Xiaochen Du

Xiaochen Du

PhD student @ MIT

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A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.

Pages

Posts

Future Blog Post

less than 1 minute read

Published:

This post will show up by default. To disable scheduling of future posts, edit config.yml and set future: false.

Blog Post number 4

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 3

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 2

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 1

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

portfolio

publications

MatD3: A Database and Online Presentation Package for Research Data Supporting Materials Discovery, Design, and Dissemination

Published in The Journal of Open Source Software, 2020

MatD3 is an open-source, dedicated database and web application framework designed to store, curate and disseminate experimental and theoretical materials data generated by indi- vidual research groups or research consortia.

Recommended citation: Laasner, R., Du, X., Tanikanti, A., Clayton, C., Govoni, M., Galli, G., Ropo, M. & Blum, V. (2020). "MatD3: A Database and Online Presentation Package for Research Data Supporting Materials Discovery, Design, and Dissemination." Journal of Open Source Software, 5(45), 1945. https://doi.org/10.21105/joss.01945

Correlation Between Charge Transport and Base Excision Repair in the MutY DNA Glycosylase

Published in The Journal of Physical Chemistry B, 2021

We analyzed the dominant charge transfer (CT) pathways in the base excision repair glycosylase MutY using molecular dynamics simulations and hole hopping pathway analysis.

Recommended citation: Teo, R., Du, X., Vera, H., Migliore, A. & Beratan, D. (2021). "Correlation Between Charge Transport and Base Excision Repair in the MutY DNA Glycosylase." J. Phys. Chem. B, 125(1), 17. https://doi.org/10.1021/acs.jpcb.0c08598

Beam image-shift accelerated data acquisition for near-atomic resolution single-particle cryo-electron tomography

Published in Nature Communications, 2021

Tomographic reconstructions of cryopreserved specimens enable in-situ structural studies. Here, the authors present the beam image-shift electron cryo-tomography (BISECT) approach that accelerates data collection speed and improves the map resolution compared to earlier approaches and present the in vitro structure of a 300 kDa protein complex that was solved at 3.6 Å resolution as a test case.

Recommended citation: Bouvette, J.*, Liu, H.*, Du, X., Zhou, Y., Sikkema, A.P., Mello, J.F.R., Klemm, B.P., Huang, R., Schaaper, R.M., Borgnia, M.J. & Bartesaghi, A. (2021). "Beam image-shift accelerated data acquisition for near-atomic resolution single-particle cryo-electron tomography." Nat. Commun., 12(1957). https://doi.org/10.1038/s41467-021-22251-8

talks

teaching

Teaching experience 1

Undergraduate course, University 1, Department, 2014

This is a description of a teaching experience. You can use markdown like any other post.

Teaching experience 2

Workshop, University 1, Department, 2015

This is a description of a teaching experience. You can use markdown like any other post.