diff --git a/DESCRIPTION b/DESCRIPTION
index 96bfa28..248c572 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -38,14 +38,14 @@ Imports:
     stats,
     tidyr,
     utils,
-    yulab.utils (>= 0.2.3)
+    yulab.utils (>= 0.2.3),
+    ggplot2
 Suggests:
     AnnotationHub,
     BiocManager,
     DOSE,
     fanyi (>= 0.1.0),
     ggtangle,
-    jsonlite,
     readr,
     org.Hs.eg.db,
     quarto,
diff --git a/NAMESPACE b/NAMESPACE
index 5c189ad..9f81f09 100644
--- a/NAMESPACE
+++ b/NAMESPACE
@@ -149,11 +149,16 @@ importFrom(enrichplot,goplot)
 importFrom(enrichplot,gseaplot)
 importFrom(enrichplot,heatplot)
 importFrom(enrichplot,ridgeplot)
+importFrom(ggplot2,aes)
+importFrom(ggplot2,geom_label)
+importFrom(ggplot2,geom_point)
+importFrom(ggplot2,ggplot)
+importFrom(ggplot2,ggtitle)
+importFrom(ggplot2,scale_color_manual)
+importFrom(ggplot2,theme_void)
 importFrom(gson,gson)
 importFrom(gson,read.gmt)
 importFrom(gson,read.gmt.wp)
-importFrom(jsonlite,fromJSON)
-importFrom(jsonlite,toJSON)
 importFrom(magrittr,"%<>%")
 importFrom(magrittr,"%>%")
 importFrom(methods,is)
@@ -166,6 +171,7 @@ importFrom(rlang,"%||%")
 importFrom(rlang,.data)
 importFrom(rlang,check_installed)
 importFrom(rlang,quos)
+importFrom(rlang,sym)
 importFrom(stats,formula)
 importFrom(stats,setNames)
 importFrom(tidyr,gather)
diff --git a/R/gson.R b/R/gson.R
index f4f848e..d44ea40 100644
--- a/R/gson.R
+++ b/R/gson.R
@@ -149,7 +149,7 @@ gson_WP <- function(organism) {
 #'
 #' @examples
 #'  data = data.frame(gene_id = "gene1",
-#'                    go_id = c("GO:0035492", "GO:0009764", "GO:0031063", "GO:0033714", "GO:0036349"))
+#'                    go_id = c("GO:0035492", "GO:0009764", "GO:0031040", "GO:0033714", "GO:0036349"))
 #'  gson_GO_local(data, species = "E. coli")
 gson_GO_local <- function(data,
                      ont = c("ALL", "BP", "CC", "MF"),
@@ -424,4 +424,4 @@ kegg_release = function(db){
   y = readLines(url)
   release <- sub("\\w+\\s+", "", y[grep('Release', y)])
   return(release)
-}
\ No newline at end of file
+}
diff --git a/R/interpret.R b/R/interpret.R
index 6b58609..caa717b 100644
--- a/R/interpret.R
+++ b/R/interpret.R
@@ -269,6 +269,10 @@ run_agent_synthesizer <- function(pathways, detective_report, context, model, ap
 #' @param n_pathways Number of top significant pathways to include in the analysis. Default is 20.
 #' @param model The LLM model to use. Default is "deepseek-chat". Supported models include "deepseek-chat", "glm-4", "qwen-turbo" etc.
 #' @param api_key The API key for the LLM. If NULL, it tries to fetch from `getOption('yulab_translate')` based on the model.
+#' @param task Task type, default is "interpretation". Other options include "cell_type"/"annotation" and "phenotype"/"phenotyping".
+#' @param prior Optional prior knowledge (e.g., a biological hypothesis) to guide the task.
+#' @param add_ppi Boolean, whether to use PPI network integration.
+#' @param gene_fold_change Named vector of logFC for expression context.
 #' @return A character string containing the LLM-generated interpretation.
 #' @author Guangchuang Yu
 #' @export
@@ -847,7 +851,6 @@ Ensure the response is a valid JSON object. Do not include any markdown formatti
     return(base_prompt)
 }
 
-#' @importFrom jsonlite toJSON fromJSON
 call_llm_fanyi <- function(prompt, model, api_key) {
     if (!requireNamespace("fanyi", quietly = TRUE)) {
         stop("Package 'fanyi' is required for interpret(). Please install it.")
diff --git a/R/plot_interpret.R b/R/plot_interpret.R
index af91430..1484873 100644
--- a/R/plot_interpret.R
+++ b/R/plot_interpret.R
@@ -3,7 +3,10 @@
 #' @title plot
 #' @param x An `interpretation` object.
 #' @param layout Graph layout, default is "nicely".
-#' @param ... Additional arguments passed to `ggtangle::ggtangle`.
+#' @param ... Additional arguments passed to `ggplot2::ggplot`.
+#' @importFrom ggplot2 ggplot geom_label geom_point aes scale_color_manual
+#' @importFrom ggplot2 theme_void ggtitle
+#' @importFrom rlang sym
 #' @export
 plot.interpretation <- function(x, layout = "nicely", ...) {
     
@@ -26,8 +29,8 @@ plot.interpretation <- function(x, layout = "nicely", ...) {
     # Add edges
     # We try to map interaction type to color if available
     if ("interaction" %in% igraph::edge_attr_names(g)) {
-        p <- p + ggtangle::geom_edge(ggplot2::aes(color = interaction)) +
-             ggplot2::scale_color_manual(values = c(
+        p <- p + ggtangle::geom_edge(aes(color = !!sym("interaction"))) +
+             scale_color_manual(values = c(
                  activation = "green3", 
                  inhibition = "red3", 
                  repression = "red3",
@@ -40,15 +43,15 @@ plot.interpretation <- function(x, layout = "nicely", ...) {
     
     # Add nodes and labels
     p <- p + geom_point(size = 5, color = "lightblue") + 
-         geom_label(ggplot2::aes(label = name)) +
-         ggplot2::theme_void()
+         geom_label(aes(label = !!sym("name"))) +
+         theme_void()
     
     main_title <- "Refined Regulatory Network"
     if (!is.null(x$cluster)) {
         main_title <- paste0(main_title, " (", x$cluster, ")")
     }
     
-    p <- p + ggplot2::ggtitle(main_title)
+    p <- p + ggtitle(main_title)
     
     return(p)
 }
diff --git a/man/gson_GO_local.Rd b/man/gson_GO_local.Rd
index a3608b8..5319be0 100644
--- a/man/gson_GO_local.Rd
+++ b/man/gson_GO_local.Rd
@@ -23,6 +23,6 @@ Build a gson object that annotate Gene Ontology
 }
 \examples{
  data = data.frame(gene_id = "gene1",
-                   go_id = c("GO:0035492", "GO:0009764", "GO:0031063", "GO:0033714", "GO:0036349"))
+                   go_id = c("GO:0035492", "GO:0009764", "GO:0031040", "GO:0033714", "GO:0036349"))
  gson_GO_local(data, species = "E. coli")
 }
diff --git a/man/interpret.Rd b/man/interpret.Rd
index eb2a810..ee1779c 100644
--- a/man/interpret.Rd
+++ b/man/interpret.Rd
@@ -26,6 +26,14 @@ interpret(
 \item{model}{The LLM model to use. Default is "deepseek-chat". Supported models include "deepseek-chat", "glm-4", "qwen-turbo" etc.}
 
 \item{api_key}{The API key for the LLM. If NULL, it tries to fetch from `getOption('yulab_translate')` based on the model.}
+
+\item{task}{Task type, default is "interpretation". Other options include "cell_type"/"annotation" and "phenotype"/"phenotyping".}
+
+\item{prior}{Optional prior knowledge (e.g., a biological hypothesis) to guide the task.}
+
+\item{add_ppi}{Boolean, whether to use PPI network integration.}
+
+\item{gene_fold_change}{Named vector of logFC for expression context.}
 }
 \value{
 A character string containing the LLM-generated interpretation.
diff --git a/man/plot.interpretation.Rd b/man/plot.interpretation.Rd
index 373e5b1..757dbad 100644
--- a/man/plot.interpretation.Rd
+++ b/man/plot.interpretation.Rd
@@ -11,7 +11,7 @@
 
 \item{layout}{Graph layout, default is "nicely".}
 
-\item{...}{Additional arguments passed to `ggtangle::ggtangle`.}
+\item{...}{Additional arguments passed to `ggplot2::ggplot`.}
 }
 \description{
 plot