EMMA-CAD: Design Automation for Synthetic Mammalian Constructs

Autor: Yisha Luo, Joshua S. James, Sally Jones, Andrea Martella, Yizhi Cai

Publikováno v: ACS Synthetic Biology. 11:579-586

Computational design tools are the cornerstone of synthetic biology and have underpinned its rapid development over the past two decades. As the field has matured, the scale of biological investigation has expanded dramatically, and researchers often

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7a289c8f54b35274e6325f3c0cf59333
https://doi.org/10.1021/acssynbio.1c00433

Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast

Autor: Yue Shen, Feng Gao, Yun Wang, Yuerong Wang, Ju Zheng, Jianhui Gong, Jintao Zhang, Zhouqing Luo, Daniel Schindler, Yang Deng, Weichao Ding, Tao Lin, Reem Swidah, Hongcui Zhao, Shuangying Jiang, Cheng Zeng, Shihong Chen, Tai Chen, Yong Wang, Yisha Luo, Leslie Mitchell, Joel S. Bader, Guojie Zhang, Xia Shen, Jian Wang, Xian Fu, Junbiao Dai, Jef D. Boeke, Huanming Yang, Xun Xu, Yizhi Cai

Aneuploidy compromises genomic stability, often leading to embryo inviability, and is frequently associated with tumorigenesis and aging. Different aneuploid chromosome stoichiometries lead to distinct transcriptomic and phenotypic changes, making it

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::5000a0ef5fbf80958ea1279f65fa3860
https://doi.org/10.1101/2022.09.01.506252

Multi-criteria spatial analysis for location selection of multi-purpose utility tunnels

Autor: Amin Hammad, Tersoo K. Genger, Yisha Luo

Publikováno v: Tunnelling and Underground Space Technology. 115:104073

Multi-purpose utility tunnels (MUTs) integrate all underground utilities in one accessible tunnel. MUTs reduce the need for excavations and their associated costs, as well as the resulting traffic congestion. Several MUTs have been implemented in dif

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::a72fbac4b44698ecc228ea7d8c47454e
https://doi.org/10.1016/j.tust.2021.104073

Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome

Autor: Romain Koszul, Wei Liu, Leslie A. Mitchell, Zhouqing Luo, Hui Jiang, Jef D. Boeke, Adele L. Marston, Adrien Paul-Dubois-Taine, Zhao Hongcui, Yanqun Fan, Ze-Xiong Xie, Roy Walker, Yujia Wang, Yisha Luo, Sarah M. Richardson, Bo Wen, Conrad A. Nieduszynski, Jin Zi, Jian Wang, Tai Chen, Huanming Yang, Christopher E. French, Carolin A. Müller, Dariusz Abramczyk, Shihong Chen, Junbiao Dai, Yun Wang, Bonnie Alver, Giovanni Stracquadanio, Kun Yang, Bing-Zhi Li, Yue Shen, Jianhui Gong, Fengji Tan, Ying-Jin Yuan, Yizhi Cai, Baojin Zhou, Feng Gao, Xun Xu, Joel S. Bader

Publikováno v: Shen, Y, Wang, Y, Chen, T, Gao, F, Gong, J, Abramczyk, D, Walker, R, Zhao, H, Chen, S, Luo, W, Luo, Y, Muller, C A, Paul-Dubois-Taine, A, Alver, B, Stracquadanio, G, Mitchell, L A, Lou, Z, Fan, Y, Zhou, B, Wen, B, Tan, F, Wang, Y, Zi, J, Xie, Z, Li, B, Yang, K, Richardson, S M, Jiang, H, French, C, Nieduszynski, C A, Koszul, R, Marston, A, Yingjin, Y, Wang, J, Bader, J S, Dai, J, Boeke, J D, Xu, X, Cai, Y & Yang, H 2017, ' Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome ', Science, vol. 355, no. 6329, eaaf4791 . https://doi.org/10.1126/science.aaf4791
Science
Science, American Association for the Advancement of Science, 2017, 355 (6329), pp.eaaf4791. ⟨10.1126/science.aaf4791⟩
Science, 2017, 355 (6329), pp.eaaf4791. ⟨10.1126/science.aaf4791⟩
Shen, Y, Wang, Y, Chen, T, Gao, F, Gong, J, Abramczyk, D, Walker, R, Zhao, H, Chen, S, Luo, W, Luo, Y, Müller, C A, Paul-Dubois-Taine, A, Alver, B, Stracquadanio, G, Mitchell, L A, Lou, Z, Fan, Y, Zhou, B, Wen, B, Tan, F, Wang, Y, Zi, J, Xie, Z, Li, B, Yang, K, Richardson, S M, Jiang, H, French, C, Nieduszynski, C A, Koszul, R, Marston, A, Yingjin, Y, Wang, J, Bader, J S, Dai, J, Boeke, J D, Xu, X, Cai, Y & Yang, H 2017, ' Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome ', Science, vol. 355, no. 6329, eaaf4791 . https://doi.org/10.1126/science.aaf4791

INTRODUCTION Although much effort has been devoted to studying yeast in the past few decades, our understanding of this model organism is still limited. Rapidly developing DNA synthesis techniques have made a “build-to-understand” approach feasib

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https://ora.ox.ac.uk/objects/uuid:c82ec7eb-3254-476b-96d1-7c685ac3ea93

3D organization of synthetic and scrambled chromosomes

Autor: Romain Koszul, Ying-Jin Yuan, Joel S. Bader, Yi Wu, Guillaume Mercy, Yisha Luo, Vittore F. Scolari, Yue Shen, Agnès Thierry, Yizhi Cai, Michael Shen, Ze-Xiong Xie, Roy Walker, Guanghou Zhao, Héloïse Muller, Kun Yang, Weimin Zhang, Zhouqing Luo, Jef D. Boeke, Junbiao Dai, Julien Mozziconacci, Huanming Yang, Leslie A. Mitchell

Publikováno v: Science
Science, American Association for the Advancement of Science, 2017, 355 (6329), pp.eaaf4597. ⟨10.1126/science.aaf4597⟩
Science, 2017, 355 (6329), pp.eaaf4597. ⟨10.1126/science.aaf4597⟩

INTRODUCTION The overall organization of budding yeast chromosomes is driven and regulated by four factors: (i) the tethering and clustering of centromeres at the spindle pole body; (ii) the loose tethering of telomeres at the nuclear envelope, where

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::292ab32065b7a72ea8a01350ca5171c1
https://doi.org/10.1126/science.aaf4597