{
  "id": 70144,
  "title": "background domain knowledge",
  "url": "/competitions/human-protein-atlas-image-classification/discussion/70144",
  "author_name": "",
  "post_date": "2018-10-31T07:58:28.183992900Z",
  "votes": 22,
  "comment_count": 5,
  "views": 0,
  "content": "<p>The Human Cell</p>\n\n<p><a href=\"https://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI\">https://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI</a></p>\n\n<p><a href=\"https://www.proteinatlas.org/humancell\">https://www.proteinatlas.org/humancell</a></p>\n\n<p><a href=\"https://www.proteinatlas.org/humancell/organelle\">https://www.proteinatlas.org/humancell/organelle</a></p>\n\n<p><img src=\"http://science.sciencemag.org/content/sci/early/2017/05/10/science.aal3321/F1.large.jpg\" alt=\"enter image description here\"></p>",
  "messages": [
    {
      "id": "413048",
      "postDate": "10/31/2018 07:58:28",
      "content": "<p>The Human Cell</p>\n\n<p><a href=\"https://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI\">https://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI</a></p>\n\n<p><a href=\"https://www.proteinatlas.org/humancell\">https://www.proteinatlas.org/humancell</a></p>\n\n<p><a href=\"https://www.proteinatlas.org/humancell/organelle\">https://www.proteinatlas.org/humancell/organelle</a></p>\n\n<p><img src=\"http://science.sciencemag.org/content/sci/early/2017/05/10/science.aal3321/F1.large.jpg\" alt=\"enter image description here\"></p>",
      "rawMarkdown": "The Human Cell\n\nhttps://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI\n\n\nhttps://www.proteinatlas.org/humancell\n\nhttps://www.proteinatlas.org/humancell/organelle\n\n\n  ![enter image description here][1]\n\n\n  [1]: http://science.sciencemag.org/content/sci/early/2017/05/10/science.aal3321/F1.large.jpg",
      "votes": null
    },
    {
      "id": "413071",
      "postDate": "10/31/2018 08:30:40",
      "content": "<p><a href=\"https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/\">https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/</a></p>\n\n<p>\"Combining the annotations of gamers and deep learning, we applied transfer learning to create a boosted learner that can characterize subcellular protein distribution with F1 score of 0.72\"</p>\n\n<p><a href=\"https://www.nature.com/articles/nbt.4225\">https://www.nature.com/articles/nbt.4225</a></p>\n\n<p>Project Discovery Tutorial : how to manual label</p>\n\n<p><a href=\"https://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas\">https://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas</a></p>\n\n<p><a href=\"https://www.youtube.com/watch?v=MdbmJrXogUA\">https://www.youtube.com/watch?v=MdbmJrXogUA</a></p>\n\n<p><a href=\"https://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992\">https://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992</a></p>\n\n<hr>\n\n<p><img src=\"https://storage.googleapis.com/kaggle-forum-message-attachments/inbox/113660/06e1ec951cb55e1919656f8fc9003da1/results.png\" alt=\"enter image description here\"></p>\n\n<p><a href=\"https://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw\">https://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw</a></p>\n\n<p><a href=\"https://github.com/CellProfiling/Loc-CAT\">https://github.com/CellProfiling/Loc-CAT</a></p>",
      "rawMarkdown": "https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/\n\n\n\"Combining the annotations of gamers and deep learning, we applied transfer learning to create a boosted learner that can characterize subcellular protein distribution with F1 score of 0.72\"\n\nhttps://www.nature.com/articles/nbt.4225\n\n\nProject Discovery Tutorial : how to manual label\n\nhttps://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas\n\nhttps://www.youtube.com/watch?v=MdbmJrXogUA\n\nhttps://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992\n\n----\n\n ![enter image description here][1]\n\nhttps://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw\n\nhttps://github.com/CellProfiling/Loc-CAT\n\n\n  [1]: https://storage.googleapis.com/kaggle-forum-message-attachments/inbox/113660/06e1ec951cb55e1919656f8fc9003da1/results.png",
      "votes": null
    },
    {
      "id": "413087",
      "postDate": "10/31/2018 08:57:16",
      "content": "<p><a href=\"https://www.allencell.org/\">https://www.allencell.org/</a></p>",
      "rawMarkdown": "https://www.allencell.org/",
      "votes": null
    },
    {
      "id": "413271",
      "postDate": "10/31/2018 15:55:27",
      "content": "<p>I'm not taking part in this competition(yet) but I'm curious. Does successful image classification vary with the type of fluorescence tag used? </p>",
      "rawMarkdown": "I'm not taking part in this competition(yet) but I'm curious. Does successful image classification vary with the type of fluorescence tag used?",
      "votes": null
    },
    {
      "id": "414530",
      "postDate": "11/02/2018 23:28:30",
      "content": "<p><a href=\"https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html\">https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html</a></p>\n\n<p>Figure 2 illustrates differences in nuclear staining patterns. The eight different proteins localize into nucleus, nucleoli or nuclear membrane and show varying staining characteristics such as smooth, granular, speckled and clusters of spots.</p>\n\n<p><a href=\"https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif\">https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif</a>  </p>\n\n<p>Figure 2: Diversity of nuclear staining patterns shown by eight different antibodies in cell line U2-OS or A-431. A) Smooth nuclear staining by anti-MECP2 (HPA000593) , B) nuclear staining without nucleoli by anti-RBM14 (HPA006628) , C) nucleoli staining by anti-ZSCAN1 (HPA007938) , D) cluster staining within nucleoli by anti-MUC4 (HPA005895) , E) nuclear membrane staining by anti-UNC84B (HPA001209), F) nuclear granular staining by anti-BCLAF1 (HPA006669) G) nuclear speckeled staining by anti-RBM25 (HPA003025) , H) nuclear body (SMN) staining by anti-DDX20 (HPA005516) .</p>",
      "rawMarkdown": "https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html\n\n\nFigure 2 illustrates differences in nuclear staining patterns. The eight different proteins localize into nucleus, nucleoli or nuclear membrane and show varying staining characteristics such as smooth, granular, speckled and clusters of spots.\n\n https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif  \n\nFigure 2: Diversity of nuclear staining patterns shown by eight different antibodies in cell line U2-OS or A-431. A) Smooth nuclear staining by anti-MECP2 (HPA000593) , B) nuclear staining without nucleoli by anti-RBM14 (HPA006628) , C) nucleoli staining by anti-ZSCAN1 (HPA007938) , D) cluster staining within nucleoli by anti-MUC4 (HPA005895) , E) nuclear membrane staining by anti-UNC84B (HPA001209), F) nuclear granular staining by anti-BCLAF1 (HPA006669) G) nuclear speckeled staining by anti-RBM25 (HPA003025) , H) nuclear body (SMN) staining by anti-DDX20 (HPA005516) .",
      "votes": null
    },
    {
      "id": "414538",
      "postDate": "11/02/2018 23:38:40",
      "content": "<p>see :  <a href=\"http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100\">http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100</a></p>\n\n<p>e.g  <a href=\"http://cellimagelibrary.org/images/41685\">http://cellimagelibrary.org/images/41685</a></p>\n\n<p><a href=\"https://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg\">https://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg</a></p>\n\n<p>Cellular Component\nplasma membrane\nnucleolus\nnucleus\nmicrotubule cytoskeleton</p>",
      "rawMarkdown": "see :  http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100\n\ne.g  http://cellimagelibrary.org/images/41685\n\nhttps://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg\n\nCellular Component\nplasma membrane\nnucleolus\nnucleus\nmicrotubule cytoskeleton",
      "votes": null
    }
  ],
  "comments": [
    {
      "id": 413071,
      "author_name": "hengck23",
      "author_url": "",
      "post_date": "10/31/2018 08:30:40",
      "content": "<p><a href=\"https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/\">https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/</a></p>\n\n<p>\"Combining the annotations of gamers and deep learning, we applied transfer learning to create a boosted learner that can characterize subcellular protein distribution with F1 score of 0.72\"</p>\n\n<p><a href=\"https://www.nature.com/articles/nbt.4225\">https://www.nature.com/articles/nbt.4225</a></p>\n\n<p>Project Discovery Tutorial : how to manual label</p>\n\n<p><a href=\"https://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas\">https://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas</a></p>\n\n<p><a href=\"https://www.youtube.com/watch?v=MdbmJrXogUA\">https://www.youtube.com/watch?v=MdbmJrXogUA</a></p>\n\n<p><a href=\"https://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992\">https://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992</a></p>\n\n<hr>\n\n<p><img src=\"https://storage.googleapis.com/kaggle-forum-message-attachments/inbox/113660/06e1ec951cb55e1919656f8fc9003da1/results.png\" alt=\"enter image description here\"></p>\n\n<p><a href=\"https://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw\">https://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw</a></p>\n\n<p><a href=\"https://github.com/CellProfiling/Loc-CAT\">https://github.com/CellProfiling/Loc-CAT</a></p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 413087,
      "author_name": "hengck23",
      "author_url": "",
      "post_date": "10/31/2018 08:57:16",
      "content": "<p><a href=\"https://www.allencell.org/\">https://www.allencell.org/</a></p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 413271,
      "author_name": "gonnel",
      "author_url": "",
      "post_date": "10/31/2018 15:55:27",
      "content": "<p>I'm not taking part in this competition(yet) but I'm curious. Does successful image classification vary with the type of fluorescence tag used? </p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 414530,
      "author_name": "hengck23",
      "author_url": "",
      "post_date": "11/02/2018 23:28:30",
      "content": "<p><a href=\"https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html\">https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html</a></p>\n\n<p>Figure 2 illustrates differences in nuclear staining patterns. The eight different proteins localize into nucleus, nucleoli or nuclear membrane and show varying staining characteristics such as smooth, granular, speckled and clusters of spots.</p>\n\n<p><a href=\"https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif\">https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif</a>  </p>\n\n<p>Figure 2: Diversity of nuclear staining patterns shown by eight different antibodies in cell line U2-OS or A-431. A) Smooth nuclear staining by anti-MECP2 (HPA000593) , B) nuclear staining without nucleoli by anti-RBM14 (HPA006628) , C) nucleoli staining by anti-ZSCAN1 (HPA007938) , D) cluster staining within nucleoli by anti-MUC4 (HPA005895) , E) nuclear membrane staining by anti-UNC84B (HPA001209), F) nuclear granular staining by anti-BCLAF1 (HPA006669) G) nuclear speckeled staining by anti-RBM25 (HPA003025) , H) nuclear body (SMN) staining by anti-DDX20 (HPA005516) .</p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 414538,
      "author_name": "hengck23",
      "author_url": "",
      "post_date": "11/02/2018 23:38:40",
      "content": "<p>see :  <a href=\"http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100\">http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100</a></p>\n\n<p>e.g  <a href=\"http://cellimagelibrary.org/images/41685\">http://cellimagelibrary.org/images/41685</a></p>\n\n<p><a href=\"https://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg\">https://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg</a></p>\n\n<p>Cellular Component\nplasma membrane\nnucleolus\nnucleus\nmicrotubule cytoskeleton</p>",
      "votes": null,
      "replies": []
    }
  ],
  "raw_markdown_by_id": {
    "413048": "The Human Cell\n\nhttps://www.youtube.com/watch?time_continue=78&amp;v=P4gz6DrZOOI\n\n\nhttps://www.proteinatlas.org/humancell\n\nhttps://www.proteinatlas.org/humancell/organelle\n\n\n  ![enter image description here][1]\n\n\n  [1]: http://science.sciencemag.org/content/sci/early/2017/05/10/science.aal3321/F1.large.jpg",
    "413071": "https://scopeblog.stanford.edu/2018/08/22/massive-online-space-game-refines-protein-localization/\n\n\n\"Combining the annotations of gamers and deep learning, we applied transfer learning to create a boosted learner that can characterize subcellular protein distribution with F1 score of 0.72\"\n\nhttps://www.nature.com/articles/nbt.4225\n\n\nProject Discovery Tutorial : how to manual label\n\nhttps://wiki.eveuniversity.org/Project_Discovery%3a_Human_Protein_Atlas\n\nhttps://www.youtube.com/watch?v=MdbmJrXogUA\n\nhttps://www.kaggle.com/c/human-protein-atlas-image-classification/discussion/68992\n\n----\n\n ![enter image description here][1]\n\nhttps://www.nature.com/articles/nbt.4225.epdf?author_access_token=JD2sD_CDivCKCeeZ1GN_8tRgN0jAjWel9jnR3ZoTv0OHfVNTkLH5r4Cn2gNPB8k0HJWeERSLEpMIz4hjwQ_8w5L4IFOp4d7CfJZ-zTDqYjyRH-C8RJ9mToGBzjzo-jvw\n\nhttps://github.com/CellProfiling/Loc-CAT\n\n\n  [1]: https://storage.googleapis.com/kaggle-forum-message-attachments/inbox/113660/06e1ec951cb55e1919656f8fc9003da1/results.png",
    "413087": "https://www.allencell.org/",
    "413271": "I'm not taking part in this competition(yet) but I'm curious. Does successful image classification vary with the type of fluorescence tag used?",
    "414530": "https://www.sigmaaldrich.com/life-science/cell-biology/antibodies/prestige-antibodies/prestige-antibodies-in-immunofluorescence-applications.html\n\n\nFigure 2 illustrates differences in nuclear staining patterns. The eight different proteins localize into nucleus, nucleoli or nuclear membrane and show varying staining characteristics such as smooth, granular, speckled and clusters of spots.\n\n https://www.sigmaaldrich.com/content/dam/sigma-aldrich/life-science/cell-biology/antibodies/prestige-antibodies/diversity-of-nuclear-staining-patterns.gif  \n\nFigure 2: Diversity of nuclear staining patterns shown by eight different antibodies in cell line U2-OS or A-431. A) Smooth nuclear staining by anti-MECP2 (HPA000593) , B) nuclear staining without nucleoli by anti-RBM14 (HPA006628) , C) nucleoli staining by anti-ZSCAN1 (HPA007938) , D) cluster staining within nucleoli by anti-MUC4 (HPA005895) , E) nuclear membrane staining by anti-UNC84B (HPA001209), F) nuclear granular staining by anti-BCLAF1 (HPA006669) G) nuclear speckeled staining by anti-RBM25 (HPA003025) , H) nuclear body (SMN) staining by anti-DDX20 (HPA005516) .",
    "414538": "see :  http://cellimagelibrary.org/images?k=Human+Protein+Atlas&amp;simple_search=Search&amp;page=1&amp;per_page=100\n\ne.g  http://cellimagelibrary.org/images/41685\n\nhttps://cildata.crbs.ucsd.edu/media/thumbnail_display/41685/41685_thumbnailx512.jpg\n\nCellular Component\nplasma membrane\nnucleolus\nnucleus\nmicrotubule cytoskeleton"
  },
  "source": "meta"
}