{
  "topic": {
    "id": 406658,
    "title": "Art gallery: Protein embeddings ",
    "authorName": "Alexander Chervov",
    "commentCount": 4,
    "votes": 17,
    "postDate": "2023-05-03T08:43:54.052000"
  },
  "comments": [
    {
      "id": 2248163,
      "authorName": "Alexander Chervov",
      "votes": 1,
      "postDate": "2023-05-06T14:48:25.447000",
      "content": "<p>T5 embeddings:<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-t5-protein-embeddings-visualization?scriptVersionId=128515805&amp;cellId=18\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-t5-protein-embeddings-visualization?scriptVersionId=128515805&amp;cellId=18</a><br>\n(Thanks to Sergei Fironov dataset -<br>\n<a href=\"https://www.kaggle.com/datasets/sergeifironov/t5embeds\" target=\"_blank\">https://www.kaggle.com/datasets/sergeifironov/t5embeds</a><br>\nplease upvote it )</p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2Ff95cc4ac07cfdb81adbd72f7aefcec0c%2FScreenshot%202023-05-06%20164147.png?generation=1683384152124227&amp;alt=media\" alt=\"\"></p>\n<p>ProtBert embeddings<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=16\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=16</a><br>\n(Thanks to <a href=\"https://www.kaggle.com/henriupton\" target=\"_blank\">@henriupton</a> dataset - <a href=\"https://www.kaggle.com/datasets/henriupton/protbert-embeddings-for-cafa5\" target=\"_blank\">https://www.kaggle.com/datasets/henriupton/protbert-embeddings-for-cafa5</a> - please upvote it)<br>\n<img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2Fbe64283c53f7bfd5914f5529c6bdae42%2FScreenshot%202023-05-06%20164332.png?generation=1683384298473304&amp;alt=media\" alt=\"\"></p>\n<p>Same dataset<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=30\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=30</a><br>\n<img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2F32af60c891fd72a3eed1c8a7b361c04e%2FScreenshot%202023-05-06%20164739.png?generation=1683384498761629&amp;alt=media\" alt=\"\"></p>\n<p>Same dataset:<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=24\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=24</a><br>\n<img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2F6d255119be4c1d8dcb7ae6ecaeb26360%2FScreenshot%202023-05-06%20165022.png?generation=1683384691514187&amp;alt=media\" alt=\"\"></p>\n<p>Same dataset only the first 2000 samples<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=36\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-protbert-protein-embeddings-visualization?scriptVersionId=128516411&amp;cellId=36</a><br>\n<img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2F76533bfa22999cf26bcd897900f2fa42%2FScreenshot%202023-05-06%20164552.png?generation=1683384376061007&amp;alt=media\" alt=\"\"></p>\n<p>Dataset created by Anton Kostin (please upvote - based on NLP (sentence Bert) embeddings of the textual description of the protein taken from the Uniprot: <a href=\"https://www.kaggle.com/datasets/visualcomments/uniprot-description-only\" target=\"_blank\">https://www.kaggle.com/datasets/visualcomments/uniprot-description-only</a> )<br>\n<a href=\"https://www.kaggle.com/code/alexandervc/cafa5-nlp-description-protein-embeddings-visualiz?scriptVersionId=128545017&amp;cellId=16\" target=\"_blank\">https://www.kaggle.com/code/alexandervc/cafa5-nlp-description-protein-embeddings-visualiz?scriptVersionId=128545017&amp;cellId=16</a></p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F2262596%2F7f9c8b0f8019e4a1e56aeb46dec6fb02%2FScreenshot%202023-05-06%20201119.png?generation=1683396831923664&amp;alt=media\" alt=\"\"> </p>"
    },
    {
      "id": 2243961,
      "authorName": "Chema Plana",
      "votes": 1,
      "postDate": "2023-05-03T10:24:33.540000",
      "content": "<p>Hi <a href=\"https://www.kaggle.com/alexandervc\" target=\"_blank\">@alexandervc</a>, So beautiful charts! Thanks for sharing them and also the links!</p>"
    },
    {
      "id": 2243912,
      "authorName": "Abis Hussain syed",
      "votes": 1,
      "postDate": "2023-05-03T09:28:25.933000",
      "content": "<p><a href=\"https://www.kaggle.com/alexandervc\" target=\"_blank\">@alexandervc</a> The visuals are wonderful!</p>"
    },
    {
      "id": 2243879,
      "authorName": "serangu",
      "votes": 1,
      "postDate": "2023-05-03T08:49:10.670000",
      "content": "<p><a href=\"https://www.kaggle.com/alexandervc\" target=\"_blank\">@alexandervc</a> amazing topic. Thanks! This subject very interesting and specific for usual data scientists.</p>"
    }
  ],
  "index": {
    "id": "406658",
    "title": "Art gallery: Protein embeddings ",
    "authorName": "",
    "commentCount": "4",
    "votes": "17",
    "postDate": "2023-05-03 08:43:54.052000"
  },
  "competition": "cafa-5-protein-function-prediction"
}