diff --git a/CURATED_SET/classification.json b/CURATED_SET/classification.json
index 4236031..4216945 100644
--- a/CURATED_SET/classification.json
+++ b/CURATED_SET/classification.json
@@ -271,9 +271,9 @@
             "H3.5_(Hominidae)": {
                 "H3.5_(Homo_sapiens)": "null"
             },
-            "H3.6_(Mammals?)?": "null",
-            "H3.7_(Mammals?)?": "null",
-            "H3.8_(Mammals?)?": "null",
+            "H3.6_(Homo_sapiens)": "null",
+            "H3.7_(Homo_sapiens)": "null",
+            "H3.8_(Homo_sapiens)": "null",
             "H3.B_(Giardia?)": "null",
             "H3.P_(Moneuplotes?)": "null",
             "H3.V_(Trypanosomatidae)": "null"
@@ -4892,10 +4892,10 @@
             "alternate_names": [],
             "publications": []
         },
-        "H3.6_(Mammals?)?": {
+        "H3.6_(Homo_sapiens)": {
             "level": "variant_group",
             "description": {
-                "summary": "null",
+                "summary": "H3.6_(Homo_sapiens) is a human histone variant, similar to histone variant H3.3 in amino acid sequence, encoded by the H3F3AP6 gene. Expression levels of H3F3AP6 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. H3.6 nucleosomes are substantially unstable due to the Val62 residue, which weakens interactions with H4 [taguchi_crystal_2017].",
                 "taxonomy": "null",
                 "genes": "null",
                 "evolution": "null",
@@ -4905,7 +4905,7 @@
                 "sequence": "null",
                 "localization": "null",
                 "deposition": "null",
-                "structure": "null",
+                "structure": "H3.6 nucleosomes are substantially unstable due to the Val62 residue, which weakens interactions with H4 [taguchi_crystal_2017].",
                 "interactions": "null",
                 "disease": "null",
                 "caveats": "null"
@@ -4913,12 +4913,14 @@
             "taxonomic_span": "null",
             "taxonomic_span_id": "null",
             "alternate_names": [],
-            "publications": []
+            "publications": [
+                "taguchi_crystal_2017"
+            ]
         },
-        "H3.7_(Mammals?)?": {
+        "H3.7_(Homo_sapiens)": {
             "level": "variant_group",
             "description": {
-                "summary": "null",
+                "summary": "H3.7_(Homo_sapiens) is a human histone variant, similar to histone variant H3.1 in amino acid sequence, encoded by the HIST2H3PS2 gene. Expression levels of HIST2H3PS2 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. In vitro results showed that H3.7 failed to form nucleosomes [taguchi_crystal_2017].",
                 "taxonomy": "null",
                 "genes": "null",
                 "evolution": "null",
@@ -4928,7 +4930,7 @@
                 "sequence": "null",
                 "localization": "null",
                 "deposition": "null",
-                "structure": "null",
+                "structure": "In vitro results showed that H3.7 failed to form nucleosomes [taguchi_crystal_2017].",
                 "interactions": "null",
                 "disease": "null",
                 "caveats": "null"
@@ -4936,12 +4938,14 @@
             "taxonomic_span": "null",
             "taxonomic_span_id": "null",
             "alternate_names": [],
-            "publications": []
+            "publications": [
+                "taguchi_crystal_2017"
+            ]
         },
-        "H3.8_(Mammals?)?": {
+        "H3.8_(Homo_sapiens)": {
             "level": "variant_group",
             "description": {
-                "summary": "null",
+                "summary": "H3.8_(Homo_sapiens) is a human histone variant, similar to histone variant H3.3 in amino acid sequence, encoded by the H3F3AP5 gene. Expression levels of H3F3AP5 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. H3.8 nucleosomes are extremely unstable [taguchi_crystal_2017].",
                 "taxonomy": "null",
                 "genes": "null",
                 "evolution": "null",
@@ -4951,7 +4955,7 @@
                 "sequence": "null",
                 "localization": "null",
                 "deposition": "null",
-                "structure": "null",
+                "structure": "H3.8 nucleosomes are extremely unstable [taguchi_crystal_2017].",
                 "interactions": "null",
                 "disease": "null",
                 "caveats": "null"
@@ -4959,7 +4963,9 @@
             "taxonomic_span": "null",
             "taxonomic_span_id": "null",
             "alternate_names": [],
-            "publications": []
+            "publications": [
+                "taguchi_crystal_2017"
+            ]
         },
         "H3.B_(Giardia?)": {
             "level": "variant_group",
diff --git a/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241018.ipynb b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241018.ipynb
index 62ba2c5..3e6e6a6 100644
--- a/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241018.ipynb
+++ b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241018.ipynb
@@ -484,7 +484,6 @@
    "cell_type": "markdown",
    "id": "42fed33b-1181-4f30-917a-d835b96d24b9",
    "metadata": {
-    "jp-MarkdownHeadingCollapsed": true,
     "tags": []
    },
    "source": [
diff --git a/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241113.ipynb b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241113.ipynb
index da32cba..cce6845 100644
--- a/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241113.ipynb
+++ b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241113.ipynb
@@ -2364,7 +2364,10 @@
   {
    "cell_type": "markdown",
    "id": "e8fd8805-c640-415d-94a0-da21a6e9ccf3",
-   "metadata": {},
+   "metadata": {
+    "jp-MarkdownHeadingCollapsed": true,
+    "tags": []
+   },
    "source": [
     "# Delete GBG59214.1 and GBG60584.1\n",
     "\n",
diff --git a/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241119.ipynb b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241119.ipynb
new file mode 100644
index 0000000..c2b2194
--- /dev/null
+++ b/CURATED_SET/curated_service/curatedDB/UPD_curatedDB_241119.ipynb
@@ -0,0 +1,2501 @@
+{
+ "cells": [
+  {
+   "cell_type": "code",
+   "execution_count": 1,
+   "id": "fb32231a-293e-45b8-af7d-d996c91a4edd",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "import pandas as pd\n",
+    "from Bio import Entrez, SeqIO\n",
+    "from mysql.connector import connection\n",
+    "from sshtunnel import SSHTunnelForwarder\n",
+    "\n",
+    "Entrez.email = \"l.singh@intbio.org\""
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 2,
+   "id": "d5fa78a7-4901-4e63-9d91-d9ed584d2f62",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "with open(\"db_curated_server_info.txt\", \"r\") as file:\n",
+    "    lines = file.readlines()\n",
+    "\n",
+    "config = {}\n",
+    "\n",
+    "for line in lines:\n",
+    "    line = line.strip()\n",
+    "    if line and not line.startswith(\"#\"):\n",
+    "        key, value = line.split(\"=\", 1)\n",
+    "        config[key] = value.strip()\n",
+    "\n",
+    "server_name = config.get(\"server_name\")\n",
+    "srever_port = int(config.get(\"srever_port\"))\n",
+    "ssh_password = config.get(\"ssh_password\")\n",
+    "ssh_username = config.get(\"ssh_username\")\n",
+    "db_adress = config.get(\"db_adress\")\n",
+    "db_port = int(config.get(\"db_port\"))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 3,
+   "id": "ebe3d2e8-9736-4fd9-b3f1-5ec2d255567d",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "33727\n"
+     ]
+    }
+   ],
+   "source": [
+    "tunnel = SSHTunnelForwarder(\n",
+    "    (server_name, srever_port),\n",
+    "    ssh_password=ssh_password,\n",
+    "    ssh_username=ssh_username,\n",
+    "    remote_bind_address=(db_adress, db_port),\n",
+    ")\n",
+    "tunnel.start()\n",
+    "print(tunnel.local_bind_port)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 4,
+   "id": "0de93630-7502-40f3-ad24-42edf7a11eef",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "conn = connection.MySQLConnection(\n",
+    "    user=\"db_user\",\n",
+    "    password=\"db_password\",\n",
+    "    host=\"localhost\",\n",
+    "    port=tunnel.local_bind_port,\n",
+    "    database=\"db_name\",\n",
+    ")\n",
+    "cursor = conn.cursor()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 5,
+   "id": "b4767ba0-4ea1-43ae-953f-f2575d9b7a69",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "[('alternative_name',),\n",
+       " ('histone',),\n",
+       " ('histone_description',),\n",
+       " ('histone_has_publication',),\n",
+       " ('publication',),\n",
+       " ('sequence',),\n",
+       " ('sequence_has_publication',)]"
+      ]
+     },
+     "execution_count": 5,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SHOW TABLES;\"\n",
+    "cursor.execute(query)\n",
+    "cursor.fetchall()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 39,
+   "id": "c68d4b8f-c22c-4f8e-bb4f-71f95668656e",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# add_histone = (\n",
+    "#     \"INSERT INTO histone \"\n",
+    "#     \"(id, level, taxonomic_span, taxonomic_span_id, description, parent) \"\n",
+    "#     \"VALUES (%(id)s, %(level)s, %(taxonomic_span)s, %(taxonomic_span_id)s, %(description)s, %(parent)s)\"\n",
+    "# )\n",
+    "# add_histone_description = (\n",
+    "#     \"INSERT INTO histone_description \"\n",
+    "#     \"(summary, taxonomy, genes, evolution, expression, knock_out, function, sequence, localization, deposition, structure, interactions, disease, caveats) \"\n",
+    "#     \"VALUES (%s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s)\"\n",
+    "# )\n",
+    "add_publication = (\n",
+    "    \"INSERT INTO publication \"\n",
+    "    \"(id, title, doi, author, year) \"\n",
+    "    \"VALUES (%(id)s, %(title)s, %(doi)s, %(author)s, %(year)s)\"\n",
+    ")\n",
+    "# add_sequence_has_publication = (\n",
+    "#     \"INSERT INTO sequence_has_publication \"\n",
+    "#     \"(sequence_accession, publication_id) \"\n",
+    "#     \"VALUES (%s, %s)\"\n",
+    "# )\n",
+    "# add_alternate_names = (\n",
+    "#     \"INSERT INTO alternative_name \"\n",
+    "#     \"(name, taxonomy, gene, splice, histone) \"\n",
+    "#     \"VALUES (%(name)s, %(taxonomy)s, %(gene)s, %(splice)s, %(histone)s)\"\n",
+    "# )\n",
+    "add_histone_has_publication = (\n",
+    "    \"INSERT INTO histone_has_publication \"\n",
+    "    \"(histone_id, publication_id) \"\n",
+    "    \"VALUES (%s, %s)\"\n",
+    ")"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "f0e30842-5f18-4d84-9f5d-50d87f0a90fa",
+   "metadata": {
+    "jp-MarkdownHeadingCollapsed": true,
+    "tags": []
+   },
+   "source": [
+    "# Update H3.6_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 11,
+   "id": "e1f735c6-e34f-4475-b74f-667e3ef6dd57",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>362</th>\n",
+       "      <td>H3.6_(Mammals?)?</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>53</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                   id          level taxonomic_span taxonomic_span_id  \\\n",
+       "362  H3.6_(Mammals?)?  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "362           53     H3       None           None  "
+      ]
+     },
+     "execution_count": 11,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.6\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 12,
+   "id": "85bd02ff-d7d2-4054-9294-da04762689c2",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone SET id='H3.6_(Homo_sapiens)' \"\n",
+    "    f\"WHERE id='H3.6_(Mammals?)?'\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 17,
+   "id": "46efc2e0-ef3a-4ae4-ba72-eaf0e3cf5302",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>362</th>\n",
+       "      <td>H3.6_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>53</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "362  H3.6_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "362           53     H3       None           None  "
+      ]
+     },
+     "execution_count": 17,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.6\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 15,
+   "id": "653b18e7-c10e-4d13-918d-6207bd05b130",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>Archaeal</td>\n",
+       "      <td>type</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>1</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>1</th>\n",
+       "      <td>cenH3_(Animals)</td>\n",
+       "      <td>variant</td>\n",
+       "      <td>Homo sapiens</td>\n",
+       "      <td>9606</td>\n",
+       "      <td>94</td>\n",
+       "      <td>cenH3_(Eukarya)</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>2</th>\n",
+       "      <td>cenH3_(Eukarya)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>46</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>3</th>\n",
+       "      <td>cenH3_(Fungi)</td>\n",
+       "      <td>variant</td>\n",
+       "      <td>Homo sapiens</td>\n",
+       "      <td>9606</td>\n",
+       "      <td>95</td>\n",
+       "      <td>cenH3_(Eukarya)</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>4</th>\n",
+       "      <td>cenH3_(Homo_sapiens)</td>\n",
+       "      <td>variant</td>\n",
+       "      <td>Homo sapiens</td>\n",
+       "      <td>9606</td>\n",
+       "      <td>158</td>\n",
+       "      <td>cenH3_(Mammalia)</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>...</th>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "      <td>...</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>401</th>\n",
+       "      <td>TS H3.10</td>\n",
+       "      <td>variant</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>139</td>\n",
+       "      <td>H3.3-like_(Plants)</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>402</th>\n",
+       "      <td>TS_H1.6</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>Mammalia</td>\n",
+       "      <td>40674</td>\n",
+       "      <td>19</td>\n",
+       "      <td>H1</td>\n",
+       "      <td>TS_H1.6</td>\n",
+       "      <td>22650316</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>403</th>\n",
+       "      <td>TS_H1.7</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>Mammalia</td>\n",
+       "      <td>40674</td>\n",
+       "      <td>20</td>\n",
+       "      <td>H1</td>\n",
+       "      <td>TS_H1.7</td>\n",
+       "      <td>22650316</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>404</th>\n",
+       "      <td>TS_H1.9</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>Mammalia</td>\n",
+       "      <td>40674</td>\n",
+       "      <td>21</td>\n",
+       "      <td>H1</td>\n",
+       "      <td>TS_H1.9</td>\n",
+       "      <td>22650316</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>405</th>\n",
+       "      <td>Viral</td>\n",
+       "      <td>type</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>7</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "<p>406 rows × 8 columns</p>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                       id          level taxonomic_span taxonomic_span_id  \\\n",
+       "0                Archaeal           type           null              null   \n",
+       "1         cenH3_(Animals)        variant   Homo sapiens              9606   \n",
+       "2         cenH3_(Eukarya)  variant_group           null              null   \n",
+       "3           cenH3_(Fungi)        variant   Homo sapiens              9606   \n",
+       "4    cenH3_(Homo_sapiens)        variant   Homo sapiens              9606   \n",
+       "..                    ...            ...            ...               ...   \n",
+       "401              TS H3.10        variant           null              null   \n",
+       "402               TS_H1.6  variant_group       Mammalia             40674   \n",
+       "403               TS_H1.7  variant_group       Mammalia             40674   \n",
+       "404               TS_H1.9  variant_group       Mammalia             40674   \n",
+       "405                 Viral           type           null              null   \n",
+       "\n",
+       "     description              parent histone_id publication_id  \n",
+       "0              1                None       None           None  \n",
+       "1             94     cenH3_(Eukarya)       None           None  \n",
+       "2             46                  H3       None           None  \n",
+       "3             95     cenH3_(Eukarya)       None           None  \n",
+       "4            158    cenH3_(Mammalia)       None           None  \n",
+       "..           ...                 ...        ...            ...  \n",
+       "401          139  H3.3-like_(Plants)       None           None  \n",
+       "402           19                  H1    TS_H1.6       22650316  \n",
+       "403           20                  H1    TS_H1.7       22650316  \n",
+       "404           21                  H1    TS_H1.9       22650316  \n",
+       "405            7                None       None           None  \n",
+       "\n",
+       "[406 rows x 8 columns]"
+      ]
+     },
+     "execution_count": 15,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "histone_df"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 13,
+   "id": "730f42c9-6611-4baf-b5dc-0b7454b5aef2",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "94ee9d13-fc3a-4993-bfa1-201a7e0973f5",
+   "metadata": {},
+   "source": [
+    "## Update decription of H3.6_(Homo_sapiens) (id=53)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 16,
+   "id": "bfc9d752-104e-4acd-b2e3-e342f6c95de9",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "['id',\n",
+       " 'summary',\n",
+       " 'taxonomy',\n",
+       " 'genes',\n",
+       " 'evolution',\n",
+       " 'expression',\n",
+       " 'knock_out',\n",
+       " 'function',\n",
+       " 'sequence',\n",
+       " 'localization',\n",
+       " 'deposition',\n",
+       " 'structure',\n",
+       " 'interactions',\n",
+       " 'disease',\n",
+       " 'caveats']"
+      ]
+     },
+     "execution_count": 16,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_description\"\n",
+    "cursor.execute(query)\n",
+    "cursor.fetchall()\n",
+    "[i[0] for i in cursor.description]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 29,
+   "id": "48f3c303-529c-45ea-a1e2-c3441f5f3155",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "summary = \"H3.6_(Homo_sapiens) is a human histone variant, similar to histone variant H3.3 in amino acid sequence, encoded by the H3F3AP6 gene. Expression levels of H3F3AP6 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. H3.6 nucleosomes are substantially unstable due to the Val62 residue, which weakens interactions with H4 [taguchi_crystal_2017].\"\n",
+    "structure = \"H3.6 nucleosomes are substantially unstable due to the Val62 residue, which weakens interactions with H4 [taguchi_crystal_2017].\""
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 30,
+   "id": "69c753ec-1aa0-48e0-9660-fa84ec13876a",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone_description SET summary='{summary}', structure='{structure}' \"\n",
+    "    f\"WHERE id=53\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 31,
+   "id": "70064222-b3a1-4023-b75a-4f3d2d175f08",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>summary</th>\n",
+       "      <th>taxonomy</th>\n",
+       "      <th>genes</th>\n",
+       "      <th>evolution</th>\n",
+       "      <th>expression</th>\n",
+       "      <th>knock_out</th>\n",
+       "      <th>function</th>\n",
+       "      <th>sequence</th>\n",
+       "      <th>localization</th>\n",
+       "      <th>deposition</th>\n",
+       "      <th>structure</th>\n",
+       "      <th>interactions</th>\n",
+       "      <th>disease</th>\n",
+       "      <th>caveats</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>172</th>\n",
+       "      <td>H3.6_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>53</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.6_(Homo_sapiens) is a human histone variant...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>H3.6 nucleosomes are substantially unstable du...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "172  H3.6_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent                                            summary  \\\n",
+       "172           53     H3  H3.6_(Homo_sapiens) is a human histone variant...   \n",
+       "\n",
+       "    taxonomy genes evolution expression knock_out function sequence  \\\n",
+       "172     null  null      null       null      null     null     null   \n",
+       "\n",
+       "    localization deposition  \\\n",
+       "172         null       null   \n",
+       "\n",
+       "                                             structure interactions disease  \\\n",
+       "172  H3.6 nucleosomes are substantially unstable du...         null    null   \n",
+       "\n",
+       "    caveats  \n",
+       "172    null  "
+      ]
+     },
+     "execution_count": 31,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT h.*, d.summary, d.taxonomy, d.genes, d.evolution, d.expression, d.knock_out, d.function, d.sequence, d.localization, d.deposition, d.structure, d.interactions, d.disease, d.caveats \"\n",
+    "    \"FROM histone h LEFT JOIN histone_description d \"\n",
+    "    \"ON h.description = d.id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.6\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 32,
+   "id": "79fe2ee4-02e6-4db1-ab89-82c5a61cc1da",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "9e2f15d7-fea0-4359-8c2b-2df85abe983f",
+   "metadata": {},
+   "source": [
+    "## Update publications of H3.6_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 33,
+   "id": "6acf6d9d-41cf-4c13-aa21-ae10b769fd12",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "Empty DataFrame\n",
+       "Columns: [histone_id, publication_id]\n",
+       "Index: []"
+      ]
+     },
+     "execution_count": 33,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.6_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 34,
+   "id": "348603a9-dc6f-46e3-a9d1-6b1d0a7311ca",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>title</th>\n",
+       "      <th>doi</th>\n",
+       "      <th>author</th>\n",
+       "      <th>year</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "Empty DataFrame\n",
+       "Columns: [id, title, doi, author, year]\n",
+       "Index: []"
+      ]
+     },
+     "execution_count": 34,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM publication WHERE id='taguchi_crystal_2017'\"\n",
+    "cursor.execute(query)\n",
+    "pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 37,
+   "id": "9163251e-e672-4434-b1cf-17ef62e8a372",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "data_publication = {\n",
+    "    \"id\": \"taguchi_crystal_2017\",\n",
+    "    \"title\": None,\n",
+    "    \"doi\": None,\n",
+    "    \"author\": None,\n",
+    "    \"year\": None,\n",
+    "}\n",
+    "cursor.execute(add_publication, data_publication)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 38,
+   "id": "6d44338e-0739-435c-ba96-e3b8c981c9d6",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>title</th>\n",
+       "      <th>doi</th>\n",
+       "      <th>author</th>\n",
+       "      <th>year</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                     id title   doi author  year\n",
+       "0  taguchi_crystal_2017  None  None   None  None"
+      ]
+     },
+     "execution_count": 38,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM publication WHERE id='taguchi_crystal_2017'\"\n",
+    "cursor.execute(query)\n",
+    "pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 41,
+   "id": "8e543a1a-4a6d-453b-ade9-9931196ea249",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "cursor.execute(add_histone_has_publication, (\"H3.6_(Homo_sapiens)\", \"taguchi_crystal_2017\"))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 42,
+   "id": "641f0278-876e-4947-9b6f-42b6676e7705",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>286</th>\n",
+       "      <td>H3.6_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "              histone_id        publication_id\n",
+       "286  H3.6_(Homo_sapiens)  taguchi_crystal_2017"
+      ]
+     },
+     "execution_count": 42,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.6_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 43,
+   "id": "c89356b7-55a0-4006-be22-7661d22c2ae2",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 44,
+   "id": "915051ec-ae89-4b16-9e45-0f2b1c3a2af9",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>362</th>\n",
+       "      <td>H3.6_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>53</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.6_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "362  H3.6_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent           histone_id        publication_id  \n",
+       "362           53     H3  H3.6_(Homo_sapiens)  taguchi_crystal_2017  "
+      ]
+     },
+     "execution_count": 44,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.6\")]"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "b4068afa-67e4-47b3-ab53-31cafb6dbc5f",
+   "metadata": {
+    "jp-MarkdownHeadingCollapsed": true,
+    "tags": []
+   },
+   "source": [
+    "# Update H3.7_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 45,
+   "id": "2e0c23f9-9922-4249-afa6-2f38887b1031",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>363</th>\n",
+       "      <td>H3.7_(Mammals?)?</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>54</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                   id          level taxonomic_span taxonomic_span_id  \\\n",
+       "363  H3.7_(Mammals?)?  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "363           54     H3       None           None  "
+      ]
+     },
+     "execution_count": 45,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.7\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 46,
+   "id": "fa155850-f2e8-4e0c-bf65-c4a3fe109fec",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone SET id='H3.7_(Homo_sapiens)' \"\n",
+    "    f\"WHERE id='H3.7_(Mammals?)?'\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 47,
+   "id": "ce62ff9f-b94a-4c05-972a-f4165cb76f64",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>363</th>\n",
+       "      <td>H3.7_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>54</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "363  H3.7_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "363           54     H3       None           None  "
+      ]
+     },
+     "execution_count": 47,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.7\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 48,
+   "id": "1a135b4c-a8a5-41d1-8197-b4b2d9a79bfd",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "2d124abe-c066-4a3b-b191-91369714ca5e",
+   "metadata": {},
+   "source": [
+    "## Update decription of H3.7_(Homo_sapiens) (id=54)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 49,
+   "id": "648e788b-a135-448c-987a-9171823c48e1",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "summary = \"H3.7_(Homo_sapiens) is a human histone variant, similar to histone variant H3.1 in amino acid sequence, encoded by the HIST2H3PS2 gene. Expression levels of HIST2H3PS2 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. In vitro results showed that H3.7 failed to form nucleosomes [taguchi_crystal_2017].\"\n",
+    "structure = \"In vitro results showed that H3.7 failed to form nucleosomes [taguchi_crystal_2017].\""
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 50,
+   "id": "496e1527-b47e-4aac-8a44-94bbea5ba927",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone_description SET summary='{summary}', structure='{structure}' \"\n",
+    "    f\"WHERE id=54\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 51,
+   "id": "33ad3aeb-598a-43e0-91e3-cdaf30f7b0dd",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>summary</th>\n",
+       "      <th>taxonomy</th>\n",
+       "      <th>genes</th>\n",
+       "      <th>evolution</th>\n",
+       "      <th>expression</th>\n",
+       "      <th>knock_out</th>\n",
+       "      <th>function</th>\n",
+       "      <th>sequence</th>\n",
+       "      <th>localization</th>\n",
+       "      <th>deposition</th>\n",
+       "      <th>structure</th>\n",
+       "      <th>interactions</th>\n",
+       "      <th>disease</th>\n",
+       "      <th>caveats</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>173</th>\n",
+       "      <td>H3.7_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>54</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.7_(Homo_sapiens) is a human histone variant...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>In vitro results showed that H3.7 failed to fo...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "173  H3.7_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent                                            summary  \\\n",
+       "173           54     H3  H3.7_(Homo_sapiens) is a human histone variant...   \n",
+       "\n",
+       "    taxonomy genes evolution expression knock_out function sequence  \\\n",
+       "173     null  null      null       null      null     null     null   \n",
+       "\n",
+       "    localization deposition  \\\n",
+       "173         null       null   \n",
+       "\n",
+       "                                             structure interactions disease  \\\n",
+       "173  In vitro results showed that H3.7 failed to fo...         null    null   \n",
+       "\n",
+       "    caveats  \n",
+       "173    null  "
+      ]
+     },
+     "execution_count": 51,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT h.*, d.summary, d.taxonomy, d.genes, d.evolution, d.expression, d.knock_out, d.function, d.sequence, d.localization, d.deposition, d.structure, d.interactions, d.disease, d.caveats \"\n",
+    "    \"FROM histone h LEFT JOIN histone_description d \"\n",
+    "    \"ON h.description = d.id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.7\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 52,
+   "id": "d3a6f191-1f25-4429-8676-20b2810ccf0a",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "db916bf7-e50c-4fe7-933b-43037ce535f3",
+   "metadata": {},
+   "source": [
+    "## Update publications of H3.7_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 54,
+   "id": "33f87712-781a-463a-bb6f-3b478a69d80d",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "Empty DataFrame\n",
+       "Columns: [histone_id, publication_id]\n",
+       "Index: []"
+      ]
+     },
+     "execution_count": 54,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.7_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 55,
+   "id": "ea7e05a0-0619-4881-a306-62bab20ab931",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>title</th>\n",
+       "      <th>doi</th>\n",
+       "      <th>author</th>\n",
+       "      <th>year</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                     id title   doi author  year\n",
+       "0  taguchi_crystal_2017  None  None   None  None"
+      ]
+     },
+     "execution_count": 55,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM publication WHERE id='taguchi_crystal_2017'\"\n",
+    "cursor.execute(query)\n",
+    "pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 56,
+   "id": "148c9cab-7aad-4f19-9b37-956fd5994622",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "cursor.execute(add_histone_has_publication, (\"H3.7_(Homo_sapiens)\", \"taguchi_crystal_2017\"))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 57,
+   "id": "1c59644d-e15a-4b4b-aaf6-c149276d7c0a",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>287</th>\n",
+       "      <td>H3.7_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "              histone_id        publication_id\n",
+       "287  H3.7_(Homo_sapiens)  taguchi_crystal_2017"
+      ]
+     },
+     "execution_count": 57,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.7_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 58,
+   "id": "e7b2fe70-9681-4e53-be4c-3a708a3f4fd4",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 59,
+   "id": "dca3cfd2-de03-4208-acdc-1b62d74ac1d3",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>363</th>\n",
+       "      <td>H3.7_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>54</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.7_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "363  H3.7_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent           histone_id        publication_id  \n",
+       "363           54     H3  H3.7_(Homo_sapiens)  taguchi_crystal_2017  "
+      ]
+     },
+     "execution_count": 59,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.7\")]"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "2a1a364e-39e6-4af2-a724-2b34372fdec0",
+   "metadata": {
+    "jp-MarkdownHeadingCollapsed": true,
+    "tags": []
+   },
+   "source": [
+    "# Update H3.8_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 60,
+   "id": "69ee2ba3-418e-4426-8a0e-d7ccfcad57bf",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>364</th>\n",
+       "      <td>H3.8_(Mammals?)?</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>55</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                   id          level taxonomic_span taxonomic_span_id  \\\n",
+       "364  H3.8_(Mammals?)?  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "364           55     H3       None           None  "
+      ]
+     },
+     "execution_count": 60,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.8\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 61,
+   "id": "7f63a24c-7835-49af-b75a-d804a91b854b",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone SET id='H3.8_(Homo_sapiens)' \"\n",
+    "    f\"WHERE id='H3.8_(Mammals?)?'\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 62,
+   "id": "183f43e6-1ee8-47f1-a583-194acb2b7226",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>364</th>\n",
+       "      <td>H3.8_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>55</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "364  H3.8_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent histone_id publication_id  \n",
+       "364           55     H3       None           None  "
+      ]
+     },
+     "execution_count": 62,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.8\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 63,
+   "id": "d5b649ae-cd9a-45ec-b231-bcbac754254e",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "c4c00476-b65f-488e-9927-6c0825d9d437",
+   "metadata": {},
+   "source": [
+    "## Update decription of H3.8_(Homo_sapiens) (id=55)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 64,
+   "id": "f8b09bbe-1afd-4f1e-b85d-6eb249400955",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "summary = \"H3.8_(Homo_sapiens) is a human histone variant, similar to histone variant H3.3 in amino acid sequence, encoded by the H3F3AP5 gene. Expression levels of H3F3AP5 are extremely low, as compared to H3F3B gene (encodes histone H3.3) [taguchi_crystal_2017]. H3.8 nucleosomes are extremely unstable [taguchi_crystal_2017].\"\n",
+    "structure = \"H3.8 nucleosomes are extremely unstable [taguchi_crystal_2017].\""
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 65,
+   "id": "9eb2a9c1-1d90-40e2-acb5-e0eaf127830c",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "query = (\n",
+    "    f\"UPDATE histone_description SET summary='{summary}', structure='{structure}' \"\n",
+    "    f\"WHERE id=55\"\n",
+    ")\n",
+    "cursor.execute(query)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 66,
+   "id": "55830e81-31ac-4e37-b929-013375c427b7",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>summary</th>\n",
+       "      <th>taxonomy</th>\n",
+       "      <th>genes</th>\n",
+       "      <th>evolution</th>\n",
+       "      <th>expression</th>\n",
+       "      <th>knock_out</th>\n",
+       "      <th>function</th>\n",
+       "      <th>sequence</th>\n",
+       "      <th>localization</th>\n",
+       "      <th>deposition</th>\n",
+       "      <th>structure</th>\n",
+       "      <th>interactions</th>\n",
+       "      <th>disease</th>\n",
+       "      <th>caveats</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>174</th>\n",
+       "      <td>H3.8_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>55</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.8_(Homo_sapiens) is a human histone variant...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>H3.8 nucleosomes are extremely unstable [taguc...</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "174  H3.8_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent                                            summary  \\\n",
+       "174           55     H3  H3.8_(Homo_sapiens) is a human histone variant...   \n",
+       "\n",
+       "    taxonomy genes evolution expression knock_out function sequence  \\\n",
+       "174     null  null      null       null      null     null     null   \n",
+       "\n",
+       "    localization deposition  \\\n",
+       "174         null       null   \n",
+       "\n",
+       "                                             structure interactions disease  \\\n",
+       "174  H3.8 nucleosomes are extremely unstable [taguc...         null    null   \n",
+       "\n",
+       "    caveats  \n",
+       "174    null  "
+      ]
+     },
+     "execution_count": 66,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT h.*, d.summary, d.taxonomy, d.genes, d.evolution, d.expression, d.knock_out, d.function, d.sequence, d.localization, d.deposition, d.structure, d.interactions, d.disease, d.caveats \"\n",
+    "    \"FROM histone h LEFT JOIN histone_description d \"\n",
+    "    \"ON h.description = d.id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.8\")]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 67,
+   "id": "3c36d6ff-7d4f-4397-ab7a-5b306bbfe4ac",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "22d2b8a0-e159-40d8-b700-71640be03115",
+   "metadata": {},
+   "source": [
+    "## Update publications of H3.8_(Homo_sapiens)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 68,
+   "id": "863417d2-7455-4f25-aadf-bf56d5d10199",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "Empty DataFrame\n",
+       "Columns: [histone_id, publication_id]\n",
+       "Index: []"
+      ]
+     },
+     "execution_count": 68,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.8_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 69,
+   "id": "d664aebf-9d4a-4e88-b257-deced042689c",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>title</th>\n",
+       "      <th>doi</th>\n",
+       "      <th>author</th>\n",
+       "      <th>year</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "      <td>None</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                     id title   doi author  year\n",
+       "0  taguchi_crystal_2017  None  None   None  None"
+      ]
+     },
+     "execution_count": 69,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM publication WHERE id='taguchi_crystal_2017'\"\n",
+    "cursor.execute(query)\n",
+    "pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 70,
+   "id": "40ccbd05-7ab9-4160-9a37-fc14743ba700",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "cursor.execute(add_histone_has_publication, (\"H3.8_(Homo_sapiens)\", \"taguchi_crystal_2017\"))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 71,
+   "id": "2e82aab7-f313-45f0-9c80-545d623afa18",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>288</th>\n",
+       "      <td>H3.8_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "              histone_id        publication_id\n",
+       "288  H3.8_(Homo_sapiens)  taguchi_crystal_2017"
+      ]
+     },
+     "execution_count": 71,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = \"SELECT * FROM histone_has_publication\"\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"histone_id\"]==\"H3.8_(Homo_sapiens)\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 72,
+   "id": "a0c6e834-4663-4061-b886-3e9683c3d132",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "# Make sure data is committed to the database\n",
+    "conn.commit()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 73,
+   "id": "929974cc-e775-4bba-bcf9-c6095700ccac",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>id</th>\n",
+       "      <th>level</th>\n",
+       "      <th>taxonomic_span</th>\n",
+       "      <th>taxonomic_span_id</th>\n",
+       "      <th>description</th>\n",
+       "      <th>parent</th>\n",
+       "      <th>histone_id</th>\n",
+       "      <th>publication_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>364</th>\n",
+       "      <td>H3.8_(Homo_sapiens)</td>\n",
+       "      <td>variant_group</td>\n",
+       "      <td>null</td>\n",
+       "      <td>null</td>\n",
+       "      <td>55</td>\n",
+       "      <td>H3</td>\n",
+       "      <td>H3.8_(Homo_sapiens)</td>\n",
+       "      <td>taguchi_crystal_2017</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                      id          level taxonomic_span taxonomic_span_id  \\\n",
+       "364  H3.8_(Homo_sapiens)  variant_group           null              null   \n",
+       "\n",
+       "     description parent           histone_id        publication_id  \n",
+       "364           55     H3  H3.8_(Homo_sapiens)  taguchi_crystal_2017  "
+      ]
+     },
+     "execution_count": 73,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "query = (\n",
+    "    \"SELECT * FROM histone h LEFT JOIN histone_has_publication hp \"\n",
+    "    \"ON h.id = hp.histone_id\"\n",
+    ")\n",
+    "cursor.execute(query)\n",
+    "histone_df = pd.DataFrame(cursor.fetchall(), columns=[i[0] for i in cursor.description])\n",
+    "histone_df[histone_df[\"id\"].str.contains(\"H3.8\")]"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "d3c8a219-f508-46e1-936f-7d6040016e39",
+   "metadata": {
+    "tags": []
+   },
+   "source": [
+    "# Close connections"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 74,
+   "id": "572059d8-54f9-4ec7-a2c6-1c8066552845",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "cursor.close()\n",
+    "conn.close()\n",
+    "tunnel.stop()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "790ee020-09af-4dcc-9c36-f1b3f69ea8a7",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": ".conda-histdb_env",
+   "language": "python",
+   "name": "conda-env-.conda-histdb_env-py"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.8.1"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}
diff --git a/CURATED_SET/curated_service/curatedDB/generate_draft_seeds.ipynb b/CURATED_SET/curated_service/curatedDB/generate_draft_seeds.ipynb
index 82a9b67..21abe34 100644
--- a/CURATED_SET/curated_service/curatedDB/generate_draft_seeds.ipynb
+++ b/CURATED_SET/curated_service/curatedDB/generate_draft_seeds.ipynb
@@ -1994,9 +1994,13 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 24,
    "id": "08671eff-0312-4d18-86f9-495df45db45f",
    "metadata": {
+    "collapsed": true,
+    "jupyter": {
+     "outputs_hidden": true
+    },
     "tags": []
    },
    "outputs": [
@@ -2105,7 +2109,85 @@
       "Building  H2A.P\n",
       "Building  H2A.Q\n",
       "Building  short_H2A\n",
-      "Building  H2A\n"
+      "Building  H2A\n",
+      "Building  cH2B.10_(Homo_sapiens)\n",
+      "Building  cH2B.11_(Homo_sapiens)\n",
+      "Building  cH2B.12_(Homo_sapiens)\n",
+      "Building  cH2B.13_(Homo_sapiens)\n",
+      "Building  cH2B.14_(Homo_sapiens)\n",
+      "Building  cH2B.15_(Homo_sapiens)\n",
+      "Building  cH2B.1_(Homo_sapiens)\n",
+      "Building  cH2B.2_(Homo_sapiens)\n",
+      "Building  cH2B.3_(Homo_sapiens)\n",
+      "Building  cH2B.4_(Homo_sapiens)\n",
+      "Building  cH2B.5_(Homo_sapiens)\n",
+      "Building  cH2B.6_(Homo_sapiens)\n",
+      "Building  cH2B.7_(Homo_sapiens)\n",
+      "Building  cH2B.8_(Homo_sapiens)\n",
+      "Building  cH2B.9_(Homo_sapiens)\n",
+      "Building  cH2B_(Homo_sapiens)\n",
+      "Building  cH2B.1_(Mus_musculus)\n",
+      "Building  cH2B.E_(Mus_musculus)\n",
+      "Building  cH2B_(Mus_musculus)\n",
+      "Building  cH2B_(Mammalia)\n",
+      "Building  cH2B_(Vertebrata)\n",
+      "Building  cH2B_(Animals)\n",
+      "Building  cH2B_(Fungi)\n",
+      "Building  cH2B_(Chlorophyta)\n",
+      "Building  cH2B_(Embryophyta)\n",
+      "Building  cH2B_(Plants)\n",
+      "Building  cH2B_(Protists)\n",
+      "Building  cH2B\n",
+      "Building  CS_H2B_(Echinoidea)\n",
+      "Building  early_H2B_(Echinoidea)\n",
+      "Building  gH2B\n",
+      "Building  H2B.K_(Homo_sapiens)\n",
+      "Building  H2B.K\n",
+      "Building  H2B.L\n",
+      "Building  H2B.N_(Homo_sapiens)\n",
+      "Building  H2B.N\n",
+      "Building  H2B.O\n",
+      "Building  H2B.S\n",
+      "Building  H2B.V\n",
+      "Building  H2B.W.1_(Homo_sapiens)\n",
+      "Building  H2B.W.2_(Homo_sapiens)\n",
+      "Building  H2B.W_(Homo_sapiens)\n",
+      "Building  H2B.W\n",
+      "Building  H2B.Z\n",
+      "Building  late_H2B_(Echinoidea)\n",
+      "Building  sperm_H2B_(Echinoidea)\n",
+      "Building  H2B\n",
+      "Building  cenH3_(Homo_sapiens)\n",
+      "Building  cenH3_(Mammalia)\n",
+      "Building  cenH3_(Animals)\n",
+      "Building  cenH3_(Fungi)\n",
+      "Building  cenH3_(Plants)\n",
+      "Building  cenH3_(Eukarya)\n",
+      "Building  cH3.1_(Homo_sapiens)\n",
+      "Building  cH3.1_(Mammalia)\n",
+      "Building  cH3.2_(Homo_sapiens)\n",
+      "Building  cH3.2_(Mammalia)\n",
+      "Building  cH3_(Mammalia)\n",
+      "Building  cH3_(Vertebrata)\n",
+      "Building  cH3_(Animals)\n",
+      "Building  cH3\n",
+      "Building  H3.3_(Homo_sapiens)\n",
+      "Building  H3.3_(Animals)\n",
+      "Building  H3.3\n",
+      "Building  H3.Y.1_(Homo_sapiens)\n",
+      "Building  H3.Y.2_(Homo_sapiens)\n",
+      "Building  H3.Y_(Homo_sapiens)\n",
+      "Building  H3.Y_(Primates?)\n",
+      "Building  H3.3-like_(Animals)\n",
+      "Building  H3.3-like?\n",
+      "Building  H3.4_(Homo_sapiens)\n",
+      "Building  H3.4_(Mammalia)\n",
+      "Building  H3.5_(Homo_sapiens)\n",
+      "Building  H3.5_(Hominidae)\n",
+      "Building  H3\n",
+      "Building  cH4_(Homo_sapiens)\n",
+      "Building  cH4\n",
+      "Building  H4\n"
      ]
     }
    ],
diff --git a/CURATED_SET/curated_service/curatedDB/save_curatedDB_toFiles.ipynb b/CURATED_SET/curated_service/curatedDB/save_curatedDB_toFiles.ipynb
index f6e15c2..19916c7 100644
--- a/CURATED_SET/curated_service/curatedDB/save_curatedDB_toFiles.ipynb
+++ b/CURATED_SET/curated_service/curatedDB/save_curatedDB_toFiles.ipynb
@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "code",
-   "execution_count": 16,
+   "execution_count": 1,
    "id": "713ac3f3-2233-4f7e-bce8-490dac1a0f26",
    "metadata": {
     "tags": []
@@ -19,7 +19,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 17,
+   "execution_count": 2,
    "id": "b8a89a61-5ae1-4e88-b41f-bd7ba2094d1e",
    "metadata": {},
    "outputs": [],
@@ -45,7 +45,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 18,
+   "execution_count": 3,
    "id": "8f76aa83-7659-4283-b61b-d4771339452a",
    "metadata": {},
    "outputs": [
@@ -53,7 +53,7 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "43369\n"
+      "39587\n"
      ]
     }
    ],
@@ -70,7 +70,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 19,
+   "execution_count": 4,
    "id": "194c4be6-c39c-4e6a-bd65-6265aff2b2e3",
    "metadata": {
     "tags": []
@@ -89,7 +89,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 20,
+   "execution_count": 5,
    "id": "55e0025e-1aa7-429d-b742-7992a0807386",
    "metadata": {
     "tags": []
@@ -107,7 +107,7 @@
        " ('sequence_has_publication',)]"
       ]
      },
-     "execution_count": 20,
+     "execution_count": 5,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -346,7 +346,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 21,
+   "execution_count": 9,
    "id": "abb4ded5-1cf2-4c0c-923a-8db5b206832c",
    "metadata": {
     "tags": []
@@ -363,7 +363,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 22,
+   "execution_count": 10,
    "id": "4198ddc0-b173-4a0f-977c-968d14c55438",
    "metadata": {
     "tags": []
@@ -383,7 +383,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 23,
+   "execution_count": 11,
    "id": "4396c1b6-21e4-4b03-ad6d-6e0d13238bb9",
    "metadata": {
     "tags": []
@@ -410,7 +410,6 @@
    "cell_type": "markdown",
    "id": "614d13e9-62ee-4154-8e1d-f08ed8ee1473",
    "metadata": {
-    "jp-MarkdownHeadingCollapsed": true,
     "tags": []
    },
    "source": [
@@ -419,7 +418,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 16,
+   "execution_count": 12,
    "id": "d88af2ee-a6d0-4459-bf0b-0f848689bd0b",
    "metadata": {
     "tags": []
@@ -429,8 +428,8 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "CPU times: user 7min 36s, sys: 8.55 s, total: 7min 45s\n",
-      "Wall time: 7min 24s\n"
+      "CPU times: user 7min 40s, sys: 7.11 s, total: 7min 47s\n",
+      "Wall time: 7min 29s\n"
      ]
     }
    ],