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  1. 11421
    “…We have released the developed paradigm and analysis pipeline as open-source software to facilitate replication studies.…”
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    Earliest amyloid and tau deposition modulate the influence of limbic networks during closed-loop hippocampal downregulation
  2. 11422
    “…We also developed an open-source Web application to allow users to seamlessly search, browse, explore, and download CGT data. …”
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    Blockchain-Authenticated Sharing of Genomic and Clinical Outcomes Data of Patients With Cancer: A Prospective Cohort Study
  3. 11423
    “…It can detect chromosome-level segmental aneuploidies and high-confidence focal alterations, even from low-coverage data. CNAtra is an open-source software implemented in MATLAB(®). It is freely available at https://github.com/AISKhalil/CNAtra.…”
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    Hierarchical discovery of large-scale and focal copy number alterations in low-coverage cancer genomes
  4. 11424
    “…Online social network megatrends such as GitHub, CGM in the Cloud, and Twitter have been providing platforms to share these open source technologies and user experiences. Observational studies, anecdotal evidence, and real-world patient stories revealed significant improvements in time in range (TIR), time in hypoglycemia (TIHypo), HbA1c levels, and QoL after the initiation of DIYAPS. …”
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    The Do-It-Yourself Artificial Pancreas: A Comprehensive Review
  5. 11425
    “…We present concrete technical implementations of our approach using HL7 FHIR and IHE BPPC which are also compatible with the open-source consent management software gICS. CONCLUSIONS: The proposed digital representation is (1) generic enough to capture relevant information from a wide range of consent documents and data use regulations and (2) interoperable with common technical standards. …”
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    Towards a comprehensive and interoperable representation of consent-based data usage permissions in the German medical informatics initiative
  6. 11426
    “…We estimated shortest routes from every household in the District to the nearest primary health care center (PHC) and community health site (CHS) with the Open Source Routing Machine (OSMR) tool. Then, we used remote sensing methods to obtain a high resolution land cover map, a digital elevation model and rainfall data to model travel speed. …”
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    Improving geographical accessibility modeling for operational use by local health actors
  7. 11427
    “…Both the cloud-based hosting infrastructure and the data-loading pipeline are available to the community as open source software with comprehensive documentation.…”
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    Enabling Agile Clinical and Translational Data Warehousing: Platform Development and Evaluation
  8. 11428
    “…CONCLUSION: ReceptLoss is a novel, open-source software tool to systematically identify NHR expression loss in cancer. …”
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    Identification of a novel subgroup of endometrial cancer patients with loss of thyroid hormone receptor beta expression and improved survival
  9. 11429
    “…CONCLUSIONS: Taken together, we developed a freely-available and open-source tool LinDeconSeq (https://github.com/lihuamei/LinDeconSeq), which includes marker identification and deconvolution procedures. …”
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    A deconvolution method and its application in analyzing the cellular fractions in acute myeloid leukemia samples
  10. 11430
    “…Here we report the development of a semi-automated image analysis plug-in, MarrowQuant, which employs the open-source software QuPath, to systematically quantify multiple bone components in H&E sections in an unbiased manner. …”
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    MarrowQuant Across Aging and Aplasia: A Digital Pathology Workflow for Quantification of Bone Marrow Compartments in Histological Sections
  11. 11431
    “…Radiomics features were calculated using open-source CERR software. Univariate analysis and multivariate modeling were performed to identify significant radiomics features and clinical factors to be included in a machine learning model to differentiate malignant from benign lesions. …”
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    Improved characterization of sub-centimeter enhancing breast masses on MRI with radiomics and machine learning in BRCA mutation carriers
  12. 11432
    por Zhu, Tiansheng, Zhu, Yi, Xuan, Yue, Gao, Huanhuan, Cai, Xue, Piersma, Sander R., Pham, Thang V., Schelfhorst, Tim, Haas, Richard R.G.D., Bijnsdorp, Irene V., Sun, Rui, Yue, Liang, Ruan, Guan, Zhang, Qiushi, Hu, Mo, Zhou, Yue, Van Houdt, Winan J., Le Large, Tessa Y.S., Cloos, Jacqueline, Wojtuszkiewicz, Anna, Koppers-Lalic, Danijela, Böttger, Franziska, Scheepbouwer, Chantal, Brakenhoff, Ruud H., van Leenders, Geert J.L.H., Ijzermans, Jan N.M., Martens, John W.M., Steenbergen, Renske D.M., Grieken, Nicole C., Selvarajan, Sathiyamoorthy, Mantoo, Sangeeta, Lee, Sze S., Yeow, Serene J.Y., Alkaff, Syed M.F., Xiang, Nan, Sun, Yaoting, Yi, Xiao, Dai, Shaozheng, Liu, Wei, Lu, Tian, Wu, Zhicheng, Liang, Xiao, Wang, Man, Shao, Yingkuan, Zheng, Xi, Xu, Kailun, Yang, Qin, Meng, Yifan, Lu, Cong, Zhu, Jiang, Zheng, Jin'e, Wang, Bo, Lou, Sai, Dai, Yibei, Xu, Chao, Yu, Chenhuan, Ying, Huazhong, Lim, Tony K., Wu, Jianmin, Gao, Xiaofei, Luan, Zhongzhi, Teng, Xiaodong, Wu, Peng, Huang, Shi'ang, Tao, Zhihua, Iyer, Narayanan G., Zhou, Shuigeng, Shao, Wenguang, Lam, Henry, Ma, Ding, Ji, Jiafu, Kon, Oi L., Zheng, Shu, Aebersold, Ruedi, Jimenez, Connie R., Guo, Tiannan
    Publicado 2020
    “…To build the spectral resource, we integrated common open-source MS computational tools to assemble a freely accessible computational workflow based on Docker. …”
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    DPHL: A DIA Pan-human Protein Mass Spectrometry Library for Robust Biomarker Discovery
  13. 11433
    “…With the availability of open-source libraries and reliable performance, this creates significant opportunities for the transformation of radiation treatment planning.…”
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    Evaluation of Deep Learning to Augment Image-Guided Radiotherapy for Head and Neck and Prostate Cancers
  14. 11434
    “…GTV radiomics features were extracted using the open‐source Ontology‐Guided Radiomics Analysis Workflow (O‐RAW). …”
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    FAIR‐compliant clinical, radiomics and DICOM metadata of RIDER, interobserver, Lung1 and head‐Neck1 TCIA collections
  15. 11435
    “…RESULTS: Here we present an easy-to-use, fully automated, computational pipeline (Automated Isoform Diversity Detector, AIDD) that contains open source tools for various tasks needed to map transcriptome diversity, including RNA editing events. …”
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    Automated Isoform Diversity Detector (AIDD): a pipeline for investigating transcriptome diversity of RNA-seq data
  16. 11436
    “…Our vision is to leverage HIT tools for a better health system that includes digitalized, open source, evidence-based, and transparent ways for collaboration and development of robust mechanisms and for sharing of synthesized evidence with knowledge user–friendly forms. …”
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    Perspectives and Experiences of Policy Makers, Researchers, Health Information Technology Professionals, and the Public on Evidence-Based Health Policies: Protocol for a Qualitative Study
  17. 11437
    “…CT-based radiomic features were extracted using an open-source software with 3D nodular volume segmentation manually. …”
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    A comparative study to evaluate CT-based semantic and radiomic features in preoperative diagnosis of invasive pulmonary adenocarcinomas manifesting as subsolid nodules
  18. 11438
    “…The executable program LightCUD was released in open source with instructions at the webpage http://cqb.pku.edu.cn/ZhuLab/LightCUD/. …”
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    LightCUD: a program for diagnosing IBD based on human gut microbiome data
  19. 11439
    “…However, there are concerns about the viability and safety in deploying this localized download, print, and wear strategy due to a lack of commensurate quality assurance processes. Many open-source respirator designs for AM indicate that they do not provide N95-equivalent protection (filtering 95% of SARS-CoV-2 particles) because they have either not passed aerosol generation tests or not been tested. …”
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    Additively manufactured respirators: quantifying particle transmission and identifying system-level challenges for improving filtration efficiency
  20. 11440
    por Menke, H. P., Maes, J., Geiger, S.
    Publicado 2021
    “…All numerical simulations were performed using GeoChemFoam, our in-house open source pore-scale simulator based on OpenFOAM. …”
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    Upscaling the porosity–permeability relationship of a microporous carbonate for Darcy-scale flow with machine learning
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