Peer Review History
| Original SubmissionAugust 5, 2024 |
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PONE-D-24-32671 Plant Attribute Extraction Based on an Enhancing Three-Stage Model PLOS ONE Dear Dr. Zhang, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we have decided that your manuscript does not meet our criteria for publication and must therefore be rejected. I am sorry that we cannot be more positive on this occasion, but hope that you appreciate the reasons for this decision. Kind regards, Fu Lee Wang Academic Editor PLOS ONE Additional Editor Comments: This paper makes a fundamental mistake. It mentions that Chinese text is segmented by characters. In fact, Chinese text is segmented by words and Chinese segmentation is an important research topic. The author may submit the manuscript to some editor for Chinese language processing. It is also mentioned that words in English can be split into smaller sub-words. This is not a common approach in English processing. [Note: HTML markup is below. Please do not edit.] [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.] - - - - - For journal use only: PONEDEC3
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| Revision 1 |
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Dear Dr. Zhang, 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 19 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.
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, Jin Liu Academic Editor PLOS ONE Additional Editor Comments: Based on the advice received, a revised version of this manuscript should be presented to address the points raised during the review process. [Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author Reviewer #1: (No Response) Reviewer #2: (No Response) Reviewer #3: (No Response) Reviewer #4: (No Response) ********** 2. Is the manuscript technically sound, and do the data support the conclusions??> Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: Yes ********** 4. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: (No Response) ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: Yes Reviewer #4: (No Response) ********** Reviewer #1: I would say this manuscript is publishable after major revisions. The reasons are as follows: 1.Formula labeling inconsistency. The third section contains inconsistent labeling of the same formula within the text, which may lead to reader confusion and negatively impact the article's readability. 2.Inadequate explanation of attention mechanism. While Section 3.4 mentions the attention mechanism, it lacks a detailed explanation of its specific implementation and how the computed weights influence the model's prediction process. 3.Limited dataset scale. The current dataset size is relatively small, with an insufficient number of samples, potentially compromising the model's generalization capability and the reliability of the experimental findings. It is strongly recommended that the authors expand the dataset and conduct additional experiments to validate the model's performance and robustness. 4.Suboptimal visual presentation. Several figures and tables are either excessively dense or poorly organized, diminishing their readability and overall visual effectiveness. Reviewer #2: 1.It is recommended that the authors reorganize the content by dedicating a separate section to the ablation study. This would allow for a more systematic and in-depth analysis of each module's contribution to the overall model performance, thereby enhancing the clarity and scientific rigor of the manuscript. 2.The methodology section in Chapter 3 lacks comprehensive explanations for some formulas. Key variables and derivation processes are not adequately clarified. For instance, while Formula 5 describes the distance between vectors, it fails to elaborate on how this distance is utilized in adversarial training. Similarly, Formula 7 outlines the calculation of disturbances but omits the specific meaning and computational steps of the involved variables. Providing these details is crucial for readers to fully understand the technical foundations of the proposed approach. 3.Although the proposed model demonstrates certain advantages in the comparative experiments, the number of baseline models included in the comparison is relatively limited. Expanding the comparison to include more state-of-the-art models would strengthen the validity and persuasiveness of the experimental results. 4.Section 3.3 mentions the dimensions of the global matrix and the prediction method but does not provide a clear explanation of how the global matrix is constructed. A detailed description of this process is essential for reproducibility and for readers to fully grasp the methodology. Reviewer #3: In the revised version, a lot of improvements have been made in the manuscript . However, a number of comments are shared which need to be addressed. 1) Title can be improved by sharing approach names like adding terms like deep learning etc for better understanding of the domain 2) “Framework of Model” heading does not convey enough information. Is it the proposed model? 3) Equation 5 presents the distance of the vector. However the equation is very generic and should be presented by changing symbols as per the domain in view on which the paper is written not generic symbols. 4) The related work section is poorly written and managed. Only 4 references are discussed and then whole framework of ETL is presented with detailed mathematical background. It is recommended that the related work should present the review of existing studies. Latest papers published in top journals should be discussed. Few are given for your guidance, these and more to be added. Also, try to add another heading and share ETL and equations and then equations of BiLSTM should be presented in that new heading. Guo, X., Zhu, Y., Li, S., Wu, S., & Liu, S. (2025). Research and Implementation of Agronomic Entity and Attribute Extraction Based on Target Localization. Agronomy, 15(2). Dalvi, P., Kalbande, D. R., Rathod, S. S., Dalvi, H., & Agarwal, A. (2024). Multi-Attribute Deep CNN-Based Approach for Detecting Medicinal Plants and their Use for Skin Diseases. IEEE Transactions on Artificial Intelligence. Wang, M., Zhang, S., Li, R., & Zhao, Q. (2024). Unraveling the specialized metabolic pathways in medicinal plant genomes: A review. Front. Plant Sci, 15, 1459533. doi: https://doi.org/10.3389/fpls.2024.1459533 Chen, C., Wang, R., Chen, M., Zhao, J., Li, H., Ignatieva, M.,... Zhou, W. (2025). The post-effects of landscape practices on spontaneous plants in urban parks. Urban Forestry & Urban Greening, 107, 128744. doi: https://doi.org/10.1016/j.ufug.2025.128744 5) A table of symbols used in the paper be presented with description for better understanding. 6) Conclusions are presented however future research work should also be proposed in this section and the title of the section can be changed to Conclusion and Future work Reviewer #4: 1、The three-stage joint extraction framework proposed in this article has achieved significant results in SEO overlap mode, but the discussion of existing models (such as ETL Span, OneRel, etc.) in the introduction and related work sections is relatively brief. Suggest adding comparisons with these latest models and clearly pointing out the technical and performance differences between our method and these models. This will help readers understand the innovation and advantages of the proposed method. 2、The integration logic of BERT wwm and adversarial training in Section 3.1 needs further clarification, especially on why perturbations are added at the word embedding layer instead of being processed at other layers, and how this design mitigates the negative impact of parameter sharing. In addition, it is recommended to further analyze the specific impact of this design on the stability of model training. 3、In the experimental section, it is necessary to supplement the comparison of the models in Table 2 and clarify whether the pre trained models used are consistent, as well as whether the hyperparameter settings are the same, to ensure the comparability of the experimental results. Meanwhile, the clarity of the experimental results and model architecture diagrams is poor. It is recommended to increase the resolution and annotation clarity of the charts to ensure their ease of interpretation. 4、Finally, it is recommended to quantify the specific impact of adversarial training on F1 score in the ablation experiment, in order to more clearly demonstrate the contribution of adversarial training to model performance and help readers understand its effectiveness. ********** 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 Reviewer #2: No Reviewer #3: No Reviewer #4: 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. |
| Revision 2 |
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Plant Attribute Extraction: An Enhancing Three-Stage Deep Learning Model for Relational Triple Extraction PONE-D-24-32671R2 Dear Dr. Zhang, 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, Jin Liu Academic Editor PLOS ONE Additional Editor Comments (optional): After carring out the reviewers suggestions, this manuscript can be accepted for publication now. Reviewers' comments: Reviewer's Responses to Questions Comments to the Author Reviewer #1: All comments have been addressed Reviewer #4: (No Response) ********** 2. Is the manuscript technically sound, and do the data support the conclusions??> Reviewer #1: Yes Reviewer #4: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: Yes Reviewer #4: Yes ********** 4. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #4: Yes ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: Yes Reviewer #4: Yes ********** Reviewer #1: This paper proposes a neuro-symbolic approach to visual dialogue that combines neural perception with symbolic reasoning. By introducing a conversation memory and procedural semantics, the method enables explainable and coherent multi-turn dialogue grounded in visual input. In response to reviewer feedback, the authors have made the following updates: 1.The issue of inconsistent formula labeling has been resolved. 2.The explanation of the attention mechanism is now clear and sufficiently detailed. 3.The additional comparative experiments (GRTE, UniRel) and ablation studies have strengthened the empirical support, and the explanation regarding dataset scale is reasonable. 4.The layout and structure of tables and figures have been improved, significantly enhancing the readability of the manuscript. Reviewer #4: This paper aims to transform text data into structured information, using a joint entity and relationship extraction method based on a tagging scheme, and proposing a three-stage "Bwdgv" model. By adjusting the word embedding layer and optimizing the relationship prediction mechanism of BERT, the model has improved its F1 score by 1.4% compared to the advanced PRGC method, and has good application prospects in knowledge graph construction and other applications. The author has made sufficient revisions to the article based on the review comments, and the overall quality has reached a publishable level. It is recommended to accept it. ********** 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 Reviewer #4: No ********** |
| Formally Accepted |
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PONE-D-24-32671R2 PLOS ONE Dear Dr. Zhang, 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. 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 Jin Liu Academic Editor PLOS ONE |
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