[
    {
        "id": "data:q0xck-jqk55",
        "collection": "data",
        "collection_id": "q0xck-jqk55",
        "cite_using_url": "https://data.caltech.edu/records/q0xck-jqk55",
        "type": "dataset",
        "title": "Example datasets used to demonstrate the R package tidyproteomics.",
        "author": [
            {
                "family_name": "Chou",
                "given_name": "Tsui-Fen"
            },
            {
                "family_name": "Jones",
                "given_name": "Jeff",
                "orcid": "0000-0002-7142-2222"
            }
        ],
        "abstract": "<p>The analysis presented in this document is use to demo the code for the R package tidyproteomics. The underlying data is based on previously published and publicly available data [1]. Raw data was analyzed using ProteomeDiscoverer 2.5, FragPipe 19.1, and MaxQuant 1.6.10.43 with basic settings for mass tolerance and PTMs. The exported results are provided here.</p><p>Tidyproteomics is a suite of tools designed to facilitate the analysis of proteomics data with a focus on reproducibility and transparency. The project aims to provide a user-friendly platform for proteomics data analysis. To achieve this, tidyproteomics has been developed using open-source software and is available for anyone interested in proteomics analysis. The platform offers a range of analysis tools, including data pre-processing, normalization, visualization, and statistical analysis.<br><br>1. Wang, Feng, Shan Li, Nadia Houerbi, and Tsui-Fen Chou. 2022. \"Temporal Proteomics Reveal Specific Cell Cycle Oncoprotein Downregulation by p97/VCP Inhibition.\" <i>Cell Chemical Biology</i> 29 (3): 517\u201329.e5.</p>",
        "doi": "10.22002/q0xck-jqk55",
        "publisher": "CaltechDATA",
        "publication_date": "2023-04-28"
    },
    {
        "id": "data:ee2yc-fg857",
        "collection": "data",
        "collection_id": "ee2yc-fg857",
        "cite_using_url": "https://data.caltech.edu/records/ee2yc-fg857",
        "type": "dataset",
        "title": "Age-related matrix stiffening epigenetically regulates \u03b1-Klotho expression and compromises chondrocyte integrity",
        "author": [
            {
                "family_name": "Gilmer",
                "given_name": "Gabrielle Grace"
            },
            {
                "family_name": "Jones",
                "given_name": "Jeffrey",
                "orcid": "0000-0002-7142-2222"
            },
            {
                "family_name": "Lomenick",
                "given_name": "Brett",
                "orcid": "0000-0002-5023-9998"
            },
            {
                "family_name": "Chou",
                "given_name": "Tsui-Fen"
            }
        ],
        "abstract": "<p>Matrix stiffening is a quintessential feature of aged tissues. Authors show that an aged (stiff) matrix epigenetically represses the gene encoding the longevity factor, \u03b1-Klotho, resulting in chondrocyte dysfunction, a leading cause of osteoarthritis.</p>",
        "doi": "10.22002/ee2yc-fg857",
        "publisher": "CaltechDATA",
        "publication_date": "2022-11-28"
    }
]