Reviewer's report
Title:Association of polymorphism of PTPN 11 encoding SHP-2 with gastric
atrophy but not gastric cancer in Helicobacter pylori seropositive Chinese
population
Version: 1Date:9 May 2012
Reviewer: Asahi Hishida
Reviewer's report:
The authors investigated the association of htSNPs in the PTPN11 gene with
gastric atrophy (GA) and gastric cancer (GC) in Chinese population, and found
the novel association that rs12423190 was associated with GA. Although the
sample size for gastric atrophy is relatively small, this reviewer thinks it is worth
being published in this journal after the following minor revisions, considering the
importance of the present finding in the field of genetic epidemiology of H.
pylori-induced gastric precancerous lesions.
Minor Essential Revisions:
1) In the Methods section: I wonder whether the PG criteria used for GA
screening (<82.3 for PG I and <6.05 for PG I/II) are really appropriate; is the
reference [23] raised by the authors the only report that confirmed these criteria?
If so, the number confirmatory studies may be insufficient to draw a reliable
diagnosis, which thus should be described as the limitation.
2) Please spell out "CVs".
3) "Selection of Tagging SNPs": the LD data (D' and r2) should be moved into the
Results section.
4) If possible, please describe briefly the rationale used in the HAPSTAT
software.
5) Cray would be "Cary".
6) Near the end part of the Discussion: "In addition, we demonstrated that gastric
cancer patients had high prevalence of both HP seropositivity and GA... ,
implying the connection of genetic factors..." sounds rather ambiguous. The
authors should clearly describe to which step of gastric pathogenesis (i.e., HP
infection, GA, GC) which genetic factor may contribute to, etc.
7) This reviewer wonders why the prevalence of HP(+) GA is relatively low in
Chinese population. Is there any other reports that compared its prevalence
among different East Asian populations? How are the genotype frequencies of
PTPN11 SNPs among the races/ethnicities?
Level of interest: An article whose findings are important to those with closely
related research interests
Quality of written English: Needs some language corrections before being
published
Statistical review: No, the manuscript does not need to be seen by a
statistician.
Reviewer's report
Title:Association of polymorphism of PTPN 11 encoding SHP-2 with gastric
atrophy but not gastric cancer in Helicobacter pylori seropositive Chinese
population
Version: 1Date:9 May 2012
Reviewer: Asahi Hishida
Reviewer's report:
The authors investigated the association of htSNPs in the PTPN11 gene with
gastric atrophy (GA) and gastric cancer (GC) in Chinese population, and found
the novel association that rs12423190 was associated with GA. Although the
sample size for gastric atrophy is relatively small, this reviewer thinks it is worth
being published in this journal after the following minor revisions, considering the
importance of the present finding in the field of genetic epidemiology of H.
pylori-induced gastric precancerous lesions.
Minor Essential Revisions:
1) In the Methods section: I wonder whether the PG criteria used for GA
screening (<82.3 for PG I and <6.05 for PG I/II) are really appropriate; is the
reference [23] raised by the authors the only report that confirmed these criteria?
If so, the number confirmatory studies may be insufficient to draw a reliable
diagnosis, which thus should be described as the limitation.
2) Please spell out "CVs".
3) "Selection of Tagging SNPs": the LD data (D' and r2) should be moved into the
Results section.
4) If possible, please describe briefly the rationale used in the HAPSTAT
software.
5) Cray would be "Cary".
6) Near the end part of the Discussion: "In addition, we demonstrated that gastric
cancer patients had high prevalence of both HP seropositivity and GA... ,
implying the connection of genetic factors..." sounds rather ambiguous. The
authors should clearly describe to which step of gastric pathogenesis (i.e., HP
infection, GA, GC) which genetic factor may contribute to, etc.
7) This reviewer wonders why the prevalence of HP(+) GA is relatively low in
Chinese population. Is there any other reports that compared its prevalence
among different East Asian populations? How are the genotype frequencies of
PTPN11 SNPs among the races/ethnicities?
Level of interest: An article whose findings are important to those with closely
related research interests
Quality of written English: Needs some language corrections before being
published
Statistical review: No, the manuscript does not need to be seen by a
statistician.
Please review this paper.
user
Reviewer's report
Title:Association of polymorphism of PTPN 11 encoding SHP-2 with gastric
atrophy but not gastric cancer in Helicobacter pylori seropositive Chinese
population
Version: 1Date:9 May 2012
Reviewer: Asahi Hishida
Reviewer's report:
The authors investigated the association of htSNPs in the PTPN11 gene with
gastric atrophy (GA) and gastric cancer (GC) in Chinese population, and found
the novel association that rs12423190 was associated with GA. Although the
sample size for gastric atrophy is relatively small, this reviewer thinks it is worth
being published in this journal after the following minor revisions, considering the
importance of the present finding in the field of genetic epidemiology of H.
pylori-induced gastric precancerous lesions.
Minor Essential Revisions:
1) In the Methods section: I wonder whether the PG criteria used for GA
screening (<82.3 for PG I and <6.05 for PG I/II) are really appropriate; is the
reference [23] raised by the authors the only report that confirmed these criteria?
If so, the number confirmatory studies may be insufficient to draw a reliable
diagnosis, which thus should be described as the limitation.
2) Please spell out "CVs".
3) "Selection of Tagging SNPs": the LD data (D' and r2) should be moved into the
Results section.
4) If possible, please describe briefly the rationale used in the HAPSTAT
software.
5) Cray would be "Cary".
6) Near the end part of the Discussion: "In addition, we demonstrated that gastric
cancer patients had high prevalence of both HP seropositivity and GA... ,
implying the connection of genetic factors..." sounds rather ambiguous. The
authors should clearly describe to which step of gastric pathogenesis (i.e., HP
infection, GA, GC) which genetic factor may contribute to, etc.
7) This reviewer wonders why the prevalence of HP(+) GA is relatively low in
Chinese population. Is there any other reports that compared its prevalence
among different East Asian populations? How are the genotype frequencies of
PTPN11 SNPs among the races/ethnicities?
Level of interest: An article whose findings are important to those with closely
related research interests
Quality of written English: Needs some language corrections before being
published
Statistical review: No, the manuscript does not need to be seen by a
statistician.
assistant