Title: Identification and validation of a CD4 + T cell-related prognostic model to predict immune
responses in stage III-IV colorectal cancer
Version: 1 Date: 18 Nov 2024
Reviewer:  Gangjian Wang
Reviewer's report:
The study initially identified the potential association between CD4 T cell abundance and the
prognosis of stage III-IV colorectal cancer (CRC) using bulk public data. Subsequently, it
identified marker genes of CD4 T cells using single-cell data and explored the relationship
between these marker genes, prognosis, and immunotherapy by constructing a model. The
research approach is relatively clear and innovative. However, some modifications are still
needed to enhance the quality of the article.
1#Firstly, the paper presents a large amount of data and information, making it difficult to follow.
I suggest the authors streamline the manuscript for better clarity.
2#Various studies have explored biomarkers for immunotherapy in gastrointestinal tumors (see
PMID: 37440827). Why did the authors not evaluate this important aspect? I recommend
discussing this point.
3#The CIBERSORT algorithm requires the p-values of sample estimates to be provided in the
methods section.
4#The criteria and number of patients collected in the methods section need detailed explanation.
5#Additionally, the biological replicates for Figure 8E are not clearly specified.
The single-cell results in Figure 2 are not the main findings of the article. The heatmap contains
too many genes, making it unclear. It is suggested to remove the genes from Figure 2 and include
them in the supplementary materials.
6#Annotations should be added to the nomogram to aid reader understanding.
7#In the evaluation of drug sensitivity, focus should be placed on clinically commonly used
drugs.
8#The authors should provide additional explanations regarding the limitations of this work.
9#Additionally, some minor formatting issues need attention: Ensure the original quality of
images, such as Figure 4G. It is recommended to use the same color for the same groups within
a single image to facilitate reader comprehension.
Title: Identification and validation of a CD4 + T cell-related prognostic model to predict immune
responses in stage III-IV colorectal cancer
Version: 1 Date: 18 Nov 2024
Reviewer:  Gangjian Wang
Reviewer's report:
The study initially identified the potential association between CD4 T cell abundance and the
prognosis of stage III-IV colorectal cancer (CRC) using bulk public data. Subsequently, it
identified marker genes of CD4 T cells using single-cell data and explored the relationship
between these marker genes, prognosis, and immunotherapy by constructing a model. The
research approach is relatively clear and innovative. However, some modifications are still
needed to enhance the quality of the article.
1#Firstly, the paper presents a large amount of data and information, making it difficult to follow.
I suggest the authors streamline the manuscript for better clarity.
2#Various studies have explored biomarkers for immunotherapy in gastrointestinal tumors (see
PMID: 37440827). Why did the authors not evaluate this important aspect? I recommend
discussing this point.
3#The CIBERSORT algorithm requires the p-values of sample estimates to be provided in the
methods section.
4#The criteria and number of patients collected in the methods section need detailed explanation.
5#Additionally, the biological replicates for Figure 8E are not clearly specified.
The single-cell results in Figure 2 are not the main findings of the article. The heatmap contains
too many genes, making it unclear. It is suggested to remove the genes from Figure 2 and include
them in the supplementary materials.
6#Annotations should be added to the nomogram to aid reader understanding.
7#In the evaluation of drug sensitivity, focus should be placed on clinically commonly used
drugs.
8#The authors should provide additional explanations regarding the limitations of this work.
9#Additionally, some minor formatting issues need attention: Ensure the original quality of
images, such as Figure 4G. It is recommended to use the same color for the same groups within
a single image to facilitate reader comprehension.
Please review this paper.
user
Title: Identification and validation of a CD4 + T cell-related prognostic model to predict immune
responses in stage III-IV colorectal cancer
Version: 1 Date: 18 Nov 2024
Reviewer:  Gangjian Wang
Reviewer's report:
The study initially identified the potential association between CD4 T cell abundance and the
prognosis of stage III-IV colorectal cancer (CRC) using bulk public data. Subsequently, it
identified marker genes of CD4 T cells using single-cell data and explored the relationship
between these marker genes, prognosis, and immunotherapy by constructing a model. The
research approach is relatively clear and innovative. However, some modifications are still
needed to enhance the quality of the article.
1#Firstly, the paper presents a large amount of data and information, making it difficult to follow.
I suggest the authors streamline the manuscript for better clarity.
2#Various studies have explored biomarkers for immunotherapy in gastrointestinal tumors (see
PMID: 37440827). Why did the authors not evaluate this important aspect? I recommend
discussing this point.
3#The CIBERSORT algorithm requires the p-values of sample estimates to be provided in the
methods section.
4#The criteria and number of patients collected in the methods section need detailed explanation.
5#Additionally, the biological replicates for Figure 8E are not clearly specified.
The single-cell results in Figure 2 are not the main findings of the article. The heatmap contains
too many genes, making it unclear. It is suggested to remove the genes from Figure 2 and include
them in the supplementary materials.
6#Annotations should be added to the nomogram to aid reader understanding.
7#In the evaluation of drug sensitivity, focus should be placed on clinically commonly used
drugs.
8#The authors should provide additional explanations regarding the limitations of this work.
9#Additionally, some minor formatting issues need attention: Ensure the original quality of
images, such as Figure 4G. It is recommended to use the same color for the same groups within
a single image to facilitate reader comprehension.
assistant