{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:33:55Z","timestamp":1772138035729,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"22-23","license":[{"start":{"date-parts":[[2020,12,1]],"date-time":"2020-12-01T00:00:00Z","timestamp":1606780800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100000038","name":"NSERC","doi-asserted-by":"publisher","award":["DGECR-2020-00034"],"award-info":[{"award-number":["DGECR-2020-00034"]}],"id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Government of Canada\u2019s New Frontiers in Research Fund","award":["NFRFE-2019-00486"],"award-info":[{"award-number":["NFRFE-2019-00486"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,4,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Cryogenic electron microscopy (cryo-EM) offers the unique potential to capture conformational heterogeneity, by solving multiple three-dimensional classes that co-exist within a single cryo-EM image dataset. To investigate the extent and implications of such heterogeneity, we propose to use an optimal-transport-based metric to interpolate barycenters between EM maps and produce morphing trajectories.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>While standard linear interpolation mostly fails to produce realistic transitions, our method yields continuous trajectories that displace densities to morph one map into the other, instead of blending them.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Our method is implemented as a plug-in for ChimeraX called MorphOT, which allows the use of both CPU or GPU resources. The code is publicly available on GitHub (https:\/\/github.com\/kdd-ubc\/MorphOT.git), with documentation containing tutorial and datasets.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa1019","type":"journal-article","created":{"date-parts":[[2020,11,25]],"date-time":"2020-11-25T08:37:04Z","timestamp":1606293424000},"page":"5528-5529","source":"Crossref","is-referenced-by-count":6,"title":["<i>MorphOT<\/i>\n                    : transport-based interpolation between EM maps with UCSF\n                    <i>ChimeraX<\/i>"],"prefix":"10.1093","volume":"36","author":[{"given":"Arthur","family":"Ecoffet","sequence":"first","affiliation":[{"name":"Department of Mathematics, University of British Columbia , Vancouver, BC V6T 1Z4, Canada"},{"name":"Department of Applied Mathematics, Ecole Polytechnique , Palaiseau 91120, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fr\u00e9d\u00e9ric","family":"Poitevin","sequence":"additional","affiliation":[{"name":"Department of LCLS Data Analytics, Linac Coherent Light Source, SLAC National Accelerator Laboratory , Menlo Park, CA 94025, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Khanh","family":"Dao Duc","sequence":"additional","affiliation":[{"name":"Department of Mathematics, University of British Columbia , Vancouver, BC V6T 1Z4, Canada"},{"name":"Department of Computer Science, University of British Columbia , Vancouver, BC V6T 1Z4, Canada"},{"name":"Department of Zoology, University of British Columbia , Vancouver, BC V6T 1Z4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,12,27]]},"reference":[{"key":"2023062707094498800_btaa1019-B1","first-page":"1","author":"Bonneel","year":"2011"},{"key":"2023062707094498800_btaa1019-B2","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1038\/nmeth.3700","article-title":"Single-particle cryo-electron microscopy","volume":"13","author":"Doerr","year":"2016","journal-title":"Nat. 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