{"corpus_id":203981313,"paper_sha":"0077e3888c64f2028fab138651d0e3f5b40c1719","doi":"10.1186/s12968-019-0574-z","arxiv_id":null,"pmid":31597563,"pmcid":"6785908","mag_id":2979877744,"dblp_id":null,"acl_id":null,"title":"Improved co-registration of ex-vivo and in-vivo cardiovascular magnetic resonance images using heart-specific flexible 3D printed acrylic scaffold combined with non-rigid registration","year":2019,"publication_date":"2019-10-10","venue":"Journal of Cardiovascular Magnetic Resonance","journal":{"name":"Journal of Cardiovascular Magnetic Resonance","pages":null,"volume":"21"},"journal_issn":null,"journal_title":null,"publication_types":["JournalArticle"],"pubmed_pub_types":["Comparative Study","Journal Article","Research Support, Non-U.S. Gov't"],"s2_fields_of_study":["Medicine","Engineering"],"reference_count":53,"citation_count":14,"influential_citation_count":0,"is_open_access":true,"arxiv_categories":null,"arxiv_license":null,"arxiv_journal_ref":null,"mesh_headings":[{"d":"Animals","mj":false,"ui":"D000818"},{"d":"Chronic Disease","mj":false,"ui":"D002908"},{"d":"Disease Models, Animal","mj":false,"ui":"D004195"},{"d":"Magnetic Resonance Imaging","mj":true,"ui":"D008279"},{"d":"Models, Anatomic","mj":true,"ui":"D008953"},{"d":"Models, Cardiovascular","mj":true,"ui":"D008955"},{"d":"Myocardial Infarction","mj":false,"qs":[{"q":"diagnostic imaging","mj":true,"ui":"Q000000981"},{"q":"pathology","mj":false,"ui":"Q000473"},{"q":"physiopathology","mj":false,"ui":"Q000503"}],"ui":"D009203"},{"d":"Myocardial Reperfusion Injury","mj":false,"qs":[{"q":"diagnostic imaging","mj":true,"ui":"Q000000981"},{"q":"pathology","mj":false,"ui":"Q000473"},{"q":"physiopathology","mj":false,"ui":"Q000503"}],"ui":"D015428"},{"d":"Myocardium","mj":false,"qs":[{"q":"pathology","mj":false,"ui":"Q000473"}],"ui":"D009206"},{"d":"Pliability","mj":false,"ui":"D018583"},{"d":"Predictive Value of Tests","mj":false,"ui":"D011237"},{"d":"Printing, Three-Dimensional","mj":true,"ui":"D066330"},{"d":"Reproducibility of Results","mj":false,"ui":"D015203"},{"d":"Sus scrofa","mj":false,"ui":"D034421"},{"d":"Ventricular Function, Left","mj":false,"ui":"D016277"},{"d":"Ventricular Remodeling","mj":false,"ui":"D020257"}],"chemicals":null,"comments_corrections":null,"source_flags":5,"s2_open_access_pdf_url":"https://jcmr-online.biomedcentral.com/track/pdf/10.1186/s12968-019-0574-z","s2_open_access_landing_url":"https://www.semanticscholar.org/paper/0077e3888c64f2028fab138651d0e3f5b40c1719","s2_open_access_license":"CCBY","s2_open_access_status":"GOLD","pmc_open_access_pdf_url":null,"pmc_open_access_landing_url":null,"pmc_open_access_license":null,"pmc_open_access_status":null,"unpaywall_open_access_pdf_url":null,"unpaywall_open_access_landing_url":null,"unpaywall_open_access_license":null,"unpaywall_open_access_status":null,"abstract":"BackgroundEx-vivo cardiovascular magnetic resonance (CMR) imaging has played an important role in the validation of in-vivo CMR characterization of pathological processes. However, comparison between in-vivo and ex-vivo imaging remains challenging due to shape changes occurring between the two states, which may be non-uniform across the diseased heart. A novel two-step process to facilitate registration between ex-vivo and in-vivo CMR was developed and evaluated in a porcine model of chronic myocardial infarction (MI).MethodsSeven weeks after ischemia-reperfusion MI, 12 swine underwent in-vivo CMR imaging with late gadolinium enhancement followed by ex-vivo CMR 1 week later. Five animals comprised the control group, in which ex-vivo imaging was undertaken without any support in the LV cavity, 7 animals comprised the experimental group, in which a two-step registration optimization process was undertaken. The first step involved a heart specific flexible 3D printed scaffold generated from in-vivo CMR, which was used to maintain left ventricular (LV) shape during ex-vivo imaging. In the second step, a non-rigid co-registration algorithm was applied to align in-vivo and ex-vivo data. Tissue dimension changes between in-vivo and ex-vivo imaging were compared between the experimental and control group. In the experimental group, tissue compartment volumes and thickness were compared between in-vivo and ex-vivo data before and after non-rigid registration. The effectiveness of the alignment was assessed quantitatively using the DICE similarity coefficient.ResultsLV cavity volume changed more in the control group (ratio of cavity volume between ex-vivo and in-vivo imaging in control and experimental group 0.14 vs 0.56, p < 0.0001) and there was a significantly greater change in the short axis dimensions in the control group (ratio of short axis dimensions in control and experimental group 0.38 vs 0.79, p < 0.001). In the experimental group, prior to non-rigid co-registration the LV cavity contracted isotropically in the ex-vivo condition by less than 20% in each dimension. There was a significant proportional change in tissue thickness in the healthy myocardium (change = 29 ± 21%), but not in dense scar (change = − 2 ± 2%, p = 0.034). Following the non-rigid co-registration step of the process, the DICE similarity coefficients for the myocardium, LV cavity and scar were 0.93 (±0.02), 0.89 (±0.01) and 0.77 (±0.07) respectively and the myocardial tissue and LV cavity volumes had a ratio of 1.03 and 1.00 respectively.ConclusionsThe pattern of the morphological changes seen between the in-vivo and the ex-vivo LV differs between scar and healthy myocardium. A 3D printed flexible scaffold based on the in-vivo shape of the LV cavity is an effective strategy to minimize morphological changes in the ex-vivo LV. The subsequent non-rigid registration step further improved the co-registration and local comparison between in-vivo and ex-vivo data.","claims":[{"public_id":"cl_8f39bad275c056f98ea8a3c60289b4fd","status":"active","text":"A two-step process combining a heart-specific flexible 3D printed scaffold generated from in-vivo CMR and non-rigid co-registration improves co-registration between ex-vivo and in-vivo cardiovascular magnetic resonance images.","confidence":0.95,"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/claims/cl_8f39bad275c056f98ea8a3c60289b4fd"},{"public_id":"cl_935b60e61008752e36fa5e1a8cedb213","status":"active","text":"After non-rigid co-registration, DICE similarity coefficients for myocardium, LV cavity, and scar were 0.93 (±0.02), 0.89 (±0.01), and 0.77 (±0.07) respectively.","confidence":0.95,"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/claims/cl_935b60e61008752e36fa5e1a8cedb213"},{"public_id":"cl_d88ae71bfef8951d5a111d935476b7cd","status":"active","text":"In the experimental group, the LV cavity contracted isotropically in the ex-vivo condition by less than 20% in each dimension before non-rigid co-registration.","confidence":0.9,"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/claims/cl_d88ae71bfef8951d5a111d935476b7cd"},{"public_id":"cl_7896b44c0612177e1ba9ea36571cacab","status":"active","text":"The pattern of morphological changes between in-vivo and ex-vivo LV differs between scar and healthy myocardium, with significant proportional change in tissue thickness in healthy myocardium (29±21%) but not in dense scar (−2±2%, p=0.034).","confidence":0.9,"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/claims/cl_7896b44c0612177e1ba9ea36571cacab"}],"concepts":[{"public_id":"co_004f2df06947cbf22b1b390e7c37a266","status":"active","name":"healthy myocardium","description":"Non-scarred myocardial tissue showing significant proportional change in thickness (29±21%).","types":["tissue"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_004f2df06947cbf22b1b390e7c37a266"},{"public_id":"co_09aa4e86f469e80a1a218783a05af8cf","status":"active","name":"experimental group","description":"The group of 7 swine in which the two-step registration optimization process was undertaken.","types":["study group"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_09aa4e86f469e80a1a218783a05af8cf"},{"public_id":"co_12de790f6d8839095fb4d21b61708509","status":"active","name":"morphological changes","description":"The pattern of shape changes between in-vivo and ex-vivo LV, differing between scar and healthy myocardium.","types":["phenomenon"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_12de790f6d8839095fb4d21b61708509"},{"public_id":"co_14bd43ab3767b9fb00b5650c35544366","status":"active","name":"scar","description":"Dense scar tissue from chronic myocardial infarction, evaluated for thickness changes and DICE coefficient.","types":["tissue"],"aliases":["dense scar"],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_14bd43ab3767b9fb00b5650c35544366"},{"public_id":"co_27777b10fec17021273bbbbf201c5e7b","status":"active","name":"heart-specific flexible 3D printed scaffold","description":"A flexible scaffold generated from in-vivo CMR and used to maintain left ventricular shape during ex-vivo imaging.","types":["device"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_27777b10fec17021273bbbbf201c5e7b"},{"public_id":"co_6e3cdbcffe0b5c77f23357655b50e201","status":"active","name":"myocardium","description":"The myocardial tissue of the left ventricle, evaluated for thickness changes and DICE coefficient.","types":["tissue"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_6e3cdbcffe0b5c77f23357655b50e201"},{"public_id":"co_81d49e94f3fc648bb05e11d34b91e827","status":"active","name":"DICE similarity coefficient","description":"A quantitative metric used to assess the effectiveness of alignment between in-vivo and ex-vivo data.","types":["metric"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_81d49e94f3fc648bb05e11d34b91e827"},{"public_id":"co_8eaafc59896be1977948247d13f36234","status":"active","name":"two-step registration optimization process","description":"A method comprising first using a heart-specific flexible 3D printed scaffold to maintain LV shape during ex-vivo imaging, then applying a non-rigid co-registration algorithm to align in-vivo and ex-vivo data.","types":["method"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_8eaafc59896be1977948247d13f36234"},{"public_id":"co_94cbb5836f81093c5b73827915dc75bd","status":"active","name":"non-rigid co-registration algorithm","description":"An algorithm applied to align in-vivo and ex-vivo data after the scaffold step.","types":["method"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_94cbb5836f81093c5b73827915dc75bd"},{"public_id":"co_bc645415753f7aeb02c57876da075aee","status":"active","name":"isotropic contraction","description":"Contraction of the LV cavity by less than 20% in each dimension in the ex-vivo condition before non-rigid co-registration.","types":["phenomenon"],"aliases":[],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_bc645415753f7aeb02c57876da075aee"},{"public_id":"co_bd8a98db4418a811d178ac5f3d9cbff8","status":"active","name":"LV cavity","description":"The left ventricular cavity, whose volume and dimensions were measured in both in-vivo and ex-vivo conditions.","types":["anatomical structure"],"aliases":["left ventricular cavity"],"contributors":[{"id":32,"public_id":"7c402c1b98","public_label":"뀨 (7c402c1b98)","roles":["extraction"],"url":"https://sah.borca.ai/u/7c402c1b98"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"},{"id":170,"public_id":"gsgmdx9r6e","public_label":"pupuri (gsgmdx9r6e)","roles":["review"],"url":"https://sah.borca.ai/u/gsgmdx9r6e"}],"url":"https://sah.borca.ai/concepts/co_bd8a98db4418a811d178ac5f3d9cbff8"}],"external_ids":{"DOI":"10.1186/s12968-019-0574-z","ArXiv":null,"PubMed":31597563,"PubMedCentral":"6785908","MAG":2979877744,"DBLP":null,"ACL":null},"open_access":{"is_open_access":true,"pdf_url":"https://jcmr-online.biomedcentral.com/track/pdf/10.1186/s12968-019-0574-z","landing_url":"https://www.semanticscholar.org/paper/0077e3888c64f2028fab138651d0e3f5b40c1719","source":"semantic_scholar","pdf_url_source":"semantic_scholar_open_access_pdf","license":"CCBY","status":"GOLD","reason":null},"reference_availability":{"status":"available","references_indexed":true,"full_text_available":false,"full_text_source":null,"count_basis":"semantic_scholar_metadata","extraction_status":"not_applicable","reason":null},"source":{"provider":"episteme2","base_corpus":"semantic_scholar_dump","freshness_mode":"unknown","basis":["semantic_scholar_metadata","postgres_metadata"],"limits":["paper metadata is based on indexed upstream scholarly datasets","claims and concepts are available only for extracted papers","absence of claims or concepts means no extracted graph data is available in this response"],"status":"available","degraded":false,"degraded_reasons":[],"diagnostics":{"status":"available","degraded":false,"degraded_reasons":[],"metadata_status":"available","graph_status":"available","abstract_status":"available"},"source_flags":5},"paper_id":636717,"paper_uid":"2d99ce15-1943-4e62-b1a1-5439d1f3cabf","canonical_identity":{"paper_id":636717,"paper_uid":"2d99ce15-1943-4e62-b1a1-5439d1f3cabf","identity_status":"available","lookup_basis":"semantic_scholar_external_id","compatibility_path":"corpus_id"},"url":"https://sah.borca.ai/papers/203981313"}