Wenkai Wang (王文恺)

Wenkai Wang (王文恺)

a PhD student working on structural bioinformatics

Sitemap

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

Improved protein structure prediction using a new multi‐scale network and homologous templates

Published in Advanced Science, 2021

In this work, trRosettaX, an improved version of trRosetta for protein structure prediction is presented. A preliminary version of trRosettaX is ranked as one of the top server groups in CASP14 blind test. Additional benchmark test on 161 targets from CAMEO shows that trRosettaX outperforms the top groups in CAMEO.

Reference: Hong Su#, Wenkai Wang#, Zongyang Du, Zhenling Peng, Shang-Hua Gao, Ming-Ming Cheng, Jianyi Yang*. (2021). "Improved protein structure prediction using a new multi‐scale network and homologous templates." Advanced Science. 2021, 8, 2102592. https://doi.org/10.1002/advs.202102592

Single-sequence protein structure prediction using supervised transformer protein language models

Published in Nature Computational Science, 2022

In this article, we introduce trRosettaX-Single, a deep learning-based single-sequence protein structure prediction method with a supervised transformer protein language model. Benchmark tests show that our method outperforms AlphaFold2 and RoseTTAFold on orphan proteins. As a demonstration, trRosettaX-Single is applied to protein design/hallucination and missense mutation analysis.

Reference: Wenkai Wang, Zhenling Peng, Jianyi Yang*, Single-sequence protein structure prediction using supervised transformer protein language models. Nature Computational Science, 2: 804-814 (2022). https://www.nature.com/articles/s43588-022-00373-3

trRosettaRNA: automated prediction of RNA 3D structure with transformer network

Published in Nature Communications, 2023

In this work, we developed trRosettaRNA, a deep learning-based RNA structure prediction method. The blind tests of the CASP15 and the RNA-Puzzles experiments show that the automated trRosettaRNA is promising to advance RNA structure prediction.

Reference: Wenkai Wang#, Chenjie Feng#, Renmin Han#, Ziyi Wang, Lisha Ye, Zongyang Du, Hong Wei, Fa Zhang, Zhenling Peng, Jianyi Yang. "trRosettaRNA: automated prediction of RNA 3D structure with transformer network." Nature Communications. 14: 7266 (2023). https://www.nature.com/articles/s41467-023-42528-4

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

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