diff --git a/docs/API/SEARCH.md b/docs/API/SEARCH.md
index 3a28a78..b67b62b 100644
--- a/docs/API/SEARCH.md
+++ b/docs/API/SEARCH.md
@@ -33,6 +33,7 @@ The API accepts a JSON object in the request body, where you define the focus mo
     ["human", "Hi, how are you?"],
     ["assistant", "I am doing well, how can I help you today?"]
   ],
+  "systemInstructions": "Focus on providing technical details about Perplexica's architecture.",
   "stream": false
 }
 ```
@@ -63,6 +64,8 @@ The API accepts a JSON object in the request body, where you define the focus mo
 
 - **`query`** (string, required): The search query or question.
 
+- **`systemInstructions`** (string, optional): Custom instructions provided by the user to guide the AI's response. These instructions are treated as user preferences and have lower priority than the system's core instructions. For example, you can specify a particular writing style, format, or focus area.
+
 - **`history`** (array, optional): An array of message pairs representing the conversation history. Each pair consists of a role (either 'human' or 'assistant') and the message content. This allows the system to use the context of the conversation to refine results. Example:
 
   ```json
diff --git a/sample.config.toml b/sample.config.toml
index 691b964..980e99d 100644
--- a/sample.config.toml
+++ b/sample.config.toml
@@ -22,5 +22,8 @@ MODEL_NAME = ""
 [MODELS.OLLAMA]
 API_URL = "" # Ollama API URL - http://host.docker.internal:11434
 
+[MODELS.DEEPSEEK]
+API_KEY = ""
+
 [API_ENDPOINTS]
 SEARXNG = "" # SearxNG API URL - http://localhost:32768
\ No newline at end of file
diff --git a/src/app/api/chat/route.ts b/src/app/api/chat/route.ts
index d48fbb6..e566edb 100644
--- a/src/app/api/chat/route.ts
+++ b/src/app/api/chat/route.ts
@@ -49,6 +49,7 @@ type Body = {
   files: Array<string>;
   chatModel: ChatModel;
   embeddingModel: EmbeddingModel;
+  systemInstructions: string;
 };
 
 const handleEmitterEvents = async (
@@ -278,6 +279,7 @@ export const POST = async (req: Request) => {
       embedding,
       body.optimizationMode,
       body.files,
+      body.systemInstructions,
     );
 
     const responseStream = new TransformStream();
diff --git a/src/app/api/config/route.ts b/src/app/api/config/route.ts
index 871bb21..39c1f84 100644
--- a/src/app/api/config/route.ts
+++ b/src/app/api/config/route.ts
@@ -7,6 +7,7 @@ import {
   getGroqApiKey,
   getOllamaApiEndpoint,
   getOpenaiApiKey,
+  getDeepseekApiKey,
   updateConfig,
 } from '@/lib/config';
 import {
@@ -53,6 +54,7 @@ export const GET = async (req: Request) => {
     config['anthropicApiKey'] = getAnthropicApiKey();
     config['groqApiKey'] = getGroqApiKey();
     config['geminiApiKey'] = getGeminiApiKey();
+    config['deepseekApiKey'] = getDeepseekApiKey();
     config['customOpenaiApiUrl'] = getCustomOpenaiApiUrl();
     config['customOpenaiApiKey'] = getCustomOpenaiApiKey();
     config['customOpenaiModelName'] = getCustomOpenaiModelName();
@@ -88,6 +90,9 @@ export const POST = async (req: Request) => {
         OLLAMA: {
           API_URL: config.ollamaApiUrl,
         },
+        DEEPSEEK: {
+          API_KEY: config.deepseekApiKey,
+        },
         CUSTOM_OPENAI: {
           API_URL: config.customOpenaiApiUrl,
           API_KEY: config.customOpenaiApiKey,
diff --git a/src/app/api/search/route.ts b/src/app/api/search/route.ts
index d3e98ca..970ec42 100644
--- a/src/app/api/search/route.ts
+++ b/src/app/api/search/route.ts
@@ -34,6 +34,7 @@ interface ChatRequestBody {
   query: string;
   history: Array<[string, string]>;
   stream?: boolean;
+  systemInstructions?: string;
 }
 
 export const POST = async (req: Request) => {
@@ -125,6 +126,7 @@ export const POST = async (req: Request) => {
       embeddings,
       body.optimizationMode,
       [],
+      body.systemInstructions || '',
     );
 
     if (!body.stream) {
diff --git a/src/app/settings/page.tsx b/src/app/settings/page.tsx
index efe54d5..8eee9a4 100644
--- a/src/app/settings/page.tsx
+++ b/src/app/settings/page.tsx
@@ -20,6 +20,7 @@ interface SettingsType {
   anthropicApiKey: string;
   geminiApiKey: string;
   ollamaApiUrl: string;
+  deepseekApiKey: string;
   customOpenaiApiKey: string;
   customOpenaiApiUrl: string;
   customOpenaiModelName: string;
@@ -54,6 +55,38 @@ const Input = ({ className, isSaving, onSave, ...restProps }: InputProps) => {
   );
 };
 
+interface TextareaProps extends React.InputHTMLAttributes<HTMLTextAreaElement> {
+  isSaving?: boolean;
+  onSave?: (value: string) => void;
+}
+
+const Textarea = ({
+  className,
+  isSaving,
+  onSave,
+  ...restProps
+}: TextareaProps) => {
+  return (
+    <div className="relative">
+      <textarea
+        placeholder="Any special instructions for the LLM"
+        className="placeholder:text-sm text-sm w-full flex items-center justify-between p-3 bg-light-secondary dark:bg-dark-secondary rounded-lg hover:bg-light-200 dark:hover:bg-dark-200 transition-colors"
+        rows={4}
+        onBlur={(e) => onSave?.(e.target.value)}
+        {...restProps}
+      />
+      {isSaving && (
+        <div className="absolute right-3 top-3">
+          <Loader2
+            size={16}
+            className="animate-spin text-black/70 dark:text-white/70"
+          />
+        </div>
+      )}
+    </div>
+  );
+};
+
 const Select = ({
   className,
   options,
@@ -111,6 +144,7 @@ const Page = () => {
   const [isLoading, setIsLoading] = useState(false);
   const [automaticImageSearch, setAutomaticImageSearch] = useState(false);
   const [automaticVideoSearch, setAutomaticVideoSearch] = useState(false);
+  const [systemInstructions, setSystemInstructions] = useState<string>('');
   const [savingStates, setSavingStates] = useState<Record<string, boolean>>({});
 
   useEffect(() => {
@@ -172,6 +206,8 @@ const Page = () => {
         localStorage.getItem('autoVideoSearch') === 'true',
       );
 
+      setSystemInstructions(localStorage.getItem('systemInstructions')!);
+
       setIsLoading(false);
     };
 
@@ -328,6 +364,8 @@ const Page = () => {
         localStorage.setItem('embeddingModelProvider', value);
       } else if (key === 'embeddingModel') {
         localStorage.setItem('embeddingModel', value);
+      } else if (key === 'systemInstructions') {
+        localStorage.setItem('systemInstructions', value);
       }
     } catch (err) {
       console.error('Failed to save:', err);
@@ -473,6 +511,19 @@ const Page = () => {
               </div>
             </SettingsSection>
 
+            <SettingsSection title="System Instructions">
+              <div className="flex flex-col space-y-4">
+                <Textarea
+                  value={systemInstructions}
+                  isSaving={savingStates['systemInstructions']}
+                  onChange={(e) => {
+                    setSystemInstructions(e.target.value);
+                  }}
+                  onSave={(value) => saveConfig('systemInstructions', value)}
+                />
+              </div>
+            </SettingsSection>
+
             <SettingsSection title="Model Settings">
               {config.chatModelProviders && (
                 <div className="flex flex-col space-y-4">
@@ -788,6 +839,25 @@ const Page = () => {
                     onSave={(value) => saveConfig('geminiApiKey', value)}
                   />
                 </div>
+
+                <div className="flex flex-col space-y-1">
+                  <p className="text-black/70 dark:text-white/70 text-sm">
+                    Deepseek API Key
+                  </p>
+                  <Input
+                    type="text"
+                    placeholder="Deepseek API Key"
+                    value={config.deepseekApiKey}
+                    isSaving={savingStates['deepseekApiKey']}
+                    onChange={(e) => {
+                      setConfig((prev) => ({
+                        ...prev!,
+                        deepseekApiKey: e.target.value,
+                      }));
+                    }}
+                    onSave={(value) => saveConfig('deepseekApiKey', value)}
+                  />
+                </div>
               </div>
             </SettingsSection>
           </div>
diff --git a/src/components/ChatWindow.tsx b/src/components/ChatWindow.tsx
index c4d6bca..74b2798 100644
--- a/src/components/ChatWindow.tsx
+++ b/src/components/ChatWindow.tsx
@@ -478,6 +478,7 @@ const ChatWindow = ({ id }: { id?: string }) => {
           name: embeddingModelProvider.name,
           provider: embeddingModelProvider.provider,
         },
+        systemInstructions: localStorage.getItem('systemInstructions'),
       }),
     });
 
diff --git a/src/components/MessageBox.tsx b/src/components/MessageBox.tsx
index 4473c3b..b049185 100644
--- a/src/components/MessageBox.tsx
+++ b/src/components/MessageBox.tsx
@@ -48,6 +48,7 @@ const MessageBox = ({
   const [speechMessage, setSpeechMessage] = useState(message.content);
 
   useEffect(() => {
+    const citationRegex = /\[([^\]]+)\]/g;
     const regex = /\[(\d+)\]/g;
     let processedMessage = message.content;
 
@@ -67,11 +68,33 @@ const MessageBox = ({
     ) {
       setParsedMessage(
         processedMessage.replace(
-          regex,
-          (_, number) =>
-            `<a href="${
-              message.sources?.[number - 1]?.metadata?.url
-            }" target="_blank" className="bg-light-secondary dark:bg-dark-secondary px-1 rounded ml-1 no-underline text-xs text-black/70 dark:text-white/70 relative">${number}</a>`,
+          citationRegex,
+          (_, capturedContent: string) => {
+            const numbers = capturedContent
+              .split(',')
+              .map((numStr) => numStr.trim());
+
+            const linksHtml = numbers
+              .map((numStr) => {
+                const number = parseInt(numStr);
+
+                if (isNaN(number) || number <= 0) {
+                  return `[${numStr}]`;
+                }
+
+                const source = message.sources?.[number - 1];
+                const url = source?.metadata?.url;
+
+                if (url) {
+                  return `<a href="${url}" target="_blank" className="bg-light-secondary dark:bg-dark-secondary px-1 rounded ml-1 no-underline text-xs text-black/70 dark:text-white/70 relative">${numStr}</a>`;
+                } else {
+                  return `[${numStr}]`;
+                }
+              })
+              .join('');
+
+            return linksHtml;
+          },
         ),
       );
       return;
diff --git a/src/lib/config.ts b/src/lib/config.ts
index ef99eed..2831214 100644
--- a/src/lib/config.ts
+++ b/src/lib/config.ts
@@ -25,6 +25,9 @@ interface Config {
     OLLAMA: {
       API_URL: string;
     };
+    DEEPSEEK: {
+      API_KEY: string;
+    };
     CUSTOM_OPENAI: {
       API_URL: string;
       API_KEY: string;
@@ -63,6 +66,8 @@ export const getSearxngApiEndpoint = () =>
 
 export const getOllamaApiEndpoint = () => loadConfig().MODELS.OLLAMA.API_URL;
 
+export const getDeepseekApiKey = () => loadConfig().MODELS.DEEPSEEK.API_KEY;
+
 export const getCustomOpenaiApiKey = () =>
   loadConfig().MODELS.CUSTOM_OPENAI.API_KEY;
 
diff --git a/src/lib/prompts/academicSearch.ts b/src/lib/prompts/academicSearch.ts
index c2946ff..d015910 100644
--- a/src/lib/prompts/academicSearch.ts
+++ b/src/lib/prompts/academicSearch.ts
@@ -51,6 +51,10 @@ export const academicSearchResponsePrompt = `
     - If no relevant information is found, say: "Hmm, sorry I could not find any relevant information on this topic. Would you like me to search again or ask something else?" Be transparent about limitations and suggest alternatives or ways to reframe the query.
     - You are set on focus mode 'Academic', this means you will be searching for academic papers and articles on the web.
     
+    ### User instructions
+    These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+    {systemInstructions}
+
     ### Example Output
     - Begin with a brief introduction summarizing the event or query topic.
     - Follow with detailed sections under clear headings, covering all aspects of the query if possible.
diff --git a/src/lib/prompts/redditSearch.ts b/src/lib/prompts/redditSearch.ts
index fc71957..577fa82 100644
--- a/src/lib/prompts/redditSearch.ts
+++ b/src/lib/prompts/redditSearch.ts
@@ -51,6 +51,10 @@ export const redditSearchResponsePrompt = `
     - If no relevant information is found, say: "Hmm, sorry I could not find any relevant information on this topic. Would you like me to search again or ask something else?" Be transparent about limitations and suggest alternatives or ways to reframe the query.
     - You are set on focus mode 'Reddit', this means you will be searching for information, opinions and discussions on the web using Reddit.
     
+    ### User instructions
+    These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+    {systemInstructions}
+
     ### Example Output
     - Begin with a brief introduction summarizing the event or query topic.
     - Follow with detailed sections under clear headings, covering all aspects of the query if possible.
diff --git a/src/lib/prompts/webSearch.ts b/src/lib/prompts/webSearch.ts
index d8269c8..1a431ea 100644
--- a/src/lib/prompts/webSearch.ts
+++ b/src/lib/prompts/webSearch.ts
@@ -1,6 +1,6 @@
 export const webSearchRetrieverPrompt = `
 You are an AI question rephraser. You will be given a conversation and a follow-up question,  you will have to rephrase the follow up question so it is a standalone question and can be used by another LLM to search the web for information to answer it.
-If it is a smple writing task or a greeting (unless the greeting contains a question after it) like Hi, Hello, How are you, etc. than a question then you need to return \`not_needed\` as the response (This is because the LLM won't need to search the web for finding information on this topic).
+If it is a simple writing task or a greeting (unless the greeting contains a question after it) like Hi, Hello, How are you, etc. than a question then you need to return \`not_needed\` as the response (This is because the LLM won't need to search the web for finding information on this topic).
 If the user asks some question from some URL or wants you to summarize a PDF or a webpage (via URL) you need to return the links inside the \`links\` XML block and the question inside the \`question\` XML block. If the user wants to you to summarize the webpage or the PDF you need to return \`summarize\` inside the \`question\` XML block in place of a question and the link to summarize in the \`links\` XML block.
 You must always return the rephrased question inside the \`question\` XML block, if there are no links in the follow-up question then don't insert a \`links\` XML block in your response.
 
@@ -92,6 +92,10 @@ export const webSearchResponsePrompt = `
     - If the user provides vague input or if relevant information is missing, explain what additional details might help refine the search.
     - If no relevant information is found, say: "Hmm, sorry I could not find any relevant information on this topic. Would you like me to search again or ask something else?" Be transparent about limitations and suggest alternatives or ways to reframe the query.
 
+    ### User instructions
+    These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+    {systemInstructions}
+
     ### Example Output
     - Begin with a brief introduction summarizing the event or query topic.
     - Follow with detailed sections under clear headings, covering all aspects of the query if possible.
diff --git a/src/lib/prompts/wolframAlpha.ts b/src/lib/prompts/wolframAlpha.ts
index 40410c1..63145dd 100644
--- a/src/lib/prompts/wolframAlpha.ts
+++ b/src/lib/prompts/wolframAlpha.ts
@@ -51,6 +51,10 @@ export const wolframAlphaSearchResponsePrompt = `
     - If no relevant information is found, say: "Hmm, sorry I could not find any relevant information on this topic. Would you like me to search again or ask something else?" Be transparent about limitations and suggest alternatives or ways to reframe the query.
     - You are set on focus mode 'Wolfram Alpha', this means you will be searching for information on the web using Wolfram Alpha. It is a computational knowledge engine that can answer factual queries and perform computations.
     
+    ### User instructions
+    These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+    {systemInstructions}
+
     ### Example Output
     - Begin with a brief introduction summarizing the event or query topic.
     - Follow with detailed sections under clear headings, covering all aspects of the query if possible.
diff --git a/src/lib/prompts/writingAssistant.ts b/src/lib/prompts/writingAssistant.ts
index f56bf47..565827a 100644
--- a/src/lib/prompts/writingAssistant.ts
+++ b/src/lib/prompts/writingAssistant.ts
@@ -7,6 +7,10 @@ You have to cite the answer using [number] notation. You must cite the sentences
 Place these citations at the end of that particular sentence. You can cite the same sentence multiple times if it is relevant to the user's query like [number1][number2].
 However you do not need to cite it using the same number. You can use different numbers to cite the same sentence multiple times. The number refers to the number of the search result (passed in the context) used to generate that part of the answer.
 
+### User instructions
+These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+{systemInstructions}
+
 <context>
 {context}
 </context>
diff --git a/src/lib/prompts/youtubeSearch.ts b/src/lib/prompts/youtubeSearch.ts
index 5805b54..9898016 100644
--- a/src/lib/prompts/youtubeSearch.ts
+++ b/src/lib/prompts/youtubeSearch.ts
@@ -51,6 +51,10 @@ export const youtubeSearchResponsePrompt = `
     - If no relevant information is found, say: "Hmm, sorry I could not find any relevant information on this topic. Would you like me to search again or ask something else?" Be transparent about limitations and suggest alternatives or ways to reframe the query.
     - You are set on focus mode 'Youtube', this means you will be searching for videos on the web using Youtube and providing information based on the video's transcrip
     
+    ### User instructions
+    These instructions are shared to you by the user and not by the system. You will have to follow them but give them less priority than the above instructions. If the user has provided specific instructions or preferences, incorporate them into your response while adhering to the overall guidelines.
+    {systemInstructions}
+
     ### Example Output
     - Begin with a brief introduction summarizing the event or query topic.
     - Follow with detailed sections under clear headings, covering all aspects of the query if possible.
diff --git a/src/lib/providers/deepseek.ts b/src/lib/providers/deepseek.ts
new file mode 100644
index 0000000..88f02ec
--- /dev/null
+++ b/src/lib/providers/deepseek.ts
@@ -0,0 +1,44 @@
+import { ChatOpenAI } from '@langchain/openai';
+import { getDeepseekApiKey } from '../config';
+import { ChatModel } from '.';
+import { BaseChatModel } from '@langchain/core/language_models/chat_models';
+
+const deepseekChatModels: Record<string, string>[] = [
+  {
+    displayName: 'Deepseek Chat (Deepseek V3)',
+    key: 'deepseek-chat',
+  },
+  {
+    displayName: 'Deepseek Reasoner (Deepseek R1)',
+    key: 'deepseek-reasoner',
+  },
+];
+
+export const loadDeepseekChatModels = async () => {
+  const deepseekApiKey = getDeepseekApiKey();
+
+  if (!deepseekApiKey) return {};
+
+  try {
+    const chatModels: Record<string, ChatModel> = {};
+
+    deepseekChatModels.forEach((model) => {
+      chatModels[model.key] = {
+        displayName: model.displayName,
+        model: new ChatOpenAI({
+          openAIApiKey: deepseekApiKey,
+          modelName: model.key,
+          temperature: 0.7,
+          configuration: {
+            baseURL: 'https://api.deepseek.com',
+          },
+        }) as unknown as BaseChatModel,
+      };
+    });
+
+    return chatModels;
+  } catch (err) {
+    console.error(`Error loading Deepseek models: ${err}`);
+    return {};
+  }
+};
diff --git a/src/lib/providers/index.ts b/src/lib/providers/index.ts
index c32d0fa..eef212f 100644
--- a/src/lib/providers/index.ts
+++ b/src/lib/providers/index.ts
@@ -12,6 +12,7 @@ import { loadGroqChatModels } from './groq';
 import { loadAnthropicChatModels } from './anthropic';
 import { loadGeminiChatModels, loadGeminiEmbeddingModels } from './gemini';
 import { loadTransformersEmbeddingsModels } from './transformers';
+import { loadDeepseekChatModels } from './deepseek';
 
 export interface ChatModel {
   displayName: string;
@@ -32,6 +33,7 @@ export const chatModelProviders: Record<
   groq: loadGroqChatModels,
   anthropic: loadAnthropicChatModels,
   gemini: loadGeminiChatModels,
+  deepseek: loadDeepseekChatModels,
 };
 
 export const embeddingModelProviders: Record<