Peer Review History
| Original SubmissionFebruary 9, 2025 |
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PONE-D-25-06214Invasive Candidiasis Following Lung Transplant: An Assessment of Impact Utilizing a National Insurance Claims CohortPLOS ONE Dear Dr. Pennington, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please submit your revised manuscript by May 09 2025 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org . When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file. Please include the following items when submitting your revised manuscript:
If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter. If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols . Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols . We look forward to receiving your revised manuscript. 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For a list of recommended repositories, please see https://journals.plos.org/plosone/s/recommended-repositories. You also have the option of uploading the data as Supporting Information files, but we would recommend depositing data directly to a data repository if possible. Please update your Data Availability statement in the submission form accordingly. 3. Please include a separate caption for each figure in your manuscript. 4. Please include a copy of Table 1-4 which you refer to in your text on page 6. Additional Editor Comments: Dear Authors, Your manuscript [PONE-D-25-06214] has passed the review stage and is ready for revision. To ensure the Editor and Reviewers can recommend that your revised manuscript be accepted, please pay careful attention to each comment posted underneath this email. This way we can avoid future clarifications and revisions, moving swiftly to a decision. Technical points: 1. Please provide a point-by-point response to the Editor and reviewer's comments 2. Please highlight all the amends on your manuscript with a yellow color 3. Use line numbering and page number in the next submission 4. Improve the English language of the manuscript [Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author 1. Is the manuscript technically sound, and do the data support the conclusions? The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented. Reviewer #1: Yes Reviewer #2: Partly Reviewer #3: Yes Reviewer #4: Partly Reviewer #5: Yes Reviewer #6: Yes Reviewer #7: Yes ********** 2. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: I Don't Know Reviewer #3: Yes Reviewer #4: I Don't Know Reviewer #5: Yes Reviewer #6: Yes Reviewer #7: Yes ********** 3. Have the authors made all data underlying the findings in their manuscript fully available? The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified. Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: No Reviewer #5: No Reviewer #6: No Reviewer #7: Yes ********** 4. Is the manuscript presented in an intelligible fashion and written in standard English? PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here. Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: No Reviewer #5: Yes Reviewer #6: Yes Reviewer #7: Yes ********** 5. Review Comments to the Author Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters) Reviewer #1: - Please don’t use abbreviates in the abstract (ECMO). - Introduction lines 6 and 7 are wrong. Please see this article: Mayer FL, Wilson D, Hube B. Candida albicans pathogenicity mechanisms. Virulence. 2013 Feb 15;4(2):119-28. doi: 10.4161/viru.22913. Epub 2013 Jan 9. PMID: 23302789; PMCID: PMC3654610. - Lines 10-11 according to reference 7 is not true. - Please define invasive candidiasis “In our population, IC was defined as any diagnostic code for IC (ICD-9: 112.4, 112.5, 112.8, 112.4, 112.83, 112.5;5 ICD-10: B37.1, B37.5, B37.6, B37.7) in any position following the LT procedure” Reviewer #2: The paper presented is a very interesting retrospective analysis of the risk factors leading to Candidiasis infection after lung transplant. The following issues regarding the statistical considerations should be addressed prior to publication: 1) There appears to be selection bias in that patients with a prior history of IC were excluded, but patients with a prior exposure to anti-fungals were not. Furthermore, based on Figure 1 it appears 13% of IC cases but only 8% of non-IC cases were excluded. This suggests possible selection bias. 2) It is unclear what the exact selection methods were for variable choices in the multivariable regression models. Based on the language Page 5 Lines 11-28, many factors were considered. However Table 3 reports the OR for only a select set of variables. For example why was age not included in the risk analysis? Similar issue for PH regression. 3) For the PH model of mortality, it is unclear why the analysis was complicated so with the challenge of the index date for cases and controls. Why not use the index date as LT for both cases and controls, but use date of IC as a time-dependent covariate? The choice to manipulate the index date for controls opens up potential bias in the results. The overall statistical question is asking does an IC infection post LT impact overall mortality. Give that the median time from LT admission to IC was 32d (IQR 0 to 192) suggests possible confounding of analysis and interpretation of the results. 4) Page 6, Lines 49-50: As over 90% of subjects had antifungal prophylactic therapy it is not surprising there is no observed benefit. 5) Page 6, Lines 47-54: this paragraph is a reiteration of the data in Table 3. 6) Why are the results of the PH model not shown as a table? The HR in Figure 3 should be that from the PH model, and the legend should clarify this. 7) Given this is a retrospective look at over 18 years of data, it would be useful to report on the annual rate of infections (maybe over 3 year windows?) and test if the overall rate of infection decreased over the years. Minor issues: 1) Abstract indicates data was collected January 1, 2005, to July 31, 2023 while Page 4 Lines 49-50 indicate data study period was January 1, 2005 to December 31, 2023. Suggest abstract should be revised. 2) Revise Page 5 Line 43 to read more clearly: “Analysis of both risk factors in the development of IC and mortality from IC required us to use two different models and extraction methods.” 3) Table 1 and Table 2 should be combined with the first column reporting cohort total, second column IC, third column non-IC. 4) Table 3 can exclude the Z-score value. Also “Control” is an improper term, use “Reference” instead. Reviewer #3: (abstract) Write the aim of the study at past tense. (abstract) Define ECMO abbreviation. (general comment) Do not start a sentence with an abbreviation. (abstract)Define "index hospitalization". (introduction) Please be specific when you say "at high risk". (introduction) Define early in "early post-lung transplant period" (introduction) Please provide the frequencies for "antifungal medications can have significant adverse effects". (introduction) Write the aim of the study at past tense. (methods) Who can access OLDW? It is open access? (methods) "Re-transplantations were excluded" why? (methods) Detail the method use to collect mortality data. (methods) Detail the Elixhauser comorbidity score. (methods) "compared using a t test" even those with deviations from the theoretical normal distribution? (methods) Describe the methods used to decide which variables entered in multivariable model. (methods) "we matched one case" the case is defined as patient with IF? Please clarify. (methods) Tell the readers the level of significance used in the statistical analysis. (results) Define axes and units of measurements on Kaplan-Meier graph. (results) Table 1 - 4: do not include the units of measurements in the body of the table. Generally, when round brackets are used the lower and upper values are not included in the range; please clarify. (results) Report p-values with at least 3 decimals (discussion) "Our study utilized administrative claims data to evaluate both risk factors and the impact of IC in a diverse cohort of LTRs." This is duplicated information and should be deleted. (discussion) Are your results expected to be confirm on other cohorts? (discussion) Discuss the practical utility of the reported results. Reviewer #4: This article does not mention diagnostic methods. How is pulmonary candidiasis diagnosed? The medications taken by the patient were not mentioned in this article. How much did their use contribute to the disease's development? What is the diagnostic code for IC? Reviewer #5: Congratulations to this mostly very well written manuscript. It has been one of very few manuscripts that I reviewed during the last few years that didn't have any major statistical flaws. The only reason that I selected major instead of minor revision is the number of questions that I have and that should be clarified before this manuscript is published. I hope they are helpful: 1. The authors write in the Statistical Analysis section that in the descriptive tables, they show mean + sd or median and IQR as appropriate. However, in Tables 1 and 2 there only is the median/IQR shown. Is the reason for this that all variables seem to be nonnormally distributed? Or just for was of presentation (to avoid confusions due to switching between mean and median)? In any case, only the median/IQR should be mentioned in the methods. 2. Follow-up question from the above: As far as I understood, all tests performed in Table 2 are t-tests? But if the (or some of the) data are nonnormally distributed, a nonparametric test should be used. Please change that. 3. Please delete the stars denoting statistical significance from the tables. Nowadays, there is a strong trend towards quantifying the evidence against the null hypothesis instead of making a binary cutoff to distinguish "significant" from "non-significant". I don't mind you discussing significance in the text (although I clearly prefer writing something like "There was no evidence for a difference"), but do not use stars in the tables. 4. How were the covariates for the multivariable logistic regression model chosen? I don't fully understand the line "We then assessed a priori which risk factors were associated." How did you do that? Is that a fancy way of writing "We asked experts which risk factors to include"? Please clarify. By the way, I very much like that you obviously didn't choose the covariates based on their p-value or something wrong like that. But some information how you actually chose them would be very helpful. 5. I recommend to use the word "Reference category" instead of "Control" in Table 3. Control can be misunderstood as being a control group, especially as you also have matching in your manuscript. 6. Both the ECMO days and the Elixhauser variable were dichotomized, but for example in Table 2 the Elixhauser is included as count variable. I don't like dichotomizing very much because you usually loose information. Have you tried to include them in a continuous way? If so, what was the result? Have you looked at the descriptives if it might be reasonable to include them in a non-linear way? And if that is not an option (with a good reason): How were the thresholds chosen? If there is a clinical reasoning behind that (if for example the threshold is used in clinical practice) this should be stated and a reference for this should be given. If the threshold was selected by the authors, please also write how and why you did that. 7. Two hazard ratios are mentioned in the text. First, 2.13, then 2.31 "when matching IC cases to controls", and the latter one is also printed below the Kaplan-Meier curve. I don't understand which model the first value comes from. Is that a simple, unmatched model with just one influential variable? I also find it irritating that the value 2.31 comes from the adjusted model that the authors mention, but that it is printed below the KM curve suggests to me that it comes from an unadjusted model. Please clarify. Think about not showing the HR below the curve, as the HR comes from an adjusted model. 8. Please print the results of the final Cox model in an additional table. I think it important to also see what hazard ratios the other influential variables show. 9. Did you check the proportional hazards assumption? Please mention that and the results of this. 10. I don't understand the > and < signs in Table 4. Please explain. Reviewer #6: Overall I read with great interest the article entitled “Invasive Candidiasis Following Lung Transplant: An Assessment of Impact Utilizing a National Insurance Claims Cohort”, which falls within the aim of this journal. This study aimed to assess the incidence, risk factors, and impact of invasive candidiasis on mortality in lung transplant recipients using administrative claims data from individuals enrolled in commercial and Medicare Advantage health plans in the US. In my honest opinion, the topic and results are interesting for audiences and the paper is almost well structured enough to attract the readers’ attention. However, the authors should consider and clarify some points and improve the paper, as suggested below [*: major points, #: minor points]. Abstract section # Please note that the tone of your study’s objective in the Introduction part should align with the verb tense used in the Methods and Results parts. Therefore, instead of “This study aims to…”, consider using ‘This study aimed to….’. # Please ensure that the final sentence of the Results part clarifies whether the finding is statistically significant. Therefore, include the relevant statistical measures. * Writing the Conclusion part is crucial, but it is currently insufficient. Additionally, the first sentence is very similar to the first line of the previous part. So please revise it. You may use the following suggestion or a similar one: ‘Invasive candidiasis affects approximately 10% of lung transplant recipients and is linked to higher mortality, prolonged hospitalization, and increased surgical interventions. These findings underscore the importance of early identification and targeted preventive strategies to improve post-transplant outcomes’. Introduction section * Please note that the phrase “Since Candida spp. do not have the ability to digest and invade tissues” is not entirely accurate based on various studies, including this one: https://doi.org/10.1016/j.rsma.2023.103258. So kindly revise it. # Please note that the phrase “its effectiveness has not been established in the lung transplant population” is stated too definitively. It would be preferable to rephrase it as ‘evidence exists but is inconclusive’. # Please note that here “One tool that has been utilized to assess clinical incidence and risk factor questions in other clinical domains are large claims databases, such as OptumLabs® Data Warehouse”, “One tool” does not align with “are”. It is recommended to restructure the sentence. A suggested revision is: ‘Large claims databases, such as OptumLabs® Data Warehouse (OLDW), have been widely used to assess disease incidence and risk factors across various clinical domains’. Methods section * Regarding your sentence: “We required subjects to have at least 90 days of continuous health plan coverage prior to their lung transplant date and at least 30 days post”. Please clarify the rationale behind selecting the 90-day pre-transplant and 30-day post-transplant timeframes. # In the part Outcomes of Interest, please note that ICD code 112.5 appears to be duplicated. * Since your study follows a cohort design, it is preferable not to use the terms “Case” and “Control”, which are more relevant to case-control studies. Please revise these terms throughout the text and figures, replacing them with ‘diseased’ and ‘non-diseased’, respectively. Additionally, when referring to mortality outcomes, please use ‘exposed’ and ‘unexposed’ instead. # In the Mortality Analysis part, it would be preferable to briefly explain the rationale behind matching for the selected variables. For instance for confounding variables. Results section # Please ensure consistency in punctuation. In this instance, (619; 48.4%) uses a semicolon, whereas a comma would be more appropriate for consistency. * Please note that (Q1, Q3) is not equivalent to the interquartile range (IQR), as IQR is calculated as Q3 minus Q1. It is recommended to report IQR as a single value in the text while maintaining the (Q1, Q3) format in tables for clarity. # Regarding the sentence “The most commonly prescribed antifungal were mold-active azoles”, please note that “antifungal” should be written as ‘antifungals’ or, preferably, ‘Antifungal Medications’ to maintain consistency with the terminology used in the tables. # In the first paragraph of this section, please remove all instances of (n, x%) as this information is already provided in the table. # Please revise the sentence “Of these, 131 (10.2%) LTRs developed IC following LT”. to explicitly refer to ‘lung transplant recipients’ instead of using “Of these”. * Preferably, ensure that the variable titles used in the tables are consistent with those in the main text. For example, term like “locally invasive candidiasis/deep-seated candidiasis” in the text are somewhat ambiguous, whereas the table clearly refers to “Pulmonary Candidiasis”. Please make the necessary revisions and include any additional explanations in parentheses. # Please clarify what you mean by “IC diagnostic codes are limited”. * In the Invasive Candidiasis part, please remove all instances of (n, x%) since this information is already provided in the tables. Additionally, mentioning other details is unnecessary; instead, simply state that all had a P-value < 0.05 (also please clarify that if you have considered this threshold in the Statistical Analysis part). Please apply this recommendation to other parts as well. # For the sentence: “Post-transplant ECMO (OR: 2.34; 95% CI 1.03 to 5.34, p = 0.043) use of greater than 8 days was the only risk factor significantly associated with post-transplant IC on multivariable modeling”. Please remove the information inside the parentheses as previously suggested. Additionally, after “associated with”, add ‘was associated with around 2.3-fold increase in’ to clarify the magnitude of the association. # Please clarify this phrase “No single indication for transplant increased the odds of IC”. # Please note that the first two sentences in the Effect of Invasive Candidiasis on Mortality part are not appropriate for this part. * Please ensure that Table 4 is adequately interpreted, as its interpretation is even more important than that of Table 3. * Please provide appropriate titles for both figures, as they currently lack titles. # Regarding Table 3, please note that it is unnecessary to include SE and Z values. It is recommended to remove these values from the table. * Ensure that consistent variable names are used across all tables and carefully review them for uniformity. Additionally, clarify the rationale for including certain variables in Table 4 that are absent from Table 3 (e.g., COPD/Bronchiectasis). Discussion section * Please note that this section currently requires further elaboration from literature. It is recommended to include a more detailed comparison of your study with previous research and, if possible, please discuss the reasons for any discrepancies, which could be attributed to for example, different methodologies. * Regarding the sentence: “We decided to focus on ECMO support as a potential risk factor by setting the index date ...”, please clarify the rationale for selecting ECMO support. # Please note that the sentence “We cannot glean ECMO configuration placement position from our dataset. It is likely that femoral lines portend a higher risk of IC than ...” presents a claim without sufficient scientific support. It is recommended to revise and integrate the following phrase: ‘Our dataset does not include information on ECMO cannulation sites. While femoral access may increase the risk of IC, further studies are needed to confirm this association’. * Regarding your sentence: “We found that patients with IC have more than twice the probability of mortality compared to their matched partners”. I did not find the corresponding results in the previous section. Good Luck, Reviewer #7: A very comprehensive study. Data are available, so it is a nice addition to the potential resources made available to others researching similar topics. It is a "complex read" but that is very much essential here. I noted a misspell [Invasive Candidiasis. . . . 1 paragraph, last line, "diagnositic"(sic)] -- (Can't believe I saw it however, due to the 'density' of this writing). I like the detail oriented approach even for the following: implementation of Elixhauser over Charlton Comorbidity Scoring--that makes sense with, provides and example for, a study focused on Labs data. ********** 6. PLOS authors have the option to publish the peer review history of their article (what does this mean? ). If published, this will include your full peer review and any attached files. If you choose “no”, your identity will remain anonymous but your review may still be made public. Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy . Reviewer #1: Yes: Parisa Badiee Reviewer #2: No Reviewer #3: No Reviewer #4: No Reviewer #5: No Reviewer #6: No Reviewer #7: Yes: Brian L Altonen ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] While revising your submission, please upload your figure files to the Preflight Analysis and Conversion Engine (PACE) digital diagnostic tool, https://pacev2.apexcovantage.com/ . PACE helps ensure that figures meet PLOS requirements. To use PACE, you must first register as a user. Registration is free. Then, login and navigate to the UPLOAD tab, where you will find detailed instructions on how to use the tool. If you encounter any issues or have any questions when using PACE, please email PLOS at figures@plos.org . Please note that Supporting Information files do not need this step.
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| Revision 1 |
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PONE-D-25-06214R1Invasive Candidiasis Following Lung Transplant: An Assessment of Impact Utilizing a National Insurance Claims CohortPLOS ONE Dear Dr. Pennington, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please submit your revised manuscript by Jul 29 2025 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org . When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file. Please include the following items when submitting your revised manuscript:
If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter. If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols . Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols . We look forward to receiving your revised manuscript. Kind regards, Ali Amanati Academic Editor PLOS ONE Journal Requirements: Please review your reference list to ensure that it is complete and correct. If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references. Any changes to the reference list should be mentioned in the rebuttal letter that accompanies your revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice. Additional Editor Comments: Dear authors, The invited reviewers posted new comments. So, the manuscripts require a round of revision. Please provide a point-by-point response to the reviewer's comments and highlight all the amends on your manuscript with yellow color. Yours, [Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author 1. If the authors have adequately addressed your comments raised in a previous round of review and you feel that this manuscript is now acceptable for publication, you may indicate that here to bypass the “Comments to the Author” section, enter your conflict of interest statement in the “Confidential to Editor” section, and submit your "Accept" recommendation. Reviewer #1: All comments have been addressed Reviewer #2: All comments have been addressed Reviewer #4: All comments have been addressed Reviewer #5: (No Response) Reviewer #6: (No Response) ********** 2. Is the manuscript technically sound, and do the data support the conclusions? The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented. Reviewer #1: Yes Reviewer #2: Yes Reviewer #4: Yes Reviewer #5: Yes Reviewer #6: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: Yes Reviewer #4: I Don't Know Reviewer #5: Yes Reviewer #6: Yes ********** 4. Have the authors made all data underlying the findings in their manuscript fully available? The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified. Reviewer #1: Yes Reviewer #2: Yes Reviewer #4: No Reviewer #5: No Reviewer #6: Yes ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English? PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here. Reviewer #1: Yes Reviewer #2: Yes Reviewer #4: Yes Reviewer #5: Yes Reviewer #6: Yes ********** 6. Review Comments to the Author Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters) Reviewer #1: The manuscript reviewed by 6 reviewer and revised as my previous comments. It is suitable for publication. Reviewer #2: Thank you for addressing my comments. Although I would prefer to see the mortality modeled with IC as a time-dependent covariate, the choice of a psudo index date is not unheard of in statistical modeling. The manuscript is much improved with better clarity. Reviewer #4: The authors present a well-conducted and clinically relevant retrospective cohort study that addresses a critical and underexplored aspect of post-lung transplantation care. The use of a large national insurance claims database provides robust real-world evidence on the incidence and impact of invasive candidiasis (IC) in lung transplant recipients. The methodology is sound. The manuscript is clearly written, the results are compelling, and the conclusions are well-supported by the data. I recommend acceptance of this article. Reviewer #5: Thank you for answering all my questions and changing the manuscript accordingly. There is one last thing that should be formulated differently: The authors explain (both in "my" answer and in one for reviewer 2) that they chose the variables for the regression model based on clinical knowledge and literature, but they state that age was excluded "due to collinearity with other factors and lack of a significant univariable association". But exactly significance or non-significance in a univariable model should not be used to decide a bout including a variable, because the p-value can change considerably as soon as additional variables are taken into account. Therefore, the authors should delete this part of the sentence. If there indeed is strong (multi-)collinearity, this is reason enough to not include age. If, however, the collinearity is not very strong, I suggest to include age in the model as an additional covariate. In any case, it has to be explored and explained properly. Reviewer #6: I sincerely thank the authors for their thoughtful and thorough revisions to the manuscript. Almost all of my previous comments have been addressed. Before resubmitting, I recommend reviewing the revised version without Track Changes to ensure there are no minor issues, such as the presence of two periods at the end of the conclusion sentence in the abstract. Also, please note that the code “112.4” appears twice in the following sentence: “In our population, ... for IC (ICD-9: 112.4, 112.5, 112.8, 112.4, 112.83; ICD-10: 16 B37.1, B37.5, B37.6, B37.7) in ... procedure”. Additionally, I appreciate your attention to comment “Since your study follows a cohort design, it is preferable not to use the terms “Case” and “Control”, which are more relevant to case-control studies. Please revise these terms throughout the text and figures, replacing them with ‘diseased’ and ‘non-diseased’, respectively. Additionally, when referring to mortality outcomes, please use ‘exposed’ and ‘unexposed’ instead”. However, a few instances of these terms still appear in the text and should preferably be corrected. Good Luck, ********** 7. PLOS authors have the option to publish the peer review history of their article (what does this mean? ). If published, this will include your full peer review and any attached files. If you choose “no”, your identity will remain anonymous but your review may still be made public. Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy . Reviewer #1: Yes: Parisa Badiee Reviewer #2: No Reviewer #4: No Reviewer #5: No Reviewer #6: No ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] While revising your submission, please upload your figure files to the Preflight Analysis and Conversion Engine (PACE) digital diagnostic tool, https://pacev2.apexcovantage.com/ . PACE helps ensure that figures meet PLOS requirements. To use PACE, you must first register as a user. Registration is free. Then, login and navigate to the UPLOAD tab, where you will find detailed instructions on how to use the tool. If you encounter any issues or have any questions when using PACE, please email PLOS at figures@plos.org . Please note that Supporting Information files do not need this step.
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| Revision 2 |
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Invasive Candidiasis Following Lung Transplant: An Assessment of Impact Utilizing a National Insurance Claims Cohort PONE-D-25-06214R2 Dear Dr. Kelly Pennington, We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements. Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication. An invoice will be generated when your article is formally accepted. Please note, if your institution has a publishing partnership with PLOS and your article meets the relevant criteria, all or part of your publication costs will be covered. Please make sure your user information is up-to-date by logging into Editorial Manager at Editorial Manager® and clicking the ‘Update My Information' link at the top of the page. For questions related to billing, please contact billing support . If your institution or institutions have a press office, please notify them about your upcoming paper to help maximize its impact. If they’ll be preparing press materials, please inform our press team as soon as possible -- no later than 48 hours after receiving the formal acceptance. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. Kind regards, Ali Amanati Academic Editor PLOS ONE Additional Editor Comments (optional): The authors have effectively utilized all available resources and data to enhance the manuscript, making it more scientifically robust than before. Therefore, based on my opinion and the esteemed reviewers' comments, it could be published in its current form. Yours, |
| Formally Accepted |
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PONE-D-25-06214R2 PLOS ONE Dear Dr. Pennington, I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS ONE. Congratulations! Your manuscript is now being handed over to our production team. At this stage, our production department will prepare your paper for publication. This includes ensuring the following: * All references, tables, and figures are properly cited * All relevant supporting information is included in the manuscript submission, * There are no issues that prevent the paper from being properly typeset You will receive further instructions from the production team, including instructions on how to review your proof when it is ready. Please keep in mind that we are working through a large volume of accepted articles, so please give us a few days to review your paper and let you know the next and final steps. Lastly, if your institution or institutions have a press office, please let them know about your upcoming paper now to help maximize its impact. If they'll be preparing press materials, please inform our press team within the next 48 hours. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. You will receive an invoice from PLOS for your publication fee after your manuscript has reached the completed accept phase. If you receive an email requesting payment before acceptance or for any other service, this may be a phishing scheme. Learn how to identify phishing emails and protect your accounts at https://explore.plos.org/phishing. If we can help with anything else, please email us at customercare@plos.org. Thank you for submitting your work to PLOS ONE and supporting open access. Kind regards, PLOS ONE Editorial Office Staff on behalf of Professor Ali Amanati Academic Editor PLOS ONE |
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