Dataset Open Access

Supplementary data and scripts for "An Atlas of Human Metabolism"

Robinson, Jonathan L.; Kocabaş, Pınar; Wang, Hao; Cholley, Pierre-Etienne; Cook, Daniel; Nilsson, Avlant; Anton, Mihail; Ferreira, Raphael; Domenzain, Iván; Billa, Virinchi; Limeta, Angelo; Hedin, Alex; Gustafsson, Johan; Kerkhoven, Eduard J.; Svensson, L. Thomas; Palsson, Bernhard O.; Mardinoglu, Adil; Hansson, Lena; Uhlén, Mathias; Nielsen, Jens


JSON Export

{
  "files": [
    {
      "links": {
        "self": "https://zenodo.org/api/files/4eb3906c-9c0b-4d35-9497-c8aa6d7f19c2/Human1_Publication_Data_Scripts.zip"
      }, 
      "checksum": "md5:0979f5571380c1ddcc754aa759e652fe", 
      "bucket": "4eb3906c-9c0b-4d35-9497-c8aa6d7f19c2", 
      "key": "Human1_Publication_Data_Scripts.zip", 
      "type": "zip", 
      "size": 1610287142
    }
  ], 
  "owners": [
    85665
  ], 
  "doi": "10.5281/zenodo.3583004", 
  "stats": {
    "version_unique_downloads": 20.0, 
    "unique_views": 73.0, 
    "views": 78.0, 
    "version_views": 105.0, 
    "unique_downloads": 19.0, 
    "version_unique_views": 89.0, 
    "volume": 35426317124.0, 
    "version_downloads": 24.0, 
    "downloads": 22.0, 
    "version_volume": 38646900547.0
  }, 
  "links": {
    "doi": "https://doi.org/10.5281/zenodo.3583004", 
    "conceptdoi": "https://doi.org/10.5281/zenodo.3577466", 
    "bucket": "https://zenodo.org/api/files/4eb3906c-9c0b-4d35-9497-c8aa6d7f19c2", 
    "conceptbadge": "https://zenodo.org/badge/doi/10.5281/zenodo.3577466.svg", 
    "html": "https://zenodo.org/record/3583004", 
    "latest_html": "https://zenodo.org/record/3583004", 
    "badge": "https://zenodo.org/badge/doi/10.5281/zenodo.3583004.svg", 
    "latest": "https://zenodo.org/api/records/3583004"
  }, 
  "conceptdoi": "10.5281/zenodo.3577466", 
  "created": "2019-12-18T15:01:20.279001+00:00", 
  "updated": "2020-03-26T10:04:46.405269+00:00", 
  "conceptrecid": "3577466", 
  "revision": 5, 
  "id": 3583004, 
  "metadata": {
    "access_right_category": "success", 
    "doi": "10.5281/zenodo.3583004", 
    "description": "<p>This repository contains the models, data, and scripts associated with the publication &quot;An Atlas of Human Metabolism&quot;.</p>\n\n<p>The content is divided into three main directories, each containing their own README file containing instructions.</p>\n\n<ol>\n\t<li>tINIT_GEMs - Contains the genome-scale metabolic models (GEMs) generated in the study using the tINIT algorithm, as well as many scripts and datasets necessary to reproduce model generation, analyses, and figures.</li>\n\t<li>ec_GEMs - Contains the enzyme-constrained models (ecGEMs) generated in the study using the GECKO framework, as well as many scripts and datasets necessary to reproduce model generation, analyses, and figures.</li>\n\t<li>GEM_PRO - Contains the GEM-PRO dataframe with the protein structure information associated with the Human1 model.</li>\n</ol>", 
    "language": "eng", 
    "title": "Supplementary data and scripts for \"An Atlas of Human Metabolism\"", 
    "license": {
      "id": "CC-BY-4.0"
    }, 
    "relations": {
      "version": [
        {
          "count": 3, 
          "index": 2, 
          "parent": {
            "pid_type": "recid", 
            "pid_value": "3577466"
          }, 
          "is_last": true, 
          "last_child": {
            "pid_type": "recid", 
            "pid_value": "3583004"
          }
        }
      ]
    }, 
    "grants": [
      {
        "code": "5F32CA220848-02", 
        "links": {
          "self": "https://zenodo.org/api/grants/10.13039/100000002::5F32CA220848-02"
        }, 
        "title": "Deciphering the coupled roles of protein secretion and metabolism in cancer using an integrative omics approach", 
        "acronym": "", 
        "program": "NATIONAL CANCER INSTITUTE", 
        "funder": {
          "doi": "10.13039/100000002", 
          "acronyms": [], 
          "name": "National Institutes of Health", 
          "links": {
            "self": "https://zenodo.org/api/funders/10.13039/100000002"
          }
        }
      }
    ], 
    "keywords": [
      "genome-scale metabolic model", 
      "systems biology", 
      "human metabolism"
    ], 
    "publication_date": "2019-12-16", 
    "creators": [
      {
        "orcid": "0000-0001-8567-5960", 
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Robinson, Jonathan L."
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Kocaba\u015f, P\u0131nar"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Wang, Hao"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Cholley, Pierre-Etienne"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Cook, Daniel"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Nilsson, Avlant"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Anton, Mihail"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Ferreira, Raphael"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Domenzain, Iv\u00e1n"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Billa, Virinchi"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Limeta, Angelo"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Hedin, Alex"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Gustafsson, Johan"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Kerkhoven, Eduard J."
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Svensson, L. Thomas"
      }, 
      {
        "affiliation": "Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA", 
        "name": "Palsson, Bernhard O."
      }, 
      {
        "affiliation": "Department of Protein Science, Science for Life Laboratory, KTH\u2013Royal Institute of Technology, Stockholm, Sweden", 
        "name": "Mardinoglu, Adil"
      }, 
      {
        "affiliation": "Novo Nordisk Research Centre Oxford, Oxford, UK", 
        "name": "Hansson, Lena"
      }, 
      {
        "affiliation": "Department of Protein Science, Science for Life Laboratory, KTH\u2013Royal Institute of Technology, Stockholm, Sweden", 
        "name": "Uhl\u00e9n, Mathias"
      }, 
      {
        "affiliation": "Department of Biology and Biological Engineering, Chalmers University of Technology, Kemiv\u00e4gen 10, Gothenburg, Sweden", 
        "name": "Nielsen, Jens"
      }
    ], 
    "access_right": "open", 
    "resource_type": {
      "type": "dataset", 
      "title": "Dataset"
    }, 
    "related_identifiers": [
      {
        "scheme": "doi", 
        "identifier": "10.5281/zenodo.3577466", 
        "relation": "isVersionOf"
      }
    ]
  }
}
105
24
views
downloads
All versions This version
Views 10578
Downloads 2422
Data volume 38.6 GB35.4 GB
Unique views 8973
Unique downloads 2019

Share

Cite as