7. 11407
    “…Unique fragmentation libraries, compared to other open source software, include oxidized lipids, bile acids, sphingosines, and previously uncharacterized adducts, including ammoniated cardiolipins. …”
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    LipidMatch: an automated workflow for rule-based lipid identification using untargeted high-resolution tandem mass spectrometry data
  8. 11408
    “…RESULTS: DiaFit (version 1.0) is an open-source, inclusive iOS app that incorporates nutrition data, physical activity data, and medication and glucose values, as well as patient-reported outcomes. …”
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    DiaFit: The Development of a Smart App for Patients with Type 2 Diabetes and Obesity
  9. 11409
    “…For this reason, these data are increasingly collected in large (> 100 participants) cohorts, thereby driving a need for the development of user-friendly and open-source methods/tools for their integration. Of note, clinical/translational studies typically provide snapshot (e.g. one time point) gene and metabolite profiles and, oftentimes, most metabolites measured are not identified. …”
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    IntLIM: integration using linear models of metabolomics and gene expression data
  10. 11410
    por Geaghan, Michael, Cairns, Murray
    Publicado 2018
    “…Raw reads were aligned to the human genome (hg38), annotated, counted and analysed for differential expression using an open source software pipeline. Correlations between miRNA and mRNA expression were found and matched to predicted TargetScan miRNA-mRNA interactions using the miRComb R package. …”
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    S194. INVESTIGATING PERIPHERAL MICRORNA-MRNA INTERACTIONS IN SCHIZOPHRENIA
  11. 11411
    “…Collectively, the gForce app and iPhone platform have the potential to serve as feature-rich, inexpensive, scalable, and open-source tool for assessment of kinematic risky driving events, with potential for research and feedback forms of intervention.…”
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    Measuring Risky Driving Behavior Using an mHealth Smartphone App: Development and Evaluation of gForce
  12. 11412
    “…CONCLUSION: Tumor bone burden calculation is feasible with (18)F-FCH PET/CT with freely available open-source software. In this pilot study, baseline (18)F-FCH PET/CT markers (TLA, MBTV) have shown abilities to predict Hb and PLT toxicity after (223)Ra therapy and could be explored for patient selection and treatment optimization.…”
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    Fluorine-18-fluorocholine PET/CT parameters predictive for hematological toxicity to radium-223 therapy in castrate-resistant prostate cancer patients with bone metastases: a pilot study
  13. 11413
    “…With the advent of next generation sequencing technology, whole-genome sequencing (WGS) has been widely used for studying TB transmission. However, an open-source software that can connect WGS and MIRU-VNTR typing is currently unavailable, which hinders interlaboratory communication. …”
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    MIRU-profiler: a rapid tool for determination of 24-loci MIRU-VNTR profiles from assembled genomes of Mycobacterium tuberculosis
  14. 11414
    “…The collected data will be made available to the public in an open-source data portal. METHODS: Our study will gather data from two sources. …”
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    A recommender system to quit smoking with mobile motivational messages: study protocol for a randomized controlled trial
  15. 11415
    “…METHODS: We analyzed 36,390 patients from the open source Medical Information Mart for Intensive Care III (MIMIC III) dataset. …”
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    Multimorbidity states associated with higher mortality rates in organ dysfunction and sepsis: a data-driven analysis in critical care
  16. 11416
    “…MRI data were retrieved from the hospital database and manual segmentation of the diaphragm was performed with the open‐source software, ITK‐SNAP. The resulting 3D models of the fetal diaphragm and its defect(s) were validated by postmortem MRI segmentation and/or comparison of 3D model‐based classification of the defect with a reference classification based on autopsy and/or surgery reports. …”
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    Three‐dimensional reconstruction of defects in congenital diaphragmatic hernia: a fetal MRI study
  17. 11417
    “…Typically, quantitative cilia analysis is done manually, which is very time-consuming. While some open-source and commercial image analysis software applications can segment input data, they still require the user to optimize many parameters, suffer from user bias, and often lack rigorous performance quality assessment (e.g., false positives and false negatives). …”
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    New software for automated cilia detection in cells (ACDC)
  18. 11418
    por Hylock, Ray Hales, Zeng, Xiaoming
    Publicado 2019
    “…It supports 16 configurations through the manipulation of 4 modes. An open-source, proof-of-concept tool was developed to evaluate the performance of the novel patient block components and system configurations. …”
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    A Blockchain Framework for Patient-Centered Health Records and Exchange (HealthChain): Evaluation and Proof-of-Concept Study
  19. 11419
    “…METHODS/STUDY POPULATION: For this project we used software experts, clinical informatics specialists, and the existing i2b2 open-source software to convert our legacy HOME Cell into a web-client version. …”
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    2286: HOME Cell 2.0. Extending i2b2 to support community health outcome monitoring and evaluation via web-accessible software
  20. 11420
    “…Rapid Least Concern utilises open-source datasets, such as the Global Biodiversity Information Facility (GBIF) and Plants of the World Online (POWO) through a simple web interface. …”
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    Rapid Least Concern: towards automating Red List assessments
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