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PLOS One logoLink to PLOS One
. 2025 Apr 23;20(4):e0322124. doi: 10.1371/journal.pone.0322124

Developing a multivariable prediction model to support personalized selection among five major empirically-supported treatments for adult depression. Study protocol of a systematic review and individual participant data network meta-analysis

Ellen Driessen 1,2,*, Orestis Efthimiou 3,4,5, Frederik J Wienicke 2, Jasmijn Breunese 2, Pim Cuijpers 6,7, Thomas P A Debray 8,9, David J Fisher 10, Marjolein Fokkema 11, Toshiaki A Furukawa 12, Steven D Hollon 13, Anuj H P Mehta 14, Richard D Riley 15, Madison R Schmidt 16, Jos W R Twisk 17, Zachary D Cohen 18,*
Editor: Nishant Premnath Jaiswal19
PMCID: PMC12017484  PMID: 40267025

Abstract

Background

Various treatments are recommended as first-line options in practice guidelines for depression, but it is unclear which is most efficacious for a given person. Accurate individualized predictions of relative treatment effects are needed to optimize treatment recommendations for depression and reduce this disorder’s vast personal and societal costs.

Aims

We describe the protocol for a systematic review and individual participant data (IPD) network meta-analysis (NMA) to inform personalized treatment selection among five major empirically-supported depression treatments.

Method

We will use the METASPY database to identify randomized clinical trials that compare two or more of five treatments for adult depression: antidepressant medication, cognitive therapy, behavioral activation, interpersonal psychotherapy, and psychodynamic therapy. We will request IPD from identified studies. We will conduct an IPD-NMA and develop a multivariable prediction model that estimates individualized relative treatment effects from demographic, clinical, and psychological participant characteristics. Depressive symptom level at treatment completion will constitute the primary outcome. We will evaluate this model using a range of measures for discrimination and calibration, and examine its potential generalizability using internal-external cross-validation.

Conclusions

We describe a state-of-the-art method to predict personalized treatment effects based on IPD from multiple trials. The resulting prediction model will need prospective evaluation in mental health care for its potential to inform shared decision-making. This study will result in a unique database of IPD from randomized clinical trials around the world covering five widely used depression treatments, available for future research.

1. Introduction

People suffering from depression have a range of therapeutic options, including various antidepressant medications (ADMs) and psychological treatments such as cognitive therapy (CT), behavioral activation (BA), interpersonal psychotherapy (IPT), and short-term psychodynamic psychotherapy (STPP). Although no significant differences in average treatment effects have been found between these interventions [1,2], response is highly heterogeneous [35] warranting the need for more personalized treatment recommendations [6].

Current scientific methodologies are limited in their ability to discriminate individual response. What little information is available regarding patient characteristics associated with differential efficacy of depression treatments has been mostly obtained from univariable analyses [7]. These studies typically examine how an isolated patient characteristic (e.g., age) predicts differential outcomes across two treatment groups (e.g., ADM versus CT) [811]. Unfortunately, single predictors tend to have small effects [12], and their investigation is prone to false positive results and selective reporting. Moreover, clinical reality is much more complex, involving numerous patient characteristics and contextual factors, whose associations can vary across different treatment comparisons. Identifying and combining multiple prescriptive predictors is crucial for clinical decision-making [1214]. Recent efforts in this regard for specific head-to-head treatment comparisons have shown promise, but resulting prediction models await validation [15,16].

The lack of scientific knowledge on treatment moderators is a barrier for efforts to develop evidence-based guidelines to help select the optimal depression treatment for an individual [17]. Current standard practice when selecting treatments for depression is largely guided by practical factors (cost, availability) or factors like clinical judgement and patient preference, which have been shown to be unrelated to symptom response [18]. All mental health stakeholders would benefit from more accurate and more personalized treatment selection strategies [19]. Research to generate precision treatment algorithms can help inform shared decision-making during the treatment selection process [18,20], and is one of many promising avenues for improving outcomes for individuals with depression [21].

In this article, we describe the protocol for a study that aims to improve personalized treatment selection for depression. We overcome the limitations of prior research by developing a model to predict relative treatment effects at the individual patient level. This model will cover five major empirically-supported depression treatments [1,22,23], will be based on multiple person and disorder characteristics, and will be evaluated for its generalizability and clinical performance.

To develop this model, we will conduct a systematic review and individual participant data (IPD) network meta-analysis (NMA) [24] comparing ADM, CT, BA, IPT, and STPP for adult depression on depressive symptom measures at treatment completion, including various available participant characteristics as potential effect modifiers. Estimation of effect modifiers becomes more reliable by combining data from multiple trials, and by focusing on IPD rather than on published aggregate data [24,25]. Furthermore, by adopting a network-based approach instead of focusing on pairwise comparisons, we can estimate treatment effects for multiple treatment comparisons (rather than only two). Moreover, IPD-NMA adequately accounts for the clustering of data within the studies and offers increased statistical power by incorporating both direct and indirect evidence [2628]. We next describe the protocol for this study, outlining the methods that we will follow.

2. Methods

2.1. Design and pre-registration

This protocol builds on and extends prior work by our group [11,15,2931]. This IPD-NMA will be pre-registered in the PROSPERO International prospective register of systematic reviews after acceptance of this protocol for publication in a peer-reviewed journal [2931]. Additional important protocol amendments will be updated in this register [2931]. Extraction of data from the primary datasets into the database for this project will start after PROSPERO registration. The Preferred Reporting Items for Systematic Review and Meta-Analysis Protocols (PRISMA-P) [32] and the Transparent Reporting of Multivariable Prediction Models Developed or Validated using Clustered Data (TRIPOD-Cluster) statements [33] guide the writing of this article (see S1 and S2 Tables), and a detailed analytic plan for predictive modelling will be pre-registered in the Open Science Framework.

2.2. Eligibility criteria

Eligible studies are randomized clinical trials for adult acute-phase depression comparing two or more of the following interventions: ADM, CT, BA, IPT, STPP. No restrictions will be placed concerning the years when the study was conducted, or with regard to publication language, date, or status [2931].

2.2.1. Participants.

Participants will be considered depressed if they meet specified criteria (e.g., Diagnostic and Statistical Manual of Mental Disorders) for major depressive disorder or another unipolar mood disorder assessed by means of a semi-structured interview or clinicians’ assessment, or if they present a score at or above a validated cut-off indicating the likelihood of clinically significant depressive symptoms on an evaluator-assessed, clinician-assessed, or self-reported measure of depression (e.g., Hamilton Depression Rating Scale total score ≥ 10; Beck Depression Inventory total score ≥ 10) [2931,34]. Comorbid mental and somatic disorders will be allowed [2931,35]. Participants must be at least 18 years old, and we will place no restrictions concerning the maximum age of study participants [2931,36].

We will assess eligibility criteria at study level rather than on the individual participant level [2931]. Eligible participants from a study including a wider population (e.g., adults from a study including both adolescents and adults) will not be included, because the integrity of randomization within the subgroup of eligible participants could be compromised [2931]. We will include all participants randomized to treatment, and adopt an intention-to-treat analysis [2931].

2.2.2. Interventions.

We will focus on five major empirically-supported acute-phase depression treatments for which we expect enough trials including head-to-head comparisons with the other treatments are available to obtain relatively precise effect estimates. These five treatments are summarized below (for more extensive definitions we refer elsewhere [1]). We will not include control conditions because their inclusion may change the nature of comparisons and hence the relative effect sizes among the treatment conditions [37], whereas the comparisons of clinical interest are among the alternative treatments.

Concerning ADM, we will consider any type of standard oral antidepressant within the therapeutic dose range (e.g., selective serotonin [and noradrenaline] reuptake inhibitors, tricyclic antidepressants, monoamine oxidase inhibitors) [30].

CT aims to correct maladaptive thinking and beliefs to reduce depressive symptoms [31,38]. BA aims to increase a person’s access to positively reinforcing stimuli [31,39,40]. A core technique in BA is activity scheduling, whereby individuals monitor their mood and daily activities to learn the connection between them, and then focus on increasing activities that are expected to result in a sense of pleasure, mastery, or accomplishment [31,39]. This behavioral intervention is also part of CT for depression [38] and the term cognitive–behavioral therapy (CBT) is often used in the literature to denote a single depression intervention that includes both a cognitive restructuring and a behavioral activation component [31].

We will consider an intervention to be CT if it is a manualized psychotherapy with cognitive restructuring as a main treatment component [11,31]. Behavioural techniques (e.g., activity scheduling) will be allowed, as long as they are part of an intervention protocol that is aimed at cognitive restructuring [31]. Beck’s model [38] is considered the CT prototype, but other models are also eligible for inclusion [31]. We will consider an intervention to be BA if the core element of treatment is aimed at increasing positive reinforcement by means of activity scheduling [31]. Inclusion of cognitive restructuring techniques in BA will not be allowed [31].

IPT is a structured, time-limited intervention specifically developed for the treatment of major depression that focuses on current salient relational and interpersonal experiences [30]. We will consider an intervention to be IPT when it is a psychotherapy based on the manuals developed by Klerman and Weissman for IPT or for the briefer version called interpersonal counselling [30,4145].

STPP is rooted in psychoanalytic theories, which consider the underlying personality structure to play an important role in the development and maintenance of depression. STPP aims to foster insight into (past) interpersonal relationships and unconscious feelings, desires, strivings, and thoughts to treat depression. We will consider an intervention to be STPP if it is based on psychoanalytic theories and practices, is time-limited from the onset (i.e., not a therapy that is brief only in retrospect) to distinguish it from long-term psychodynamic psychotherapy, and applies verbal techniques (e.g., therapies applying art as expression form are not considered STPP) [29].

We will include psychotherapies in any delivery format (i.e., face-to-face, telephone, or videoconferencing), as long as a clinician delivers the therapy [30,31]. Bibliotherapy, internet therapy, or other self-help formats will be excluded, as will be blended treatment formats that combine clinician-delivered therapy with internet interventions. Treatment must not exceed 6 months with no restrictions on the number of sessions [30,31]. Inpatient settings, partial hospitalization programs, and intensive outpatient programs will be excluded, since by definition more care is provided than psychotherapy or antidepressant monotherapy. We will place no other restrictions on the setting in which treatment is delivered (e.g., primary care, outpatient mental health care) [30,31]. We will only include studies of acute-phase depression treatment [30,31]. Thus, we will exclude, for example, studies that randomized participants to the interventions as maintenance treatments after successful acute treatment [30,31]. Only data from the relevant conditions and comparisons of eligible studies will be included [30]. For example, for studies involving augmentation of antidepressants or psychotherapy following non-response to monotherapy, only study data up until the first triage point for augmentation will be included [30,46]. Similarly, for studies involving other conditions (e.g., [placebo] control, combined treatment of ADM and psychotherapy), data from these conditions will not be included.

2.3. Outcome

Depressive symptom level at treatment completion will be the primary outcome of this study, as symptom reduction is considered to be the main aim of acute-phase depression treatments [29,31]. We chose a continuous measure over categorical outcomes (e.g., remission) as our primary target because dichotomizing continuous variables reduces statistical power for estimating interactions with treatment [25,2931].

Depressive symptom level at treatment completion is operationalized as a participant’s score on the Beck Depression Inventory-II (BDI-II) [47] at the primary post-treatment time point as defined by the study’s authors [30,31]. We chose the BDI-II as the main outcome because it is a self-reported patient-centered instrument that was designed to measure depression severity [47], is frequently applied in depression treatment research, and is sensitive to change [48]. If collected study data does not include BDI-II, we will convert scores on the primary (secondary, third, fourth, etc. in this order) continuous depression scale, as defined by the study’s authors, into BDI-II scores using existing conversion algorithms [4951]. If none of the measures assessed in the study is included in conversion algorithms, we aim to develop one ourselves based on the collected IPD. When none of the used outcome scales can be justifiably converted into the BDI-II, we will exclude the study from analysis. If this results in three or more excluded studies, we will consider transforming primary continuous depression outcomes to a 0–100 scale for all studies.

2.4. Predictors

Moderators of treatment effect (elsewhere also referred to as “prescriptive predictors”, “effect modifiers” or “treatment-covariate interactions”) affect the direction or magnitude of differences in outcome between two treatments [52], and thus can help predict whether a patient will benefit more from one treatment than another [18]. Variables that moderate individuals’ response to treatment can also have prognostic (or “main”) effects (see Cohen & DeRubeis [18] for additional discussion), which will also be included in the model.

Putative predictor variables include demographic (e.g., age, gender), clinical (e.g., depression severity, depressive episode duration, comorbid anxiety disorder), and psychological (e.g., personality, coping style) participant characteristics assessed before the start of treatment [2931]. Candidate variables will be selected for inclusion in the model based on a recent systematic review on predictors of treatment response in depression and sufficient availability across the studies, following the approach described by Vale and colleagues [53].

2.5. Systematic literature search

To identify eligible studies, we will use a search strategy that has been described previously [30,31]. We will search a database of randomized clinical trials examining the efficacy and effectiveness of psychological treatments for depression that has been used in a series of published meta-analyses (www.metapsy.org) [54]. This database was developed through comprehensive literature searches in the bibliographic databases PubMed, PsycINFO, Embase.com, and the Cochrane Library and is updated every four months. The search strings use a combination of index terms and free-text words indicative of depression and psychotherapies, with filters for randomized clinical trials. The exact search terms can be found at https://osf.io/nv3ea/. Two raters independently screen all records, assess full-text papers for METAPSY database eligibility, and categorize the treatment comparison(s) of included studies, with disagreements being resolved in consensus in each phase [30,31].

Two other raters will independently assess all full-text papers of studies marked as comparing a psychotherapy mono-treatment condition against another active (i.e., psychotherapy or ADM) mono-treatment condition for meeting the inclusion criteria for this work [30,31]. Disagreements will be resolved through consensus and if consensus cannot be reached, a third rater will be consulted [2931]. To identify studies that might have been missed, we will check the references of prior reviews and meta-analyses [30,31]. We will also contact psychotherapy listservs to request ongoing or unpublished studies, and studies that were missed [29,30].

2.6. IPD collection

We will invite authors of eligible studies to participate in this project using a strategy that has been successful in soliciting participation in previous depression treatment IPD meta-analyses [11,2931]. We will invite representatives of each team that shares IPD to join as authors on all publications resulting from the use of these data, inasmuch as they meet internationally accepted criteria for authoring scientific articles (www.icmje.org) [2931]. In addition, we will make the combined database available to investigators sharing IPD to examine other research questions, provided that the authors of the original studies approve the use of their data for this purpose [11,2931,55].

We will apply a multi-step protocol to contact authors. We have described this protocol in more detail previously [2931] and it has proven to be successful in reaching authors for depression treatment IPD meta-analyses. In short, we will contact the authors (starting with the corresponding author and proceeding to the other co-authors) by email with three reminders. In case of no response to email, we will first mail a letter to the corresponding author (again with three attempts) and then contact the corresponding author by telephone. This is followed by contacting the other authors by letter and telephone, and other ways to contact one of the authors (e.g., via colleagues who might know them) [2931]. A study’s data will be considered unavailable only if all these attempts fail, or an author either indicates that the IPD were not retained or declines to share these data [2931].

We will request the following anonymized participant-level data items: randomized treatment condition, all outcome variables assessed prior to, during, and after treatment (with item-level data for depression outcome measures), and all potential predictor variables assessed in the study [30,31]. We will also ask for the study protocol and the assessment batteries used in the study.

The following study-level characteristics are extracted from the publication by two independent raters upon inclusion in the METAPSY database: country, recruitment method (e.g., community, clinical), target group (e.g., adults in general, students), depression inclusion criteria, number of treatment sessions, treatment format (e.g., individual, group), and assessment time points [30,31]. We will examine whether the ADM treatment protocols meet minimum adequate clinical best practice guidelines by assessing studies for the use of a therapeutic dosage and titration schedule (i.e., therapeutic dose achieved within three weeks) [30]. Study ADM will be deemed adequate if both criteria are met [27,30]. We will examine psychotherapy protocol adequacy with regard to use of a treatment manual, provision of therapy by trained therapists, and verification of treatment integrity [2931]. Treatment quality characteristics will be extracted by two raters independently and disagreements will be resolved by consensus [2931]. If consensus cannot be reached, a third rater will be consulted. Characteristics not reported in the publications will be requested from the authors [2931].

Risk of bias in the included studies will be assessed using the Cochrane risk-of-bias tool for randomized trials version 2 [56], both before and after the IPD are obtained. Ratings will be primarily based on information reported in the publications, though risk of bias due to deviations from the intended intervention, due to missing outcome data, and in selection of the reported result will be assessed using the IPD (i.e., domain 3.1) or the IPD meta-analysis’ abilities to correct for the relevant risk of bias (i.e., domains 2.6–2.7, 3.2, and 5.1–5.3). Two raters will independently assess the risk-of-bias tool at study level. Disagreements will be resolved by consensus [30,31]. If consensus cannot be reached a third rater will be consulted. As studies are expected to be included that were published before the universal adoption of reporting guidelines for randomized clinical trials [57], requisite information will be requested from the authors if not reported in the publications [31].

2.7. IPD integrity checks

We will perform three data integrity checks [2931]. First, we will check whether the dataset includes the full intention-to-treat sample (defined as all participants randomized to treatment in the study) and otherwise matches the data reported in the published article [2931]. To this end, means and standard deviations or raw counts for all baseline characteristics, and observed pre-treatment and post-treatment scores reported in the article will also be calculated from the dataset and both will be compared [2931]. Second, we will check whether all outcome and potential predictor variables reported in the article are included in the dataset [2931]. Third, the outcome and predictor variables will be checked for inconsistent, invalid, or out-of-range values [2931], including values that conflict with the primary study’s or this work’s eligibility criteria (e.g., age < 18). Discrepancies resulting from these data integrity checks will be discussed with the authors [2931]. In addition, authors will be contacted if concerns arise regarding duplicate participants across trials (e.g., when multiple trials are conducted by the same author group).

2.8. Building the IPD database

All datasets received that contain IPD for at least one continuous depressive symptom measure will be considered for quantitative synthesis and will be pooled in a single database [2931]. Predictor variables are expected to be assessed differently across individual studies and will therefore be harmonized [2931]. Categorical variables (e.g., marital status) will be recoded so that they contain similar categories and corresponding coding schemes across all studies that include that variable (e.g., 0=single, 1=married, 2=separated/divorced, 3=widowed, 4=not married, but living together, 5=other).

To improve rigor and reproducibility of our data processing and cleaning pipelines, we developed a spreadsheet- and code-based system that also increases efficiency and scalability, allowing for changes to be instantaneously implemented across the database, and facilitating addition of new data. We will describe this system in more detail on the project’s Open Science Framework page.

2.9. Missing data imputation

Data will be imputed for variables that are ‘systematically’ missing for certain studies and values that are ‘sporadically’ missing for certain individual participants. We will use methods for multiple imputation that account for the clustering of participants in different studies [58,59], utilizing both baseline variables as well as all intermediate and endpoint outcomes available in the datasets [60]. If there are no systematically missing predictors in the studies, we will perform multiple imputation of missing data for each study separately as our primary analysis, and use the procedure described above as sensitivity analysis. Single imputation will also be considered, for instance for imputation of baseline variables, if it follows recommended advice [61].

2.10. Modelling approach

First, we will estimate the average relative treatment effects (mean differences) using pairwise meta-analyses and a random effects NMA based on aggregate data. NMA enables us to obtain relative treatment effects for all treatment comparisons, even for those without direct evidence [62], as long as they are connected in the network. One prerequisite for NMA is transitivity, i.e., that the included studies do not differ with respect to the distribution of effect modifiers when grouped by comparison. Transitivity also means that a ‘mega-trial’ would be possible, i.e., a hypothetical trial comparing all treatments in the network, and that all patients would in principle be eligible to receive any of these treatments. We will assess transitivity conceptually and by examining candidate effect modifiers across comparisons. Lack of transitivity may affect the consistency of the network, or the extent to which the direct and indirect estimated effect of a particular comparison align. When direct and indirect estimated effects are inconsistent (i.e., do not align), NMA results may be invalid. Therefore, we will evaluate statistical consistency using the design-by-treatment interaction model [63] and the back calculation method [64]. We will assume a common heterogeneity parameter in the network, and we will assess its extent by looking at prediction intervals. For these analyses, we will use the netmeta package in R [65].

To model the relative individualized treatment effects amongst the five treatments, we will conduct a two-stage IPD-NMA in the rjags R package [66]. In the first stage, we will analyze each study separately using a suitable regression model (e.g., linear regression adjusting for baseline) to estimate the treatment effect at average values of the predictors as well as all treatment-predictor interactions. For estimating treatment-predictor interactions, we will consider using penalization (shrinkage). Such methods tend to shrink (decrease the values of) the estimated coefficients as compared to usual maximum likelihood approaches. A simulation has shown that penalization methods may lead to more accurate predictions (i.e., smaller mean squared error) regarding patient-specific treatment effects in IPD meta-analysis compared to unpenalized methods [67]. We will fit the model in each of the multiply imputed datasets for each study. Then, we will combine posterior samples of the model parameters across the imputed datasets, to estimate study-level parameters and their corresponding uncertainty [68].

In the second stage, we will synthesize all study-specific results (treatment effect estimates, and interactions, and their standard errors) using a (multivariate) NMA model, where, as above, we will assume common between-study heterogeneity across all treatment comparisons. The end product will be a set of estimates of the treatment effect at average values of the predictors as well as treatment-predictor interactions (i.e., effect modification). The final model will allow us, given a participant’s baseline values, to predict individualized treatment effects between any two treatments (TA and TB) in the network, where treatment effect means the predicted difference in outcome if the individual received TA versus TB.

2.11. Cross-validation of the model

We will assess the performance of the model with internal-external cross-validation [69,70]. More specifically, we will repeat the analytical process described above after taking one study out of our sample and use the remaining studies to fit our model. Then, we will apply the model to the left-out study, and for each patient therein we will calculate the predicted treatment effects among all treatments in the study. Finally, using these predictions, we will evaluate model performance within and across studies using meta-analysis methods. Conceptually, this evaluation will follow the Personalized Advantage Index approach described by DeRubeis and colleagues [71] in which outcomes of participants who received the treatment recommended by the model are compared against the outcomes of participants who received a non-recommended treatment [71]. This has been also termed “population benefit” index [72]. This measure combines aspects of discrimination-for-benefit and calibration-for-benefit. A useful model for personalized treatment effects should have an index larger than the average treatment effect. We will also assess calibration-for-benefit purely by producing calibration plots and fitting a regression for benefit [72]. Analyses will be done with the predieval R package (v.0.1.1) [73].

2.12. Assessment of meta-biases

To assess the potential impact of risk-of-bias, we will conduct a random effect NMA excluding studies at high risk of bias. We will visually compare the 95% confidence intervals of the mean relative treatment effects for all treatment comparisons between this and the primary analysis.

We will assess potential data-availability bias by comparing effect sizes (i.e., mean relative treatment effects) between studies for which IPD were and were not available with a subgroup NMA. To facilitate comparability, effect sizes will be calculated based on the effect size data extracted from the publications upon inclusion in the METAPSY database for all studies (rather than being based on the IPD when available) [31].

Small study effects (potential publication bias) will be assessed by examining asymmetry in contour-enhanced funnel plots with Egger’s test of the intercept for pairwise comparisons including ten or more trials [30,31,74]. The analyses will include both studies for which IPD were versus were not available and will, therefore, also be based on the effect size data extracted from the publications [31]. We will assess the strength of the body of evidence based on the number of included studies and participants as well as the quality of the included studies [30,31].

2.13. Ethical standards

Institutional Review Board (IRB) approval is not required for this project, because we will work with anonymized data from treatment studies that have already been completed [2931]. IRB approval might be required for the investigators to share their IPD depending on their institution’s policies [2931]. It will be the responsibility of the investigators to obtain IRB approval if their institution’s policies require them to do so [2931]. By signing the data sharing agreement, the authors who share their IPD will declare that those data were collected and will be transferred according to all applicable local and international laws and regulations [2931]. Furthermore, they declare that all IPD will be anonymized, so that no personal data are transferred [31].

3. Discussion

In this article, we described the rationale and protocol for a study that aims to improve personalized treatment selection for depression. More specifically, we aim to build an IPD database from existing randomized clinical trials worldwide covering five major empirically-supported depression treatments, and to conduct an IPD-NMA to estimate individualized relative treatment effects for these five interventions.

This study has several strengths. First, we describe a data-analysis strategy that combines state-of-the-art methods to predict personalized treatment effects based on combined data from multiple clinical trials. Second, we will build a unique patient-level database of worldwide trials covering five of the most widely used depression treatments. We will make this database available for future research by ourselves and others, beyond the scope and duration of this project, thus prospectively reducing the burden that clinical research poses on patients. Moreover, we will build the lasting infrastructure that will allow this database to further expand (e.g., adding new studies), as well as systems that could be used to develop similar IPD databases in other contexts. Third, applying the data-analysis strategy in this database will result in a prediction model, which is based on multiple observed person and illness characteristics and results in directly usable clinical recommendations for optimizing treatment selection for individuals in the context of multiple treatments. Overcoming an important limitation of prior research in this field, we will evaluate this model and assess its potential generalizability. We will examine model performance using internal-external cross-validation to reduce the potential for biased estimates and overfitting.

This study also has several limitations. First, primary studies will likely show considerable heterogeneity in key features such as which and how predictors were assessed, number and frequency of treatment sessions, and assessment timing. Harmonization of variables across relevant studies will also be necessary to account for variation in how predictors were operationalized across different studies [2931]. Recoding categorical variables into a smaller number of categories might be necessary, despite the potential resulting loss of information [2931]. Second, this study does not cover all available depression treatments. We have focused on five widely used and studied interventions for which we expect a substantial amount of comparative IPD will be available. However, our methodology will be adaptable for future inclusion of low-intensity treatments (e.g., psychoeducation), other psychotherapies (e.g., problem-solving therapy), combined treatment of psychotherapy and ADM [46], or depression treatments in different contexts (e.g., digital therapy, inpatient treatment, or brain stimulation therapies). Third, although identification of studies is based on systematic literature searches, it is possible that we might miss studies. For instance, the searches underlying the METAPSY database do not include a formal grey literature search. In addition, we expect that IPD will not be obtained for all studies that we do identify. Although a recent study found few indications for data-availability bias in IPD meta-analyses [75], we will assess empirically the extent to which mean relative treatment effects differ between studies for which IPD are versus are not available. We also will examine empirically potential publication bias.

If accuracy and generalizability of the resulting statistical model’s predictions are deemed adequate, it could be used to develop a depression treatment selection tool. This tool would need to be evaluated prospectively in clinical practice before it can be implemented in mental health care to facilitate knowledge-based decision making, for instance by prospective randomized comparisons of model-informed treatment allocation versus allocation-as-usual or randomized allocation [76]. Future work should also focus on developing and evaluating implementation strategies for precision mental health approaches [19]. We hope that the results of this study will be evaluated further for their potential to inform shared decision making and help depressed individuals receive the optimal treatment given their personal characteristics. In this way, we hope to contribute to personalizing evidence-based treatment selection for depression to reduce this disorder’s tremendous personal and societal costs.

Supporting information

S1 Table

PRISMA-P (Preferred Reporting Items for Systematic Review and Meta-Analysis Protocols) 2015 Checklist: Recommended Items to Address in a Systematic Review Protocol.

(DOCX)

pone.0322124.s001.docx (29.3KB, docx)
S2 Table

TRIPOD-Cluster Checklist of Items to Include When Reporting a Study Developing or Validating a Multivariable Prediction Model Using Clustered Data.

(DOCX)

pone.0322124.s002.docx (29.3KB, docx)

Data Availability

Data availability is not applicable to this article as no data were analyzed for this study protocol paper.

Funding Statement

ED received funding from the Dutch Research Council (https://www.nwo.nl/en) to supported this work (Grant number: NWO 016.Veni.195.215 6806). DF is supported by UK Research and Innovation Medical Research Council (https://www.ukri.org/councils/mrc/), grant number: MC_UU_00004/06. The funders had no role in the development of this study protocol, nor was there editorial direction or censorship from the sponsor in this manuscript.

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Decision Letter 0

Nishant Jaiswal

27 Sep 2024

PONE-D-23-39716Developing a multivariable prediction model to support personalized selection among five major empirically-supported treatments for adult depression. Study protocol of a systematic review and individual participant data network meta-analysis.PLOS ONE

Dear Dr. Cohen,

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https://eprints.whiterose.ac.uk/190928/1/efficacy-and-moderators-of-cognitive-therapy-versus-behavioural-activation-for-adults-with-depression-study-protocol-of-a-systematic-review-and-meta-analysis-of-individual-participant-data.pdf?

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Comments to the Author

1. Does the manuscript provide a valid rationale for the proposed study, with clearly identified and justified research questions?

The research question outlined is expected to address a valid academic problem or topic and contribute to the base of knowledge in the field.

Reviewer #1: Yes

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2. Is the protocol technically sound and planned in a manner that will lead to a meaningful outcome and allow testing the stated hypotheses?

The manuscript should describe the methods in sufficient detail to prevent undisclosed flexibility in the experimental procedure or analysis pipeline, including sufficient outcome-neutral conditions (e.g. necessary controls, absence of floor or ceiling effects) to test the proposed hypotheses and a statistical power analysis where applicable. As there may be aspects of the methodology and analysis which can only be refined once the work is undertaken, authors should outline potential assumptions and explicitly describe what aspects of the proposed analyses, if any, are exploratory.

Reviewer #1: Yes

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3. Is the methodology feasible and described in sufficient detail to allow the work to be replicable?

Descriptions of methods and materials in the protocol should be reported in sufficient detail for another researcher to reproduce all experiments and analyses. The protocol should describe the appropriate controls, sample size calculations, and replication needed to ensure that the data are robust and reproducible.

Reviewer #1: Yes

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4. Have the authors described where all data underlying the findings will be made available when the study is complete?

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Reviewer #1: Yes

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Reviewer #1: Yes

**********

6. Review Comments to the Author

Please use the space provided to explain your answers to the questions above and, if applicable, provide comments about issues authors must address before this protocol can be accepted for publication. You may also include additional comments for the author, including concerns about research or publication ethics.

You may also provide optional suggestions and comments to authors that they might find helpful in planning their study.

(Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: Thank you for the opportunity to review this protocol for an outstanding study. This is one of the most well-written protocols and most promising trials I have recently seen. I have only a few minor comments.

1. There seems to be some confusion regarding who is the corresponding author of this manuscript (ED or ZDC).

2. The authors may want to include the following reference concerning treatment heterogeneity in the introduction section:

Volkmann C, Volkmann A, Müller CA. On the treatment effect heterogeneity of antidepressants in major depression: A Bayesian meta-analysis and simulation study. Hutson AD, ed. PLoS One. 2020;15(11):e0241497. doi:10.1371/journal.pone.0241497

3. I have a question regarding the included delivery formats. The manuscript states that guided digital interventions will be included. Are there any restrictions regarding the amount of guidance? This can differ significantly, to the point where human support is reduced to a couple of minutes per patient.

4. How will the authors account for the effect of different settings/intensities of care, as both outpatient and inpatient care settings are included?

5. Will there be a minimum depression baseline score for inclusion? How will this be operationalized?

6. Will there be exclusions of participants on an individual patient data level if the authors find indications that some inclusion criteria are not met by single persons in the IPD?

7. Regarding data checks, it appears that the authors do not compare the means/standard deviations or raw counts with those reported in the publication. This is highly recommended.

8. Multiple imputation of missing moderators (even if they are entirely missing in a study): I am not sufficiently familiar with Network Meta-Analyses to comment in detail, but if feasible, I recommend performing a sensitivity analysis where imputation is conducted within each study only.

**********

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: 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.

PLoS One. 2025 Apr 23;20(4):e0322124. doi: 10.1371/journal.pone.0322124.r003

Author response to Decision Letter 1


7 Nov 2024

Journal requirements:

When submitting your revision, we need you to address these additional requirements.

1. Please ensure that your manuscript meets PLOS ONE's style requirements, including those for file naming. The PLOS ONE style templates can be found at

https://journals.plos.org/plosone/s/file?id=wjVg/PLOSOne_formatting_sample_main_body.pdf and

https://journals.plos.org/plosone/s/file?id=ba62/PLOSOne_formatting_sample_title_authors_affiliations.pdf

Response:

We have double checked the manuscript against the abovementioned templates to ensure it meets PLOS ONE’s style requirements. As a result, we have removed abbreviations in the author affiliations (spelling out full terms instead), adapted heading formats, and updated file names.

2. We noticed you have some minor occurrence of overlapping text with the following previous publication(s), which needs to be addressed:

https://eprints.whiterose.ac.uk/190928/1/efficacy-and-moderators-of-cognitive-therapy-versus-behavioural-activation-for-adults-with-depression-study-protocol-of-a-systematic-review-and-meta-analysis-of-individual-participant-data.pdf?

In your revision ensure you cite all your sources (including your own works), and quote or rephrase any duplicated text outside the methods section. Further consideration is dependent on these concerns being addressed.

Response:

We have compared the manuscript with the abovementioned previous publication by our group. As a consequence, we have added citations in the methods section and rephrased three sentences in the discussion section. In this way, we hope to have addressed all minor text overlap. If, despite our best efforts, any occurrences can still be identified, please let us know which specific sections are of concern and we will be more than happy to address these too.

3. In the online submission form, you indicated that the collective de-identified individual participant database that will be developed for this study will be available for use by other researchers, provided that the authors of the original studies approve the use of their data for this purpose. Requests can be made with the corresponding author (ellen.driessen@ru.nl). Access (with limited investigator support) will be granted after approval of a study proposal by all authors and a signed data access agreement.

All PLOS journals now require all data underlying the findings described in their manuscript to be freely available to other researchers, either 1. In a public repository, 2. Within the manuscript itself, or 3. Uploaded as supplementary information.

This policy applies to all data except where public deposition would breach compliance with the protocol approved by your research ethics board. If your data cannot be made publicly available for ethical or legal reasons (e.g., public availability would compromise patient privacy), please explain your reasons on resubmission and your exemption request will be escalated for approval.

Response:

This manuscript describes the protocol for a study that has not yet been conducted. Therefore, it does not describe any findings. The individual participant database described above has not yet been developed and it is currently not possible to make this available.

We can see how our phrasing in the online submission form might be confusing in this regard and have now adjusted it as follows:

Data availability is not applicable to this article as no data were analyzed for this study protocol paper.

4. As required by our policy on Data Availability, please ensure your manuscript or supplementary information includes the following:

A numbered table of all studies identified in the literature search, including those that were excluded from the analyses.

For every excluded study, the table should list the reason(s) for exclusion.

If any of the included studies are unpublished, include a link (URL) to the primary source or detailed information about how the content can be accessed.

A table of all data extracted from the primary research sources for the systematic review and/or meta-analysis. The table must include the following information for each study:

Name of data extractors and date of data extraction

Confirmation that the study was eligible to be included in the review.

All data extracted from each study for the reported systematic review and/or meta-analysis that would be needed to replicate your analyses.

If data or supporting information were obtained from another source (e.g. correspondence with the author of the original research article), please provide the source of data and dates on which the data/information were obtained by your research group.

If applicable for your analysis, a table showing the completed risk of bias and quality/certainty assessments for each study or outcome. Please ensure this is provided for each domain or parameter assessed. For example, if you used the Cochrane risk-of-bias tool for randomized trials, provide answers to each of the signalling questions for each study. If you used GRADE to assess certainty of evidence, provide judgements about each of the quality of evidence factor. This should be provided for each outcome.

An explanation of how missing data were handled.

This information can be included in the main text, supplementary information, or relevant data repository. Please note that providing these underlying data is a requirement for publication in this journal, and if these data are not provided your manuscript might be rejected.

Response:

This manuscript is a study protocol paper and does not describe any findings. Literature searches, data extraction, and risk of bias assessments have not yet been completed. These will be described in the article reporting the outcomes of the study we describe in the current protocol paper.

5. Please include captions for your Supporting Information files at the end of your manuscript, and update any in-text citations to match accordingly. Please see our Supporting Information guidelines for more information: http://journals.plos.org/plosone/s/supporting-information.

Response:

We now include captions for the Supporting Information files at the end of the manuscript and have updated their in-text citations accordingly.

Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. Does the manuscript provide a valid rationale for the proposed study, with clearly identified and justified research questions?

The research question outlined is expected to address a valid academic problem or topic and contribute to the base of knowledge in the field.

Reviewer #1: Yes

________________________________________

2. Is the protocol technically sound and planned in a manner that will lead to a meaningful outcome and allow testing the stated hypotheses?

The manuscript should describe the methods in sufficient detail to prevent undisclosed flexibility in the experimental procedure or analysis pipeline, including sufficient outcome-neutral conditions (e.g. necessary controls, absence of floor or ceiling effects) to test the proposed hypotheses and a statistical power analysis where applicable. As there may be aspects of the methodology and analysis which can only be refined once the work is undertaken, authors should outline potential assumptions and explicitly describe what aspects of the proposed analyses, if any, are exploratory.

Reviewer #1: Yes

________________________________________

3. Is the methodology feasible and described in sufficient detail to allow the work to be replicable?

Descriptions of methods and materials in the protocol should be reported in sufficient detail for another researcher to reproduce all experiments and analyses. The protocol should describe the appropriate controls, sample size calculations, and replication needed to ensure that the data are robust and reproducible.

Reviewer #1: Yes

________________________________________

4. Have the authors described where all data underlying the findings will be made available when the study is complete?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception, at the time of publication. 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

________________________________________

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

________________________________________

6. Review Comments to the Author

Please use the space provided to explain your answers to the questions above and, if applicable, provide comments about issues authors must address before this protocol can be accepted for publication. You may also include additional comments for the author, including concerns about research or publication ethics.

You may also provide optional suggestions and comments to authors that they might find helpful in planning their study.

Reviewer #1: Thank you for the opportunity to review this protocol for an outstanding study. This is one of the most well-written protocols and most promising trials I have recently seen. I have only a few minor comments.

Response:

We thank Reviewer 1 for their thoughtful review and positive feedback. We are very happy to hear that our proposed study is considered promising and of high quality.

1. There seems to be some confusion regarding who is the corresponding author of this manuscript (ED or ZDC).

Response:

ED and ZDC share corresponding authorship for this manuscript and are, therefore, both listed as corresponding authors. This is in line with PLOS ONE’s submission guidelines that do “not restrict the number of corresponding authors that may be listed on the article in the event of publication” (https://journals.plos.org/plosone/s/submission-guidelines).

2. The authors may want to include the following reference concerning treatment heterogeneity in the introduction section:

Volkmann C, Volkmann A, Müller CA. On the treatment effect heterogeneity of antidepressants in major depression: A Bayesian meta-analysis and simulation study. Hutson AD, ed. PLoS One. 2020;15(11):e0241497. doi:10.1371/journal.pone.0241497

Response:

We thank Reviewer 1 for this suggestion and have included the reference [5] in the introduction (page 5, marked up copy) as follows:

People suffering from depression have a range of therapeutic options, including various antidepressant medications (ADMs) and psychological treatments such as cognitive therapy (CT), behavioral activation (BA), interpersonal psychotherapy (IPT), and short-term psychodynamic psychotherapy (STPP). Although no significant differences in average treatment effects have been found between these interventions [1,2], response is highly heterogeneous [3,4,5] warranting the need for more personalized treatment recommendations [6].

3. I have a question regarding the included delivery formats. The manuscript states that guided digital interventions will be included. Are there any restrictions regarding the amount of guidance? This can differ significantly, to the point where human support is reduced to a couple of minutes per patient.

Response:

This is a good point. To avoid large heterogeneity in the amount of guidance between studies, we decided to exclude guided digital interventions. Our literature searches so far did not identify any study of guided digital interventions meeting the inclusion criteria for this work, suggesting that this decision likely will not lead to a substantial decrease in sample size. We have adjusted the relevant methods section (page 9, marked up copy), which now reads:

We will include psychotherapies in any delivery format (i.e., face-to-face, telephone, or videoconferencing), as long as a clinician delivers the therapy [30,31]. Bibliotherapy, internet therapy, or other self-help formats will be excluded.

4. How will the authors account for the effect of different settings/intensities of care, as both outpatient and inpatient care settings are included?

Response:

We thank Reviewer 1 for this question. We realize now that inpatient psychiatric care settings by definition do not meet our inclusion criteria, as do partial hospitalization and intensive outpatient programs, since patients in these settings receive more care than psychotherapy or antidepressant monotherapy. Therefore, we have rephrased the relevant section as follows to avoid this confusion (page 9, marked up copy):

Treatment must not exceed 6 months with no restrictions on the number of sessions [30,31]. Inpatient settings, partial hospitalization programs, and intensive outpatient programs will be excluded, since by definition more care is provided than psychotherapy or antidepressant monotherapy. We will place no other restrictions on the setting in which treatment is delivered (e.g., primary care, outpatient mental health care) [30,31].

5. Will there be a minimum depression baseline score for inclusion? How will this be operationalized?

Response:

As described at page 7 (marked up copy), depression is defined at study-level, as participants 1) meeting specified criteria (e.g., Diagnostic and Statistical Manual of Mental Disorders) for major depressive disorder or another unipolar mood disorder assessed by means of a semi-structured interview or clinicians’ assessment, or 2) presenting a score at or above a validated cut-off indicating the likelihood of clinically significant depressive symptoms on an evaluator-assessed, clinician-assessed, or self-reported measure of depression.

As such, there is no minimum depression baseline score for inclusion. For studies in the first category, baseline depression scores are allowed to vary as long as the participants meet diagnostic criteria for a unipolar mood disorder. For studies in the second category, the minimum depression baseline score is operationalized by the cut-off score of the specific measure used indicating the likelihood of clinically significant depressive symptoms (e.g., Hamilton Depression Rating Scale score ≥ 10; Beck Depression Inventory score ≥ 10).

We have now rephased the relevant section in hopes of providing further clarification:

Participants will be considered depressed if they meet specified criteria (e.g., Diagnostic and Statistical Manual of Mental Disorders) for major depressive disorder or another unipolar mood disorder assessed by means of a semi-structured interview or clinicians’ assessment, or if they present a score at or above a validated cut-off indicating the likelihood of clinically significant depressive symptoms on an evaluator-assessed, clinician-assessed, or self-reported measure of depression (e.g., Hamilton Depression Rating Scale total score ≥ 10; Beck Depression Inventory total score ≥ 10) [29-31,34].

6. Will there be exclusions of participants on an individual patient data level if the authors find indications that some inclusion criteria are not met by single persons in the IPD?

Response:

Yes, it is part of our data integrity check procedure to check for participants reporting values that are in conflict with the eligibility criteria of the study in which they were enrolled or the meta-analysis proposed (e.g., age <18). We considered this included in our checks “for inconsistent, invalid, or out-of-range values”, but we now describe this explicitly in the relevant methods section (page 14, marked up copy) as follows:

Third, the outcome and predictor variables will be checked for inconsistent, invalid, or out-of-range values [29-31], including values that conflict with the primary study’s or this work’s eligibility criteria (e.g., ag

Attachment

Submitted filename: Response to reviewers - 2024-11-07.docx

pone.0322124.s003.docx (33.4KB, docx)

Decision Letter 1

Nishant Jaiswal

4 Feb 2025

PONE-D-23-39716R1Developing a multivariable prediction model to support personalized selection among five major empirically-supported treatments for adult depression. Study protocol of a systematic review and individual participant data network meta-analysis.PLOS ONE

Dear Dr. Cohen,

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.

==============================

ACADEMIC EDITOR: The protocol is well written and explains the methodology and plans in detailsIt will be interesting to see the full review when completed

==============================

Please submit your revised manuscript by Mar 21 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:

  • A rebuttal letter that responds to each point raised by the academic editor and reviewer(s). You should upload this letter as a separate file labeled 'Response to Reviewers'.

  • A marked-up copy of your manuscript that highlights changes made to the original version. You should upload this as a separate file labeled 'Revised Manuscript with Track Changes'.

  • An unmarked version of your revised paper without tracked changes. You should upload this as a separate file labeled '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,

Nishant Premnath Jaiswal, MBBS, PhD

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.

[Note: HTML markup is below. Please do not edit.]

Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. Does the manuscript provide a valid rationale for the proposed study, with clearly identified and justified research questions?

The research question outlined is expected to address a valid academic problem or topic and contribute to the base of knowledge in the field.

Reviewer #1: Yes

**********

2. Is the protocol technically sound and planned in a manner that will lead to a meaningful outcome and allow testing the stated hypotheses?

The manuscript should describe the methods in sufficient detail to prevent undisclosed flexibility in the experimental procedure or analysis pipeline, including sufficient outcome-neutral conditions (e.g. necessary controls, absence of floor or ceiling effects) to test the proposed hypotheses and a statistical power analysis where applicable. As there may be aspects of the methodology and analysis which can only be refined once the work is undertaken, authors should outline potential assumptions and explicitly describe what aspects of the proposed analyses, if any, are exploratory.

Reviewer #1: Yes

**********

3. Is the methodology feasible and described in sufficient detail to allow the work to be replicable?

Descriptions of methods and materials in the protocol should be reported in sufficient detail for another researcher to reproduce all experiments and analyses. The protocol should describe the appropriate controls, sample size calculations, and replication needed to ensure that the data are robust and reproducible.

Reviewer #1: Yes

**********

4. Have the authors described where all data underlying the findings will be made available when the study is complete?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception, at the time of publication. 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

**********

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

**********

6. Review Comments to the Author

Please use the space provided to explain your answers to the questions above and, if applicable, provide comments about issues authors must address before this protocol can be accepted for publication. You may also include additional comments for the author, including concerns about research or publication ethics.

You may also provide optional suggestions and comments to authors that they might find helpful in planning their study.

(Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: Thank you for addressing my comments. Most of my concerns have been thoroughly addressed.

However, there is one detail that may require further clarification:

The authors state: "We will include psychotherapies in any delivery format (i.e., face-to-face, telephone, or videoconferencing), as long as a clinician delivers the therapy [30,31]. Bibliotherapy, internet therapy, or other self-help formats will be excluded."

It is somewhat disappointing that, under the current definition, guided and unguided digital interventions are excluded. These are precisely the types of interventions that hold the greatest potential for scaling psychotherapy treatments in the future.

Nevertheless, the authors might want to consider adding a specification to the inclusion/exclusion criteria clarifying how they plan to deal with mixed-methods interventions, including blended treatment formats.

Thank you once again for the opportunity to review this excellent protocol. I am eagerly looking forward to the results of this study.

**********

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: 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.

PLoS One. 2025 Apr 23;20(4):e0322124. doi: 10.1371/journal.pone.0322124.r005

Author response to Decision Letter 2


4 Mar 2025

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.

Reply

We have double-checked the reference list and can ensure it is complete and correct. We do not cite any papers that have been retracted.

Reviewers' comments:

Reviewer #1: Thank you for addressing my comments. Most of my concerns have been thoroughly addressed.

However, there is one detail that may require further clarification:

The authors state: "We will include psychotherapies in any delivery format (i.e., face-to-face, telephone, or videoconferencing), as long as a clinician delivers the therapy [30,31]. Bibliotherapy, internet therapy, or other self-help formats will be excluded."

It is somewhat disappointing that, under the current definition, guided and unguided digital interventions are excluded. These are precisely the types of interventions that hold the greatest potential for scaling psychotherapy treatments in the future.

Nevertheless, the authors might want to consider adding a specification to the inclusion/exclusion criteria clarifying how they plan to deal with mixed-methods interventions, including blended treatment formats.

Thank you once again for the opportunity to review this excellent protocol. I am eagerly looking forward to the results of this study.

Reply

We thank Reviewer 1 for reviewing the revised version of this manuscript. We are very happy to hear that Reviewer 1 considers this protocol of high quality and prior concerns generally addressed.

We acknowledge the potential of digital interventions as scalable depression treatments. Prior work has been conducted aimed at personalizing treatment selection in this area (e.g., https://pubmed.ncbi.nlm.nih.gov/33471111/).

We agree that the manuscript would benefit from specifying how mixed-methods interventions and blended treatment formats are dealt with. We propose to exclude such treatment formats too to avoid large heterogeneity in the amount of guidance between studies. Please note that our literature searches so far did not identify any study applying a blended format. As such, we expect this decision will not lead to many studies being excluded from consideration. We have adjusted the relevant methods section (page 9, marked up copy), which now reads:

We will include psychotherapies in any delivery format (i.e., face-to-face, telephone, or videoconferencing), as long as a clinician delivers the therapy [30,31]. Bibliotherapy, internet therapy, or other self-help formats will be excluded, as will be blended treatment formats that combine clinician-delivered therapy with internet interventions.

Attachment

Submitted filename: Response to reviewers - 2025-03-04.docx

pone.0322124.s004.docx (18.1KB, docx)

Decision Letter 2

Nishant Jaiswal

18 Mar 2025

Developing a multivariable prediction model to support personalized selection among five major empirically-supported treatments for adult depression. Study protocol of a systematic review and individual participant data network meta-analysis.

PONE-D-23-39716R2

Dear Dr. Cohen,

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. If you have any questions relating to publication charges, please contact our Author Billing department directly at authorbilling@plos.org.

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,

Nishant Premnath Jaiswal, MBBS, PhD

Academic Editor

PLOS ONE

Additional Editor Comments (optional):

All the comments have been addressed satisfactorily

Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. Does the manuscript provide a valid rationale for the proposed study, with clearly identified and justified research questions?

The research question outlined is expected to address a valid academic problem or topic and contribute to the base of knowledge in the field.

Reviewer #1: Yes

**********

2. Is the protocol technically sound and planned in a manner that will lead to a meaningful outcome and allow testing the stated hypotheses?

The manuscript should describe the methods in sufficient detail to prevent undisclosed flexibility in the experimental procedure or analysis pipeline, including sufficient outcome-neutral conditions (e.g. necessary controls, absence of floor or ceiling effects) to test the proposed hypotheses and a statistical power analysis where applicable. As there may be aspects of the methodology and analysis which can only be refined once the work is undertaken, authors should outline potential assumptions and explicitly describe what aspects of the proposed analyses, if any, are exploratory.

Reviewer #1: Yes

**********

3. Is the methodology feasible and described in sufficient detail to allow the work to be replicable?

Descriptions of methods and materials in the protocol should be reported in sufficient detail for another researcher to reproduce all experiments and analyses. The protocol should describe the appropriate controls, sample size calculations, and replication needed to ensure that the data are robust and reproducible.

Reviewer #1: Yes

**********

4. Have the authors described where all data underlying the findings will be made available when the study is complete?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception, at the time of publication. 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

**********

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

**********

6. Review Comments to the Author

Please use the space provided to explain your answers to the questions above and, if applicable, provide comments about issues authors must address before this protocol can be accepted for publication. You may also include additional comments for the author, including concerns about research or publication ethics.

You may also provide optional suggestions and comments to authors that they might find helpful in planning their study.

(Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: All my questions have been answered. I wish you every success with this important study. I look forward to the results!

**********

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: No

**********

Acceptance letter

Nishant Jaiswal

PONE-D-23-39716R2

PLOS ONE

Dear Dr. Cohen,

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:

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Associated Data

    This section collects any data citations, data availability statements, or supplementary materials included in this article.

    Supplementary Materials

    S1 Table

    PRISMA-P (Preferred Reporting Items for Systematic Review and Meta-Analysis Protocols) 2015 Checklist: Recommended Items to Address in a Systematic Review Protocol.

    (DOCX)

    pone.0322124.s001.docx (29.3KB, docx)
    S2 Table

    TRIPOD-Cluster Checklist of Items to Include When Reporting a Study Developing or Validating a Multivariable Prediction Model Using Clustered Data.

    (DOCX)

    pone.0322124.s002.docx (29.3KB, docx)
    Attachment

    Submitted filename: Response to reviewers - 2024-11-07.docx

    pone.0322124.s003.docx (33.4KB, docx)
    Attachment

    Submitted filename: Response to reviewers - 2025-03-04.docx

    pone.0322124.s004.docx (18.1KB, docx)

    Data Availability Statement

    Data availability is not applicable to this article as no data were analyzed for this study protocol paper.


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