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  "Title": "A Curated RNA-Seq Dataset of MDI-induced Differentiated\nAdipocytes (3T3-L1)",
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  "Year": "2019",
  "Description": "A curated dataset of RNA-Seq samples. The samples are\nMDI-induced pre-phagocytes (3T3-L1) at different time\npoints/stage of differentiation. The package document the data\ncollection, pre-processing and processing. In addition to the\ndocumentation, the package contains the scripts that was used\nto generated the data.",
  "License": "GPL-3",
  "Authors@R": "person(\"Mahmoud\", \"Ahmed\",\nemail = \"mahmoud.s.fahmy@students.kasralainy.edu.eg\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-4377-6541\"))",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:32:53 UTC",
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  "Author": "Mahmoud Ahmed [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-4377-6541>)",
  "Maintainer": "Mahmoud Ahmed <mahmoud.s.fahmy@students.kasralainy.edu.eg>",
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      "title": "Using curatedAdipoRNA",
      "author": "Mahmoud Ahmed",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Introduction",
        "What is curatedAdipoRNA?",
        "What is contained in curatedAdipoRNA?",
        "What is curatedAdipoRNA for?",
        "Installation",
        "Docker image",
        "Generating curatedAdipoRNA",
        "Search strategy & data collection",
        "Pre-processing",
        "1. Downloading data download_fastq",
        "2. Making a genome index make_index",
        "3. Dowinloading annotations get_annotation",
        "4. Aligning reads align_reads",
        "5. Counting features count_features",
        "Quality assessment fastqc",
        "Processing",
        "Making Summarized experiment object make_object",
        "Exploring the adipo_counts object",
        "Summary of the studies in the dataset",
        "Example of using curatedAdipoRNA",
        "Motivation",
        "Filtering low quality samples",
        "Filtering low count genes",
        "Applying differential expression using DESeq2",
        "Next!",
        "Citing the studies in this subset of the data",
        "Citing curatedAdipoRNA",
        "Session Info"
      ],
      "created": "2019-02-04 05:35:59",
      "modified": "2019-04-19 01:47:56",
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