diff --git a/src/app/config/doc-config.json b/src/app/config/doc-config.json
index 0a1b3aba..0983414a 100644
--- a/src/app/config/doc-config.json
+++ b/src/app/config/doc-config.json
@@ -86,6 +86,7 @@
       "downloads/go-annotations" : "GO annotations",
       "downloads/index" : "Downloads",
       "downloads/intron-data" : "Introns",
+      "downloads/modifications" : "Protein modifications",
       "downloads/names-and-identifiers" : "PomBase name and identifier mappings",
       "downloads/phenotype-annotations" : "Phenotype annotations",
       "downloads/protein-datasets" : "Protein datasets",
diff --git a/src/app/config/docs.json b/src/app/config/docs.json
index 693a49b0..dc3364a1 100644
--- a/src/app/config/docs.json
+++ b/src/app/config/docs.json
@@ -140,7 +140,7 @@
       "id" : "community/internet-resources"
    },
    {
-      "content" : "\n\nNote that some of the links below go to pages listing subdirectories that are organised slightly differently from the links on this page. Your browser may prompt you to open or download files.\n\nIf you have trouble finding anything, please ask the helpdesk.\n\n-\n\nData download site\n\nMain directory for S. pombe data\n\n-\n\nDataset and ontology versions\n\nThe versions page is updated each night.\n\n-\n\nGenome sequence and features\n\n-  Genome sequence (FASTA or enriched EMBL format for Artemis)\n-  Feature coordinates (coding regions, introns, exons, UTRs, etc.)\n-  Genomic regions (centromeres, telomeres, mating type)\n\n-\n\n displayed in the genome browser\n\nThe data files used for the tracks in the JBrowse genome browser are available from the external_datasets directory. The directory names are the either the publication details (PubMed ID) or the GEO/SRA dataset ID.\n\nFor detailed information about each genome browser track, please see the JBrowse configuration table. This file is a spreadsheet in comma separated value format. The columns are described on the dataset submission page.\n\n-\n\nAnnotation datasets\n\nAnnotation type  Description\n - -\n Protein datasets  Protein sequence FASTA database, peptide features, properties, etc.\n GO annotations  Gene Ontology annotation files\n Macromolecular complexes  Subunits of protein and ribonucleoprotein complexes (GO cellular component terms and annotated genes)\n Phenotype annotations  FYPO phenotype annotation files - complete annotation set (PHAF) or viability summary\n Human disease associations  Fission yeast orthologs of human disease associated genes with disease descriptions and Mondo ontology terms\n Modifications  Protein modification data file (RNA modifications to be added in future)\n Orthologs  Manually curated ortholog sets for human and S. cerevisiae; also see documentation\n\n-\n\nGene names and IDs\n\nMappings between PomBase systematic IDs, gene names, product descriptions, and UniProt accession numbers\n\n-\n\nGO slim\n\nCurrent GO slim IDs and term names:\n\n-  GO biological process slim\n-  GO molecular function slim\n-  GO cellular component slim\n\n-\n\nMondo slim\n\nCurrent fission yeast Mondo Disease Ontology slim IDs and term names\n\n-\n\nCurated inventories\n\n-  DNA binding sites\n-  Drug targets\n\n-\n\nNote: S. pombe files are no longer available from the old “pombase” FTP site within the EBI domain. If you have a link that contains ftp.ebi.ac.uk, please check these pages for a link using https://www.pombase.org/. Please contact the PomBase curators if you need help finding a file or directory.\n",
+      "content" : "\n\nNote that some of the links below go to pages listing subdirectories that are organised slightly differently from the links on this page. Your browser may prompt you to open or download files.\n\nIf you have trouble finding anything, please ask the helpdesk.\n\n-\n\nData download site\n\nMain directory for S. pombe data\n\n-\n\nDataset and ontology versions\n\nThe versions page is updated each night.\n\n-\n\nGenome sequence and features\n\n-  Genome sequence (FASTA or enriched EMBL format for Artemis)\n-  Feature coordinates (coding regions, introns, exons, UTRs, etc.)\n-  Genomic regions (centromeres, telomeres, mating type)\n\n-\n\n displayed in the genome browser\n\nThe data files used for the tracks in the JBrowse genome browser are available from the external_datasets directory. The directory names are the either the publication details (PubMed ID) or the GEO/SRA dataset ID.\n\nFor detailed information about each genome browser track, please see the JBrowse configuration table. This file is a spreadsheet in comma separated value format. The columns are described on the dataset submission page.\n\n-\n\nAnnotation datasets\n\nAnnotation type  Description\n - -\n Protein datasets  Protein sequence FASTA database, peptide features, properties, etc.\n GO annotations  Gene Ontology annotation files\n Macromolecular complexes  Subunits of protein and ribonucleoprotein complexes (GO cellular component terms and annotated genes)\n Phenotype annotations  FYPO phenotype annotation files - complete annotation set (PHAF) or viability summary\n Human disease associations  Fission yeast orthologs of human disease associated genes with disease descriptions and Mondo ontology terms\n Modifications  Protein modifications\n Orthologs  Manually curated ortholog sets for human and S. cerevisiae; also see documentation\n\n-\n\nGene names and IDs\n\nMappings between PomBase systematic IDs, gene names, product descriptions, and UniProt accession numbers\n\n-\n\nGO slim\n\nCurrent GO slim IDs and term names:\n\n-  GO biological process slim\n-  GO molecular function slim\n-  GO cellular component slim\n\n-\n\nMondo slim\n\nCurrent fission yeast Mondo Disease Ontology slim IDs and term names\n\n-\n\nCurated inventories\n\n-  DNA binding sites\n-  Drug targets\n\n-\n\nNote: S. pombe files are no longer available from the old “pombase” FTP site within the EBI domain. If you have a link that contains ftp.ebi.ac.uk, please check these pages for a link using https://www.pombase.org/. Please contact the PomBase curators if you need help finding a file or directory.\n",
       "heading" : "Datasets",
       "id" : "datasets/index"
    },
@@ -215,7 +215,7 @@
       "id" : "documentation/gene-page-literature"
    },
    {
-      "content" : "\n\nThe Modifications section lists protein modifications that have been manually curated, using terms from the PSI-MOD ontology, for protein-coding genes. PomBase will add RNA modifications to this section in the future, when relevant data are curated.\n\nGraphical overview\n\nThe overview show modifications where the residue position is known. More details are available by mouse-over of the displayed positions.\n\n[overview gene page modification ontology annotation]\n\nOntology Annotations for Protein Features\n\nThe summary view (which is the default) shows the names of the most specific terms used to annotate the gene along with selected extensions:\n\n[summary gene page modification ontology annotation]\n\n(This example is from the cdc2 gene page)\n\nThe detailed view shows more information for each annotation, and may display additional (less specific) terms:\n\n[full gene page modification ontology annotation]\n\n1.  Graphical overview\n2.  ID and Name of the ontology term\n3.  Modification annotations may have extensions (see below) to capture any of several types of additional detail.\n4.  The summary view is filtered, using the ontology structure, so that it shows only the most specific terms used to annotate a gene. Modification annotations curated for a gene using less specific terms (“superclasses” or “ancestors” in the ontology) appear only in the detailed view.\n5.  An abbreviation (code) or brief description for the type of evidence that supports the annotation. Modification annotations use some of the codes defined by the GO Consortium, plus a small subset of the Evidence Ontology (ECO).\n6.  The residue(s) modified (where available). Note that the PomBase reported residues may differ from the published residues in cases where the gene structure coordinates have changed. In these cases we remap the modification to the new residue number. If it is possible that residue numbers have changed for a given protein there is a warning at the top of the protein modification section.\n7.  The published source of the annotation (where available)\n8.  The total number of genes annotated to this term or any of its descendants, linked to a list of those genes.\n9.  Use the annotation filter to show low throughput, high throughput, non-experimental, or all modifications.\n\nAnnotation extensions\n\nWhere available, annotation extensions are displayed underneath the ontology term name. The extensions provide additional specificity to the annotation, often by linking the term to another ontology term or a gene product via a relationship. Example:\n\nmodified residue T167 increased during cellular response to nitrogen starvation in absence of cdc2\n\nPossible extensions include the gene product that adds or removes a modification, specifying modified residues, or specifying that the modification is observed during a phase or process.\n\nThe annotation extension field can also be used to indicate modification site occupancy, for experiments that measure the proportion of copies of the protein (or RNA) that have the modification.\n\nMultiplicity\n\nSome modifications have a multiplicity extension which is number of modified sites detected within the same peptide fragment (relevant to mass spec. methods).\n\nExample from nnk1:\n\n[multiplicity gene page modification ontology annotation]\n",
+      "content" : "\n\nThe Modifications section lists protein modifications that have been manually curated, using terms from the PSI-MOD ontology, for protein-coding genes. PomBase will add RNA modifications to this section in the future, when relevant data are curated.\n\nModifications for all genes are available to downloads in a single file.\n\nGraphical overview\n\nThe overview show modifications where the residue position is known. More details are available by mouse-over of the displayed positions.\n\n[overview gene page modification ontology annotation]\n\nOntology Annotations for Protein Features\n\nThe summary view (which is the default) shows the names of the most specific terms used to annotate the gene along with selected extensions:\n\n[summary gene page modification ontology annotation]\n\n(This example is from the cdc2 gene page)\n\nThe detailed view shows more information for each annotation, and may display additional (less specific) terms:\n\n[full gene page modification ontology annotation]\n\n1.  Graphical overview\n2.  ID and Name of the ontology term\n3.  Modification annotations may have extensions (see below) to capture any of several types of additional detail.\n4.  The summary view is filtered, using the ontology structure, so that it shows only the most specific terms used to annotate a gene. Modification annotations curated for a gene using less specific terms (“superclasses” or “ancestors” in the ontology) appear only in the detailed view.\n5.  An abbreviation (code) or brief description for the type of evidence that supports the annotation. Modification annotations use some of the codes defined by the GO Consortium, plus a small subset of the Evidence Ontology (ECO).\n6.  The residue(s) modified (where available). Note that the PomBase reported residues may differ from the published residues in cases where the gene structure coordinates have changed. In these cases we remap the modification to the new residue number. If it is possible that residue numbers have changed for a given protein there is a warning at the top of the protein modification section.\n7.  The published source of the annotation (where available)\n8.  The total number of genes annotated to this term or any of its descendants, linked to a list of those genes.\n9.  Use the annotation filter to show low throughput, high throughput, non-experimental, or all modifications.\n\nAnnotation extensions\n\nWhere available, annotation extensions are displayed underneath the ontology term name. The extensions provide additional specificity to the annotation, often by linking the term to another ontology term or a gene product via a relationship. Example:\n\nmodified residue T167 increased during cellular response to nitrogen starvation in absence of cdc2\n\nPossible extensions include the gene product that adds or removes a modification, specifying modified residues, or specifying that the modification is observed during a phase or process.\n\nThe annotation extension field can also be used to indicate modification site occupancy, for experiments that measure the proportion of copies of the protein (or RNA) that have the modification.\n\nMultiplicity\n\nSome modifications have a multiplicity extension which is number of modified sites detected within the same peptide fragment (relevant to mass spec. methods).\n\nExample from nnk1:\n\n[multiplicity gene page modification ontology annotation]\n",
       "heading" : "Gene page: Modifications",
       "id" : "documentation/gene-page-modifications"
    },
@@ -374,6 +374,11 @@
       "heading" : "Introns",
       "id" : "downloads/intron-data"
    },
+   {
+      "content" : "\n\nAll annotated S. pombe protein modifications are available to download in TSV format:\n\n-  pombase-chado.modifications.gz\n\nColumns\n\n1.  gene_systematic_id - The PomBase systematic ID, example: “SPAC1002.02”\n2.  gene_name - Gene name, if any, example: pom34\n3.  modification_term_id - An ontology term from the PSI-MOD protein modification ontology, example: MOD:01148\n4.  evidence - Evidence code (see below), example: mass spectrometry evidence\n5.  modification - Modified amino acid with position, example: K186\n6.  extension - Extra annotation details (see below), example: “added_by(PomBase:SPCC24B10.07),added_during(GO:0006995),occupancy(10),removed_by(PomBase:SPAC227.07c)”\n7.  reference - Source of the annotation, example: PMID:37970674\n8.  taxon_id - NCBI taxonomy database ID, example: 4896 (S. pombe)\n9.  date - Annotation date, example: 2023-11-16\n10. assigned_by - Database that created this annotation, example: PomBase\n\nCurrent protein modification evidence codes:\n\n-  author statement without traceable support used in manual assertion\n-  combinatorial computational and experimental evidence used in manual assertion\n-  curator inference used in manual assertion\n-  differential hybridization evidence\n-  experimental evidence\n-  experimental evidence used in manual assertion\n-  high throughput evidence used in manual assertion\n-  Inferred from Direct Assay\n-  Inferred from Mutant Phenotype\n-  Inferred from Sequence Model\n-  Inferred from Sequence or Structural Similarity\n-  mass spectrometry evidence\n-  match to sequence model evidence used in manual assertion\n-  neural network method evidence used in manual assertion\n-  sequence similarity evidence used in manual assertion\n-  Traceable Author Statement\n-  tryptic phosphopeptide mapping assay evidence used in automatic assertion\n\nAnnotation extensions for modifications\n\nThe extension is used to record extra annotation details that are not captured in the other columns. The extensions details are also available in the modifications section of the gene pages.\n\nFor example, taf12:\n\n[taf12 modification extensions]\n\nThis extension system is also used for GO and FYPO annotations.\n\nPossible extensions include:\n\n-  added_by\n-  removed_by\n-  affected_by\n-  added_during\n-  present_during\n-  increased_during\n-  level_fluctuates_during\n-  increased_in_presence_of\n-  multiplicity\n",
+      "heading" : "Protein modifications",
+      "id" : "downloads/modifications"
+   },
    {
       "content" : "\n\nThese files are available in the names and IDs directory\n\nSystematic ID to UniProt accession number\n\n-  PomBase2UniProt.tsv tab-delimited file with the PomBase systematic identifier for each protein-coding gene mapped to the corresponding UniProt accession number\n\nGene names\n\n-  gene_IDs_names.tsv tab-delimited file of systematic ID, primary gene name (where assigned), and all synonyms for each gene\n\n-  gene_IDs_names_products.tsv tab-delimited file of systematic ID, primary gene name (where assigned), chromosome, product description, UniProtKB accession, all synonyms, and product type (protein coding, ncRNA, etc.) for each gene\n\nSystematic ID to gene product\n\nFiles include systematic name, primary name (where assigned), synonyms (where assigned), and gene product description\n\n-  sysID2product.tsv protein-coding genes\n-  sysID2product.rna.tsv non-coding RNA genes\n-  pseudogeneIDs.tsv pseudogenes\n\nNote: A tab-delimited file of systematic identifiers mapped to EC numbers was previously maintained, but has not been updated since March 2012. The most recent version of the gp2EC.txt file is available in the archive, but because it is out of date it may contain errors or omissions.\n",
       "heading" : "PomBase name and identifier mappings",
@@ -385,7 +390,7 @@
       "id" : "downloads/phenotype-annotations"
    },
    {
-      "content" : "\n\nThe full protein dataset is available in FASTA format (link downloads gzipped file from PomBase).\n\nThe protein data directory contains assorted data (see the README for file formats):\n\n-  PeptideStats.tsv - Predicted molecular weight (kDa), predicted pI, charge, length (residues), codon adaptation index (CAI)\n-  protein_domains_and_features.tsv - Protein features such as domains and family assignments\n-  aa_composition.tsv - Amino acid composition\n-  transmembrane_domain_coords_and_seqs.tsv - Sequences and coordinates for transmembrane domains\n\nAlso see the protein modification annotations directory.\n",
+      "content" : "\n\nThe full protein dataset is available in FASTA format (link downloads gzipped file from PomBase).\n\nThe protein data directory contains assorted data (see the README for file formats):\n\n-  PeptideStats.tsv - Predicted molecular weight (kDa), predicted pI, charge, length (residues), codon adaptation index (CAI)\n-  protein_domains_and_features.tsv - Protein features such as domains and family assignments\n-  aa_composition.tsv - Amino acid composition\n-  transmembrane_domain_coords_and_seqs.tsv - Sequences and coordinates for transmembrane domains\n\nSee also the PomBase protein modification annotations.\n",
       "heading" : "Protein datasets",
       "id" : "downloads/protein-datasets"
    },
diff --git a/src/app/config/graphical_abstract_files.json b/src/app/config/graphical_abstract_files.json
index ddaf6bfa..6453ade6 100644
--- a/src/app/config/graphical_abstract_files.json
+++ b/src/app/config/graphical_abstract_files.json
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diff --git a/src/app/documentation/docs/docs.component.html b/src/app/documentation/docs/docs.component.html
index 6c7929e5..1c5577c0 100644
--- a/src/app/documentation/docs/docs.component.html
+++ b/src/app/documentation/docs/docs.component.html
@@ -5099,8 +5099,8 @@ <h3 id="annotation-datasets">Annotation datasets</h3>
 <td>Fission yeast orthologs of human disease associated genes with disease descriptions and <a href="https://mondo.monarchinitiative.org/">Mondo</a> ontology terms</td>
 </tr>
 <tr class="even">
-<td><a href="https://www.pombase.org/data/annotations/modifications/">Modifications</a></td>
-<td>Protein modification data file (RNA modifications to be added in future)</td>
+<td><a routerLink="/downloads/modifications">Modifications</a></td>
+<td>Protein modifications</td>
 </tr>
 <tr class="odd">
 <td><a href="https://www.pombase.org/data/orthologs/">Orthologs</a></td>
@@ -5137,9 +5137,9 @@ <h3 id="curated-inventories">Curated inventories</h3>
 <div *ngIf="section == 'documentation'">
 <app-page-contents-menu title="Documentation" titleRoute="/documentation">
 
-<div class="left-menu-part left-menu-item">General</div>
+<div class="left-menu-part left-menu-item"><span>General</span></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/getting-started">Getting started</a></div>
-<div class="left-menu-part left-menu-item">Gene pages</div>
+<div class="left-menu-part left-menu-item"><span>Gene pages</span></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/gene-page-basic-information">Basic information</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/gene-page-gene-ontology">Gene Ontology</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/gene-page-phenotypes">Phenotypes</a></div>
@@ -5167,13 +5167,13 @@ <h3 id="curated-inventories">Curated inventories</h3>
 <div class="left-menu-part left-menu-item"><a routerLink="/documentation/advanced-search">Advanced search</a></div>
 <div class="left-menu-part left-menu-item"><a routerLink="/documentation/id-mapper">Identifier mapper</a></div>
 <div class="left-menu-part left-menu-item"><a routerLink="/documentation/motif-search">Motif search</a></div>
-<div class="left-menu-part left-menu-item">Data submission file formats</div>
+<div class="left-menu-part left-menu-item"><span>Data submission file formats</span></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/phenotype-data-bulk-upload-format">Phenotype data</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/modification-data-bulk-upload-format">Modification data</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/qualitative-gene-expression-data-bulk-upload-format">Qualitative gene expression data</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/quantitative-gene-expression-data-bulk-upload-format">Quantitative gene expression data</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/documentation/data-submission-form-for-HTP-sequence-linked-data">HTP data for browser tracks</a></div>
-<div class="left-menu-part left-menu-item">Frequently Asked Questions (FAQ)</div>
+<div class="left-menu-part left-menu-item"><span>Frequently Asked Questions (FAQ)</span></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/faq/community">Community</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/faq/data-submission-and-formats">Data submission and formats</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/faq/finding-data">Finding data</a></div>
@@ -6272,6 +6272,7 @@ <h2 id="gene-page-literature">Gene page: Literature</h2>
   <div *ngIf="pageName == 'gene-page-modifications'">
 <h2 id="gene-page-modifications">Gene page: Modifications</h2>
 <p>The Modifications section lists protein modifications that have been manually curated, using terms from the <a href="http://obofoundry.org/ontology/mod.html">PSI-MOD</a> ontology, for protein-coding genes. PomBase will add RNA modifications to this section in the future, when relevant data are curated.</p>
+<p>Modifications for all genes are available to downloads <a routerLink="/downloads/modifications">in a single file</a>.</p>
 <h4 id="graphical-overview">Graphical overview</h4>
 <p>The overview show modifications where the residue position is known. More details are available by mouse-over of the displayed positions.</p>
 <p><a href="assets/gene_page_modification_overview.png"><img src="assets/gene_page_modification_overview.png" title="Protein modifications overview" class="screenshot" width="800" alt="overview gene page modification ontology annotation" /></a></p>
@@ -7839,7 +7840,7 @@ <h3 id="additional-notes">Additional notes:</h3>
 <div class="left-menu-part left-sub-menu-item"><span>Annotation datasets</span></div>
 <div class="left-menu-part left-sub-sub-menu-item"><a routerLink="/downloads/go-annotations">GO annotations</a></div>
 <div class="left-menu-part left-sub-sub-menu-item"><a routerLink="/downloads/phenotype-annotations">Phenotype annotations</a></div>
-<div class="left-menu-part left-sub-sub-menu-item"><a href="https://www.pombase.org/data/annotations/modifications/">Modifications</a></div>
+<div class="left-menu-part left-sub-sub-menu-item"><a routerLink="/downloads/modifications">Modifications</a></div>
 <div class="left-menu-part left-sub-sub-menu-item"><a href="https://www.pombase.org/data/orthologs/">Orthologs</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="//downloads/protein-datasets">Protein datasets</a></div>
 <div class="left-menu-part left-sub-menu-item"><a routerLink="/downloads/names-and-identifiers">Names and IDs</a></div>
@@ -7955,6 +7956,64 @@ <h5 id="legacy-intron-data">Legacy intron data</h5>
 <li>Donor frequency</li>
 <li>Branch frequency</li>
 <li>A README file is available with additional descriptions of file contents</li>
+</ul>
+
+  </div>
+  <div *ngIf="pageName == 'modifications'">
+<h3 id="protein-modifications">Protein modifications</h3>
+<p>All annotated <em>S. pombe</em> protein modifications are available to download in <a href="https://en.wikipedia.org/wiki/Tab-separated_values">TSV</a> format:</p>
+<ul>
+<li><a href="https://www.pombase.org/data/annotations/modifications/pombase-chado.modifications.gz">pombase-chado.modifications.gz</a></li>
+</ul>
+<h4 id="columns">Columns</h4>
+<ol type="1">
+<li><code>gene_systematic_id</code> - The PomBase systematic ID, example: “SPAC1002.02”</li>
+<li><code>gene_name</code> - Gene name, if any, example: pom34</li>
+<li><code>modification_term_id</code> - An ontology term from the <a href="https://www.psidev.info/protein-modifications">PSI-MOD protein modification ontology</a>, example: MOD:01148</li>
+<li><code>evidence</code> - Evidence code (see below), example: mass spectrometry evidence</li>
+<li><code>modification</code> - Modified amino acid with position, example: K186</li>
+<li><code>extension</code> - Extra annotation details (see below), example: “added_by(PomBase:SPCC24B10.07),added_during(GO:0006995),occupancy(10),removed_by(PomBase:SPAC227.07c)”</li>
+<li><code>reference</code> - Source of the annotation, example: PMID:37970674</li>
+<li><code>taxon_id</code> - <a href="https://www.ncbi.nlm.nih.gov/Taxonomy">NCBI taxonomy database ID</a>, example: <a href="https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=4896">4896 (<em>S. pombe</em>)</a></li>
+<li><code>date</code> - Annotation date, example: 2023-11-16</li>
+<li><code>assigned_by</code> - Database that created this annotation, example: PomBase</li>
+</ol>
+<h4 id="current-protein-modification-evidence-codes">Current protein modification evidence codes:</h4>
+<ul>
+<li>author statement without traceable support used in manual assertion</li>
+<li>combinatorial computational and experimental evidence used in manual assertion</li>
+<li>curator inference used in manual assertion</li>
+<li>differential hybridization evidence</li>
+<li>experimental evidence</li>
+<li>experimental evidence used in manual assertion</li>
+<li>high throughput evidence used in manual assertion</li>
+<li>Inferred from Direct Assay</li>
+<li>Inferred from Mutant Phenotype</li>
+<li>Inferred from Sequence Model</li>
+<li>Inferred from Sequence or Structural Similarity</li>
+<li>mass spectrometry evidence</li>
+<li>match to sequence model evidence used in manual assertion</li>
+<li>neural network method evidence used in manual assertion</li>
+<li>sequence similarity evidence used in manual assertion</li>
+<li>Traceable Author Statement</li>
+<li>tryptic phosphopeptide mapping assay evidence used in automatic assertion</li>
+</ul>
+<h4 id="annotation-extensions-for-modifications">Annotation extensions for modifications</h4>
+<p>The extension is used to record extra annotation details that are not captured in the other columns. The extensions details are also available in the <a href="">modifications section</a> of the gene pages.</p>
+<p>For example, <a href="https://www.pombase.org/gene/SPAC15A10.02">taf12</a>:</p>
+<p><img src="assets/modification-extension-example-taf12.png" class="screenshot" width="600" alt="taf12 modification extensions" /></p>
+<p>This extension system is also used for <a routerLink="/faq/what-annotation-extension">GO and FYPO annotations</a>.</p>
+<p>Possible extensions include:</p>
+<ul>
+<li><code>added_by</code></li>
+<li><code>removed_by</code></li>
+<li><code>affected_by</code></li>
+<li><code>added_during</code></li>
+<li><code>present_during</code></li>
+<li><code>increased_during</code></li>
+<li><code>level_fluctuates_during</code></li>
+<li><code>increased_in_presence_of</code></li>
+<li><code>multiplicity</code></li>
 </ul>
 
   </div>
@@ -8186,7 +8245,7 @@ <h3 id="protein-datasets">Protein datasets</h3>
 <li><a href="https://www.pombase.org/data/Protein_data/aa_composition.tsv">aa_composition.tsv</a> - Amino acid composition</li>
 <li><a href="https://www.pombase.org/data/Protein_data/transmembrane_domain_coords_and_seqs.tsv">transmembrane_domain_coords_and_seqs.tsv</a> - Sequences and coordinates for transmembrane domains</li>
 </ul>
-<p>Also see the <a href="https://www.pombase.org/data/annotations/modifications/">protein modification annotations</a> directory.</p>
+<p>See also the <a routerLink="/downloads/modifications">PomBase protein modification annotations</a>.</p>
 
   </div>
   </div>