diff --git a/extensions/ql-vscode/src/remote-queries/remote-queries-markdown-generation.ts b/extensions/ql-vscode/src/remote-queries/remote-queries-markdown-generation.ts
index 4f432c7cfec..0edd951101f 100644
--- a/extensions/ql-vscode/src/remote-queries/remote-queries-markdown-generation.ts
+++ b/extensions/ql-vscode/src/remote-queries/remote-queries-markdown-generation.ts
@@ -1,6 +1,7 @@
 import { createRemoteFileRef } from '../pure/location-link-utils';
+import { parseHighlightedLine, shouldHighlightLine } from '../pure/sarif-utils';
 import { RemoteQuery } from './remote-query';
-import { AnalysisAlert, AnalysisResults, FileLink } from './shared/analysis-result';
+import { AnalysisAlert, AnalysisResults, CodeSnippet, FileLink, HighlightedRegion } from './shared/analysis-result';
 
 // Each array item is a line of the markdown file.
 export type MarkdownFile = string[];
@@ -81,10 +82,11 @@ function generateMarkdownForInterpretedResult(interpretedResult: AnalysisAlert,
     interpretedResult.highlightedRegion?.endLine
   ));
   lines.push('');
-  const codeSnippet = interpretedResult.codeSnippet?.text;
+  const codeSnippet = interpretedResult.codeSnippet;
+  const highlightedRegion = interpretedResult.highlightedRegion;
   if (codeSnippet) {
     lines.push(
-      ...generateMarkdownForCodeSnippet(codeSnippet, language),
+      ...generateMarkdownForCodeSnippet(codeSnippet, language, highlightedRegion),
     );
   }
   const alertMessage = buildMarkdownAlertMessage(interpretedResult);
@@ -99,17 +101,43 @@ function generateMarkdownForInterpretedResult(interpretedResult: AnalysisAlert,
   return lines;
 }
 
-function generateMarkdownForCodeSnippet(codeSnippet: string, language: string): MarkdownFile {
+function generateMarkdownForCodeSnippet(
+  codeSnippet: CodeSnippet,
+  language: string,
+  highlightedRegion?: HighlightedRegion
+): MarkdownFile {
   const lines: MarkdownFile = [];
+  const snippetStartLine = codeSnippet.startLine || 0;
+  const codeLines = codeSnippet.text
+    .split('\n')
+    .map((line, index) =>
+      highlightCodeLines(line, index + snippetStartLine, highlightedRegion)
+    );
   lines.push(
     `<pre><code class="${language}">`,
-    ...codeSnippet.split('\n'),
+    ...codeLines,
     '</code></pre>',
   );
   lines.push('');
   return lines;
 }
 
+function highlightCodeLines(
+  line: string,
+  lineNumber: number,
+  highlightedRegion?: HighlightedRegion
+): string {
+  if (!highlightedRegion || !shouldHighlightLine(lineNumber, highlightedRegion)) {
+    return line;
+  }
+  const partiallyHighlightedLine = parseHighlightedLine(
+    line,
+    lineNumber,
+    highlightedRegion
+  );
+  return `${partiallyHighlightedLine.plainSection1}<strong>${partiallyHighlightedLine.highlightedSection}</strong>${partiallyHighlightedLine.plainSection2}`;
+}
+
 function buildMarkdownAlertMessage(interpretedResult: AnalysisAlert): string {
   let alertMessage = '';
   for (const token of interpretedResult.message.tokens) {
diff --git a/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo1.md b/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo1.md
index 651582ef7dd..10ced141122 100644
--- a/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo1.md
+++ b/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo1.md
@@ -5,7 +5,7 @@
 <pre><code class="javascript">
 function cleanupTemp() {
   let cmd = "rm -rf " + path.join(__dirname, "temp");
-  cp.execSync(cmd); // BAD
+  cp.execSync(<strong>cmd</strong>); // BAD
 }
 
 </code></pre>
@@ -19,7 +19,7 @@ function cleanupTemp() {
 <pre><code class="javascript">
 (function() {
 	cp.execFileSync('rm',  ['-rf', path.join(__dirname, "temp")]); // GOOD
-	cp.execSync('rm -rf ' + path.join(__dirname, "temp")); // BAD
+	cp.execSync(<strong>'rm -rf ' + path.join(__dirname, "temp")</strong>); // BAD
 
 	execa.shell('rm -rf ' + path.join(__dirname, "temp")); // NOT OK
 
@@ -34,7 +34,7 @@ function cleanupTemp() {
 <pre><code class="javascript">
 	cp.execSync('rm -rf ' + path.join(__dirname, "temp")); // BAD
 
-	execa.shell('rm -rf ' + path.join(__dirname, "temp")); // NOT OK
+	execa.shell(<strong>'rm -rf ' + path.join(__dirname, "temp")</strong>); // NOT OK
 	execa.shellSync('rm -rf ' + path.join(__dirname, "temp")); // NOT OK
 
 
@@ -49,7 +49,7 @@ function cleanupTemp() {
 <pre><code class="javascript">
 
 	execa.shell('rm -rf ' + path.join(__dirname, "temp")); // NOT OK
-	execa.shellSync('rm -rf ' + path.join(__dirname, "temp")); // NOT OK
+	execa.shellSync(<strong>'rm -rf ' + path.join(__dirname, "temp")</strong>); // NOT OK
 
 	const safe = "\"" + path.join(__dirname, "temp") + "\"";
 
diff --git a/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo2.md b/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo2.md
index b1882308893..dd419d6485e 100644
--- a/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo2.md
+++ b/extensions/ql-vscode/test/pure-tests/remote-queries/markdown-generation/interpreted-results/data/results-repo2.md
@@ -5,7 +5,7 @@
 <pre><code class="javascript">
   if (isWindows()) {
     //set for the current session and beyond
-    child_process.execSync(`setx path "${meteorPath}/;%path%`);
+    child_process.execSync(<strong>`setx path "${meteorPath}/;%path%`</strong>);
     return;
   }