{"id":1934,"date":"2015-11-24T11:56:17","date_gmt":"2015-11-24T10:56:17","guid":{"rendered":"http:\/\/www.lookingatnothing.com\/?p=1934"},"modified":"2015-11-24T16:48:18","modified_gmt":"2015-11-24T15:48:18","slug":"saxs-in-six-dimensions","status":"publish","type":"post","link":"https:\/\/lookingatnothing.com\/index.php\/archives\/1934","title":{"rendered":"SAXS in six dimensions"},"content":{"rendered":"<p>[Quick note: I am also giving a talk at ESRF next week, on the 3rd of December, in the Science Building Seminar Room 035 at 15:00]<\/p>\n<p>Two of you have informed me of amazing work published last week. You may remember that we briefly mentioned 3D SAXS a while ago <a href=\"http:\/\/www.lookingatnothing.com\/index.php\/archives\/1287\">here<\/a>, of which a more detailed write-up is still to follow. The added information content in a full 3D scattering pattern should be quite interesting, and would allow f.ex. the testing of the MC method in three dimensions, as opposed to the two <a href=\"http:\/\/arxiv.org\/abs\/1303.2903\">demonstrated here<\/a>.<\/p>\n<p>Now the ante has been upped by two (somewhat related) groups, having combined 3D scattering pattern reconstruction with computed tomography. This gives you spatially resolved three-dimensional scattering patterns, i.e. a 3D scattering pattern for each three-dimensional voxel in space. <!--more--><\/p>\n<p>The papers are the following:<\/p>\n<ul>\n<li>Marianne Liebi et al.: <a href=\"http:\/\/dx.doi.org\/10.1038\/nature16056\">&#8220;Nanostructure surveys of macroscopic specimens by small-angle scattering tensor tomography&#8221;<\/a> [who was also the <a href=\"http:\/\/www.helmholtz-berlin.de\/events\/sas\/awards\/index_de.html\">winner of the SAS2015 Kratky Prize<\/a>]<\/li>\n<li>Florian Schaff et al.: &#8220;<a href=\"http:\/\/dx.doi.org\/10.1038\/nature16060\">Six-dimensional real and reciprocal space small-angle X-ray scattering tomography<\/a>&#8221; [note that Marianne Liebi also co-authored this paper]<\/li>\n<\/ul>\n<p>In the same issue, a <a href=\"http:\/\/dx.doi.org\/10.1038\/527308a\">&#8220;news &amp; views&#8221; article<\/a> can be found by Peter Fratzl, who previously also worked on 3D pattern reconstruction. This article adds some more context and a more gentle introduction to their findings.<\/p>\n<figure id=\"attachment_1935\" aria-describedby=\"caption-attachment-1935\" style=\"width: 300px\" class=\"wp-caption alignright\"><a href=\"http:\/\/www.lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16056-f3.png\"><img loading=\"lazy\" decoding=\"async\" class=\"size-medium wp-image-1935\" src=\"http:\/\/www.lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16056-f3-300x171.png\" alt=\"The reconstructed bone segment of Liebi et al.. Reproduced with permission from http:\/\/dx.doi.org\/10.1038\/nature16056, Copyright \u00a9 2015, Rights Managed by Nature Publishing Group\" width=\"300\" height=\"171\" srcset=\"https:\/\/lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16056-f3-300x171.png 300w, https:\/\/lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16056-f3.png 946w\" sizes=\"auto, (max-width: 300px) 100vw, 300px\" \/><\/a><figcaption id=\"caption-attachment-1935\" class=\"wp-caption-text\">The reconstructed bone segment of Liebi et al.. Reproduced with permission from http:\/\/dx.doi.org\/10.1038\/nature16056, Copyright \u00a9 2015, Rights Managed by Nature Publishing Group<\/figcaption><\/figure>\n<figure id=\"attachment_1936\" aria-describedby=\"caption-attachment-1936\" style=\"width: 300px\" class=\"wp-caption alignright\"><a href=\"http:\/\/www.lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16060-f3.png\"><img loading=\"lazy\" decoding=\"async\" class=\"wp-image-1936 size-medium\" src=\"http:\/\/www.lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16060-f3-300x170.png\" alt=\"nature16060-f3\" width=\"300\" height=\"170\" srcset=\"https:\/\/lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16060-f3-300x170.png 300w, https:\/\/lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16060-f3.png 946w\" sizes=\"auto, (max-width: 300px) 100vw, 300px\" \/><\/a><figcaption id=\"caption-attachment-1936\" class=\"wp-caption-text\">The reconstructed tooth segment of Schaff et al.. Reproduced with permission from http:\/\/dx.doi.org\/10.1038\/nature16060, Copyright \u00a9 2015, Rights Managed by Nature Publishing Group<\/figcaption><\/figure>\n<p>The approaches of the two groups differ slightly, with the Liebi work using spherical harmonics to describe the 3D scattering patterns, whereas Schaff did not. In my non-expert view, the use of spherical harmonics may be more resilient to reconstruction artifacts appearing in the scattering patterns, but I may be wrong about this.<\/p>\n<p>Both groups managed to calculate their solutions on more-or-less commercially available computer systems, making this approach more achievable by normal laboratories. Total reconstruction times were reported to be on the order of a week. Both groups used biological samples, which, as indicated in the SI of Schaff, may suffer from radiation damage in these long experiments (40h for Schaff, 36 h for Liebi). In fact, it is hard to think of samples that would not be damaged by such exposures. Bonus points to the group of Schaff for using Kieffer &amp; co.&#8217;s <a href=\"https:\/\/github.com\/kif\/pyFAI\">pyFAI <\/a>for their initial azimuthal averaging, surely helping enormously in the reduction of the scale of the optimization problem.<\/p>\n<p>The obtained data looks amazing from both, and the technique is set to add much value for (not-so-nondestructive) nanostructural investigations of many hierarchical materials. With this, we may finally have a good use for those newfangled bright synchrotron sources!<\/p>\n<p>&nbsp;<\/p>\n","protected":false},"excerpt":{"rendered":"<div class=\"mh-excerpt\"><p>[Quick note: I am also giving a talk at ESRF next week, on the 3rd of December, in the Science Building Seminar Room 035 at <a class=\"mh-excerpt-more\" href=\"https:\/\/lookingatnothing.com\/index.php\/archives\/1934\" title=\"SAXS in six dimensions\">[&#8230;]<\/a><\/p>\n<\/div>","protected":false},"author":2,"featured_media":1936,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"activitypub_content_warning":"","activitypub_content_visibility":"","activitypub_max_image_attachments":4,"activitypub_interaction_policy_quote":"anyone","activitypub_status":"","footnotes":"","jetpack_publicize_message":"","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","default_image_id":0,"font":"","enabled":false},"version":2}},"categories":[1],"tags":[],"class_list":["post-1934","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-uncategorized"],"jetpack_publicize_connections":[],"jetpack_featured_media_url":"https:\/\/lookingatnothing.com\/wp-content\/uploads\/2015\/11\/nature16060-f3.png","jetpack_shortlink":"https:\/\/wp.me\/p1gZ2v-vc","jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/posts\/1934","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/comments?post=1934"}],"version-history":[{"count":2,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/posts\/1934\/revisions"}],"predecessor-version":[{"id":1938,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/posts\/1934\/revisions\/1938"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/media\/1936"}],"wp:attachment":[{"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/media?parent=1934"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/categories?post=1934"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/lookingatnothing.com\/index.php\/wp-json\/wp\/v2\/tags?post=1934"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}