Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx
<p>We present MMPred, a software tool that integrates epitope prediction and sequence alignment algorithms to streamline the computational analysis of molecular mimicry events in autoimmune diseases. Starting with two protein or peptide sets (e.g., from human and SARS-CoV-2), MMPred facilitate...
محفوظ في:
| المؤلف الرئيسي: | |
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| مؤلفون آخرون: | , , |
| منشور في: |
2024
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إضافة وسم
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| _version_ | 1852024562904989696 |
|---|---|
| author | Filippo Guerri (17017524) |
| author2 | Valentin Junet (8447724) Judith Farrés (9455007) Xavier Daura (427091) |
| author2_role | author author author |
| author_facet | Filippo Guerri (17017524) Valentin Junet (8447724) Judith Farrés (9455007) Xavier Daura (427091) |
| author_role | author |
| dc.creator.none.fl_str_mv | Filippo Guerri (17017524) Valentin Junet (8447724) Judith Farrés (9455007) Xavier Daura (427091) |
| dc.date.none.fl_str_mv | 2024-12-10T10:17:08Z |
| dc.identifier.none.fl_str_mv | 10.3389/fgene.2024.1500684.s008 |
| dc.relation.none.fl_str_mv | https://figshare.com/articles/dataset/Table_8_MMPred_a_tool_to_predict_peptide_mimicry_events_in_MHC_class_II_recognition_xlsx/27999584 |
| dc.rights.none.fl_str_mv | CC BY 4.0 info:eu-repo/semantics/openAccess |
| dc.subject.none.fl_str_mv | Genetics molecular mimicry epitope prediction sequence alignment MHC class II autoimmune disease SARS-CoV-2 |
| dc.title.none.fl_str_mv | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| dc.type.none.fl_str_mv | Dataset info:eu-repo/semantics/publishedVersion dataset |
| description | <p>We present MMPred, a software tool that integrates epitope prediction and sequence alignment algorithms to streamline the computational analysis of molecular mimicry events in autoimmune diseases. Starting with two protein or peptide sets (e.g., from human and SARS-CoV-2), MMPred facilitates the generation, investigation, and testing of mimicry hypotheses by providing epitope predictions specifically for MHC class II alleles, which are frequently implicated in autoimmunity. However, the tool is easily extendable to MHC class I predictions by incorporating pre-trained models from CNN-PepPred and NetMHCpan. To evaluate MMPred’s ability to produce biologically meaningful insights, we conducted a comprehensive assessment involving i) predicting associations between known HLA class II human autoepitopes and microbial-peptide mimicry, ii) interpreting these predictions within a systems biology framework to identify potential functional links between the predicted autoantigens and pathophysiological pathways related to autoimmune diseases, and iii) analyzing illustrative cases in the context of SARS-CoV-2 infection and autoimmunity. MMPred code and user guide are made freely available at https://github.com/ComputBiol-IBB/MMPRED.</p> |
| eu_rights_str_mv | openAccess |
| id | Manara_b6e63d78619193dffd49bc4e4e02463d |
| identifier_str_mv | 10.3389/fgene.2024.1500684.s008 |
| network_acronym_str | Manara |
| network_name_str | ManaraRepo |
| oai_identifier_str | oai:figshare.com:article/27999584 |
| publishDate | 2024 |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| rights_invalid_str_mv | CC BY 4.0 |
| spelling | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsxFilippo Guerri (17017524)Valentin Junet (8447724)Judith Farrés (9455007)Xavier Daura (427091)Geneticsmolecular mimicryepitope predictionsequence alignmentMHC class IIautoimmune diseaseSARS-CoV-2<p>We present MMPred, a software tool that integrates epitope prediction and sequence alignment algorithms to streamline the computational analysis of molecular mimicry events in autoimmune diseases. Starting with two protein or peptide sets (e.g., from human and SARS-CoV-2), MMPred facilitates the generation, investigation, and testing of mimicry hypotheses by providing epitope predictions specifically for MHC class II alleles, which are frequently implicated in autoimmunity. However, the tool is easily extendable to MHC class I predictions by incorporating pre-trained models from CNN-PepPred and NetMHCpan. To evaluate MMPred’s ability to produce biologically meaningful insights, we conducted a comprehensive assessment involving i) predicting associations between known HLA class II human autoepitopes and microbial-peptide mimicry, ii) interpreting these predictions within a systems biology framework to identify potential functional links between the predicted autoantigens and pathophysiological pathways related to autoimmune diseases, and iii) analyzing illustrative cases in the context of SARS-CoV-2 infection and autoimmunity. MMPred code and user guide are made freely available at https://github.com/ComputBiol-IBB/MMPRED.</p>2024-12-10T10:17:08ZDatasetinfo:eu-repo/semantics/publishedVersiondataset10.3389/fgene.2024.1500684.s008https://figshare.com/articles/dataset/Table_8_MMPred_a_tool_to_predict_peptide_mimicry_events_in_MHC_class_II_recognition_xlsx/27999584CC BY 4.0info:eu-repo/semantics/openAccessoai:figshare.com:article/279995842024-12-10T10:17:08Z |
| spellingShingle | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx Filippo Guerri (17017524) Genetics molecular mimicry epitope prediction sequence alignment MHC class II autoimmune disease SARS-CoV-2 |
| status_str | publishedVersion |
| title | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| title_full | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| title_fullStr | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| title_full_unstemmed | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| title_short | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| title_sort | Table 8_MMPred: a tool to predict peptide mimicry events in MHC class II recognition.xlsx |
| topic | Genetics molecular mimicry epitope prediction sequence alignment MHC class II autoimmune disease SARS-CoV-2 |