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Hi cool people,</div>
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Below is this past week's installment of new cryoEM papers. There are many short M&M papers - they're not listed here for space reasons; the first link has a full list.</div>
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<div class="elementToProof">M&M papers:<br>
<a href="https://urldefense.com/v3/__https://academic.oup.com/mam/issue/30/Supplement_1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNdkE7V3g$" id="LPlnk" class="OWAAutoLink">https://academic.oup.com/mam/issue/30/Supplement_1</a></div>
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<div class="elementToProof">Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using (an)aerobic blot-free vitrification</div>
<div class="elementToProof"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.19.604374v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMF4vkD9A$" id="LPlnk124732" class="OWAAutoLink">https://www.biorxiv.org/content/10.1101/2024.07.19.604374v1</a></div>
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<div class="elementToProof" style="color: rgb(0, 0, 0);">Amortized template-matching of molecular conformations from cryo-electron microscopy images using simulation-based inference</div>
<div class="elementToProof" style="color: rgb(0, 0, 0);"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.23.604154v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNlS3fydA$" id="LPlnk634579" class="OWAAutoLink">https://www.biorxiv.org/content/10.1101/2024.07.23.604154v1</a></div>
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<div class="elementToProof">Cryo-EM Screening of Apoferritin at 100 kV Using Hitachi’s HT7800 Thermionic Transmission Electron Microscope<br>
<a href="https://urldefense.com/v3/__https://academic.oup.com/mam/article/30/Supplement_1/ozae044.379/7720487__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPZZL-_FA$" id="LPlnk849452" class="OWAAutoLink">https://academic.oup.com/mam/article/30/Supplement_1/ozae044.379/7720487</a></div>
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<div class="elementToProof">All atom molecular dynamics simulations enable ensemble refinement of flexible and mismodelled cryo-EM derived RNA structures</div>
<div class="elementToProof"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.24.604258v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgO5RwwwIQ$" id="LPlnk624050" class="OWAAutoLink">https://www.biorxiv.org/content/10.1101/2024.07.24.604258v1</a></div>
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<div class="elementToProof">Likelihood-based interactive local docking into cryo-EM maps in ChimeraX<br>
<a href="https://urldefense.com/v3/__https://journals.iucr.org/d/issues/2024/08/00/id5013/index.html__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNu8Qy8dQ$" id="LPlnk220863">https://journals.iucr.org/d/issues/2024/08/00/id5013/index.html</a></div>
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Cheers,</div>
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Alex Noble</div>
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<div id="divRplyFwdMsg" dir="ltr" style="color: inherit;"><span style="font-family: Calibri, sans-serif; font-size: 11pt; color: rgb(0, 0, 0);"><b>From:</b> Alex Noble <<a href="mailto:anoble@nysbc.org" id="OWA0bf1acde-4b47-46da-5604-0ecf6ace64d4" class="linkificator-ext OWAAutoLink" title="Linkificator: mailto:anoble@nysbc.org" rel="noreferrer">anoble@nysbc.org</a>><br>
<b>Sent:</b> Monday, July 22, 2024 12:18 PM<br>
<b>To:</b> <a href="mailto:3dem@ncmir.ucsd.edu" id="OWA80bdd2d8-ed36-a119-e2e8-2c73fed358b0" class="linkificator-ext OWAAutoLink" title="Linkificator: mailto:3dem@ncmir.ucsd.edu" rel="noreferrer">
3dem@ncmir.ucsd.edu</a> <<a href="mailto:3dem@ncmir.ucsd.edu" id="OWAa87f7ae8-2ac7-b0dc-c43f-ef79a07c5b81" class="linkificator-ext OWAAutoLink" title="Linkificator: mailto:3dem@ncmir.ucsd.edu" rel="noreferrer">3dem@ncmir.ucsd.edu</a>><br>
<b>Subject:</b> Re: New cryoEM papers (#cryoem_papers)</span>
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Hi cool people,</div>
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Here is this past week's installment of new cryoEM papers (which will now also include new software):</div>
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<div style="direction: ltr;">MarkerDetector: A method for robust fiducial marker detection in electron micrographs using wavelet-based template</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/abs/pii/S1047847723001077__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgO-0HsIDw$" id="OWAe04c206d-9138-779e-f3d1-c16a3bde3d3f" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/abs/pii/S1047847723001077</a></div>
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<div style="direction: ltr;">CryoEM Workflow Acceleration with Feret Signatures</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.mdpi.com/1422-0067/25/14/7593__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgO92LXsKA$" id="OWA5ae7afff-2e33-2a30-e329-b58b731e6298" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.mdpi.com/1422-0067/25/14/7593</a></div>
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<div style="direction: ltr;">St Jude's EMHub software for facility organization</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://x.com/StJudeStructBio/status/1813236681388032326__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOLXuHvMA$" id="OWAff20e1c2-4078-055a-a6d2-cb60324a16b9" class="x_OWAAutoLink" data-auth="NotApplicable">https://x.com/StJudeStructBio/status/1813236681388032326</a><br>
<a href="https://urldefense.com/v3/__https://github.com/3dem/emhub__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOAfBVgYw$" id="OWA13da4d0c-c526-fb8b-d3af-dfcd4a3c58ee" class="x_OWAAutoLink" data-auth="NotApplicable">https://github.com/3dem/emhub</a></div>
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<div style="direction: ltr;">CryoSamba: self-supervised deep volumetric denoising for cryo-electron tomography data</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.11.603117v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNzFDQnzw$" id="OWAafabf574-b06b-a44d-6ae2-98cdd354d6b5" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.11.603117v1</a></div>
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<div style="direction: ltr;">Denoising, Deblurring, and optical Deconvolution for cryo-ET and light microscopy with a physics-informed deep neural network DeBCR</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.12.603278v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNT4zN26g$" id="OWAc8a59956-17a2-3b00-1447-b58977091b61" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.12.603278v1</a></div>
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<div style="direction: ltr;">Vesicle Picker: A tool for efficient identification of membrane protein complexes in vesicles</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.15.603622v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPvy-oKFg$" id="OWA03ab0404-a2aa-467f-9e4f-a73bfff9693b" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.15.603622v1</a></div>
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<div style="direction: ltr;">Computational models of amorphous ice for accurate simulation of cryo-EM images of biological samples</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/pii/S0304399123001997__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMENOMJ4A$" id="OWAc2657219-8bdf-c771-4295-bed569d8dff8" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/pii/S0304399123001997</a></div>
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<div style="direction: ltr;">CryoDRGN-ET: deep reconstructing generative networks for visualizing dynamic biomolecules inside cells<br>
<a href="https://urldefense.com/v3/__https://www.nature.com/articles/s41592-024-02340-4__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMTpOynGw$" id="OWA1d88effb-a1f9-7ad2-0455-6178dc14a37f" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.nature.com/articles/s41592-024-02340-4</a></div>
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<div style="direction: ltr;">Exploring Cellular Processes by Modeling Ligands in Cryo-EM Maps</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://app.jove.com/b/66310/modeling-small-molecule-ligands-in-cryoem-maps-of-macromolecules__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMbztQNKw$" id="OWAb8af00b1-92fb-9c6b-a196-0a757c3b3311" class="x_OWAAutoLink" data-auth="NotApplicable">https://app.jove.com/b/66310/modeling-small-molecule-ligands-in-cryoem-maps-of-macromolecules</a></div>
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<div style="direction: ltr;">AQuaRef: Machine learning accelerated quantum refinement of protein structures</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.21.604493v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNq85nkPA$" id="OWAc9a57463-084f-0257-b27f-b07c1324b4b9" class="x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.21.604493v1</a></div>
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<div style="direction: ltr;">The myth of high-resolution liquid phase biological electron microscopy</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://onlinelibrary.wiley.com/doi/10.1002/pro.5125__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNqX9AO4Q$" id="OWA1c91680c-92a5-d809-96a0-7f9bb3e0718a" class="x_OWAAutoLink" data-auth="NotApplicable">https://onlinelibrary.wiley.com/doi/10.1002/pro.5125</a></div>
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Best wishes,</div>
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Alex Noble</div>
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<div id="x_divRplyFwdMsg" dir="ltr" style="color: inherit;"><span style="font-family: Calibri, sans-serif; font-size: 11pt; color: rgb(0, 0, 0);"><b>From:</b> Alex Noble<br>
<b>Sent:</b> Monday, July 15, 2024 2:39 PM<br>
<b>To:</b> <a href="mailto:3dem@ncmir.ucsd.edu" id="OWA44199988-ff41-1208-3724-d7c2d6e750fe" class="x_linkificator-ext OWAAutoLink" title="Linkificator: mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a> <<a href="mailto:3dem@ncmir.ucsd.edu" id="OWAec6ad422-81d1-cc0b-86b8-3b9a59d6ceca" class="x_linkificator-ext OWAAutoLink" title="Linkificator: mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>><br>
<b>Subject:</b> New cryoEM papers (#cryoem_papers)</span>
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Hi cool people,</div>
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I've been finding new cryoEM papers that are interesting to me (methods/new tech, machine learning, cryoFIB/SEM-ET, etc.; typically no biology-focused papers) for our internal Slack channel for years and decided to share them with the community as well. Many
papers fall through the cracks, so I think it would be good to have the whole cryoEM community on the same page. Hopefully it will make the community more productive and speed up the pace of developments.=)</div>
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There used to be a twitter bot that (<a href="https://urldefense.com/v3/__https://x.com/cryoem_papers__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNLGKnFaw$" id="OWA2382a3e8-8c47-3c9c-60d5-0486a4bf1a21" class="x_x_OWAAutoLink" title="https://x.com/cryoem_papers" data-auth="NotApplicable">@cryoem_papers</a>) that did this work. I'll add #cryoem_papers
to this recurrent email so it's easy for you to filter them as you wish.</div>
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I'll aim to post new papers every Monday. Here's the first batch covering the past 2 weeks:</div>
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<div style="direction: ltr;">CryoViT: Efficient Segmentation of Cryogenic Electron Tomograms with Vision Foundation Models<br>
<a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.06.26.600701v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPhMBdS8A$" id="OWA4b8a686e-e60b-9793-8c96-6327d258ef92" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.06.26.600701v1</a></div>
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<div style="direction: ltr;">Accurate size-based protein localization from cryo-ET tomograms<br>
<a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/pii/S2590152424000096__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPOVhm7sg$" id="OWA1bae66d7-42f7-bec0-0adc-98f8174f9f62" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/pii/S2590152424000096</a></div>
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<div style="direction: ltr;">Accurate Prediction of Protein Structural Flexibility by Deep Learning Integrating Intricate Atomic Structures and Cryo-EM Density Information<br>
<a href="https://urldefense.com/v3/__https://www.nature.com/articles/s41467-024-49858-x__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOwEMQHCQ$" id="OWA6301430d-2fd1-4aca-0878-eb3c740c9109" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.nature.com/articles/s41467-024-49858-x</a></div>
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<div style="direction: ltr;">OPUS-TOMO: Deep Learning Framework for Structural Heterogeneity Analysis in Cryo-electron Tomography</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.06.30.601442v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOetZIUUA$" id="OWAb1567466-2c94-da5e-de4e-fd941c3fcd9e" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.06.30.601442v1</a></div>
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<div style="direction: ltr;">Frontiers in integrative structural biology: modeling disordered proteins and utilizing in situ data</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2407.00566__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgN0BjOckw$" id="OWA2a188cf4-99de-1114-9e19-96323744b151" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2407.00566</a></div>
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<div style="direction: ltr;">Direct Measurement of the Critical Cooling Rate for the Vitrification of Water</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2407.01087__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOUIAp-nQ$" id="OWAf792d4f6-eae5-7e10-ae40-04ea094f4091" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2407.01087</a></div>
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<div style="direction: ltr;">DiffFit: Visually-Guided Differentiable Fitting of Molecule Structures to a Cryo-EM Map</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2404.02465__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMwQtoPxw$" id="OWA88fa2334-2f65-dd42-5366-7b80212daa75" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2404.02465</a></div>
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<div style="direction: ltr;">Einstein from Noise: Statistical Analysis</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.06.602366v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgO8d1zzWA$" id="OWA2e429208-547f-4393-af44-0a77bb5e4401" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.06.602366v1</a></div>
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<div style="direction: ltr;">Advances in cryo-ET data processing: meeting the demands of visual proteomics</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/pii/S0959440X24000885__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNaFZKHLg$" id="OWAb734afc8-bacd-e927-9a26-de97db34ed53" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/pii/S0959440X24000885</a></div>
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<div style="direction: ltr;">Expanding insights from in situ cryo-EM</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/abs/pii/S0959440X2400112X__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNoKqussQ$" id="OWAebe88574-d0e5-546b-00f5-9225c33dd847" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/abs/pii/S0959440X2400112X</a></div>
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<div style="direction: ltr;">High-resolution real-space reconstruction of cryo-EM structures using a neural field network</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.nature.com/articles/s42256-024-00870-2__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNafTScCw$" id="OWA31724921-35ab-c66b-3364-be4f2ea45275" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.nature.com/articles/s42256-024-00870-2</a></div>
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<div style="direction: ltr;">Nanobody-assisted cryoEM structural determination for challenging proteins</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.cell.com/trends/biochemical-sciences/abstract/S0968-0004(24)00136-1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOL7bg0Zw$" id="OWA4a821fb6-bfbd-b8f7-1c81-d3dbd6bd5810" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.cell.com/trends/biochemical-sciences/abstract/S0968-0004(24)00136-1</a></div>
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<div style="direction: ltr;">De novo atomic protein structure modeling for cryoEM density maps using 3D transformer and HMM<br>
<a href="https://urldefense.com/v3/__https://www.nature.com/articles/s41467-024-49647-6__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOSLcG_8g$" id="OWAd3744465-35dc-6a03-8889-4621d4a80f8f" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.nature.com/articles/s41467-024-49647-6</a></div>
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<div style="direction: ltr;">Training-free CryoET Tomogram Segmentation</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.arxiv.org/abs/2407.06833__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPHDPE6og$" id="OWA106f1bec-bcc3-6df3-5619-6ea2c475a99d" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.arxiv.org/abs/2407.06833</a></div>
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<div style="direction: ltr;">Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2406.10455v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPy296l_w$" id="OWA463e4617-b330-d9e6-be85-5cb59acac18b" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2406.10455v1</a></div>
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<div style="direction: ltr;">CryoJAM: Automating Protein Homolog Fitting in Medium Resolution Cryo-EM Density Maps</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.10.602952v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNHeOxWSA$" id="OWA3e905b38-7ffb-f9f9-dccc-b5ec5ecadc84" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.10.602952v1</a></div>
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<div style="direction: ltr;">Ais: streamlining segmentation of cryo-electron tomography datasets<br>
<a href="https://urldefense.com/v3/__https://elifesciences.org/reviewed-preprints/98552__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOVWEdOtQ$" id="OWAa475a855-36c0-2a58-622a-df6fdbb75de0" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://elifesciences.org/reviewed-preprints/98552</a></div>
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<div style="direction: ltr;">Cryo-electron tomography pipeline for plasma membranes</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.06.27.600657v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMfZ3jFDQ$" id="OWAee7963bc-e461-5c58-dc0b-8732962f1655" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.06.27.600657v1</a></div>
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<div style="direction: ltr;">DeepOrientation: Deep Orientation Estimation of Macromolecules in Cryo-electron tomography</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.12.603241v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNuz1tmqw$" id="OWA76ecfbdf-8d7a-a0f8-fa68-0e1aebc354ad" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.12.603241v1</a></div>
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<div style="direction: ltr;">Graphene in cryo-EM specimen optimization</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.sciencedirect.com/science/article/pii/S0959440X24000502__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgMi400CnQ$" id="OWA1aade3b3-e0e5-4980-5312-274e4816c52e" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.sciencedirect.com/science/article/pii/S0959440X24000502</a></div>
</li><li style="font-family: Aptos, Aptos_EmbeddedFont, Aptos_MSFontService, Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<div style="direction: ltr;">FakET: Simulating Cryo-Electron Tomograms with Neural Style Transfer</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2304.02011__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOfTD2NSA$" id="OWAf1784505-a3c1-aba1-2330-9cc0d49b7a13" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2304.02011</a></div>
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<div style="direction: ltr;">Vox-UDA: Voxel-wise Unsupervised Domain Adaptation for Cryo-Electron Subtomogram Segmentation with Denoised Pseudo Labeling</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://arxiv.org/abs/2406.18610__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgNMSL0TYg$" id="OWA0822deb5-bf49-8911-e7c9-1bfc59039f93" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://arxiv.org/abs/2406.18610</a></div>
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<div style="direction: ltr;">Visualizing the translation landscape in human cells at high resolution</div>
<div style="direction: ltr;"><a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2024.07.02.601723v1__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgPLwSrEgA$" id="OWAf7836d42-7e7a-4230-f697-e30c9f8ceb58" class="x_x_OWAAutoLink" data-auth="NotApplicable">https://www.biorxiv.org/content/10.1101/2024.07.02.601723v1</a></div>
</li></ul>
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<br>
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Best wishes,</div>
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-Alex Noble</div>
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SEMC/NYSBC</div>
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X: <u><a href="https://urldefense.com/v3/__https://x.com/alexjamesnoble__;!!Mih3wA!Bm6Udngnei-9XAcckKaEB3fkXRrzxph84BPrwqKf1wNNvAb3ZqksRy_WsdWUygFwtJKU18yaAgOy2O9pEQ$" id="OWA6311bd0b-5bfd-45b9-b009-139521316db2" class="x_x_OWAAutoLink" title="https://x.com/alexjamesnoble" data-auth="NotApplicable">@alexjamesnoble</a></u></div>
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