Yang L - Search Results

1

Basics of genome-scale metabolic modeling and applications on C1-utilization.

Kabimoldayev I, Nguyen AD, Yang L, Park S, Lee EY, Kim D. Kabimoldayev I, et al. Among authors: yang l. FEMS Microbiol Lett. 2018 Oct 1;365(20). doi: 10.1093/femsle/fny241. FEMS Microbiol Lett. 2018. PMID: 30256945 Review.

2

Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data.

Yang L, Tan J, O'Brien EJ, Monk JM, Kim D, Li HJ, Charusanti P, Ebrahim A, Lloyd CJ, Yurkovich JT, Du B, Dräger A, Thomas A, Sun Y, Saunders MA, Palsson BO. Yang L, et al. Proc Natl Acad Sci U S A. 2015 Aug 25;112(34):10810-5. doi: 10.1073/pnas.1501384112. Epub 2015 Aug 10. Proc Natl Acad Sci U S A. 2015. PMID: 26261351 Free PMC article.

3

Global transcriptional regulatory network for Escherichia coli robustly connects gene expression to transcription factor activities.

Fang X, Sastry A, Mih N, Kim D, Tan J, Yurkovich JT, Lloyd CJ, Gao Y, Yang L, Palsson BO. Fang X, et al. Among authors: yang l. Proc Natl Acad Sci U S A. 2017 Sep 19;114(38):10286-10291. doi: 10.1073/pnas.1702581114. Epub 2017 Sep 5. Proc Natl Acad Sci U S A. 2017. PMID: 28874552 Free PMC article.

4

Modeling the multi-scale mechanisms of macromolecular resource allocation.

Yang L, Yurkovich JT, King ZA, Palsson BO. Yang L, et al. Curr Opin Microbiol. 2018 Oct;45:8-15. doi: 10.1016/j.mib.2018.01.002. Epub 2018 Jan 24. Curr Opin Microbiol. 2018. PMID: 29367175 Free PMC article. Review.

5

COBRAme: A computational framework for genome-scale models of metabolism and gene expression.

Lloyd CJ, Ebrahim A, Yang L, King ZA, Catoiu E, O'Brien EJ, Liu JK, Palsson BO. Lloyd CJ, et al. Among authors: yang l. PLoS Comput Biol. 2018 Jul 5;14(7):e1006302. doi: 10.1371/journal.pcbi.1006302. eCollection 2018 Jul. PLoS Comput Biol. 2018. PMID: 29975681 Free PMC article.

6

Systematic discovery of uncharacterized transcription factors in Escherichia coli K-12 MG1655.

Gao Y, Yurkovich JT, Seo SW, Kabimoldayev I, Dräger A, Chen K, Sastry AV, Fang X, Mih N, Yang L, Eichner J, Cho BK, Kim D, Palsson BO. Gao Y, et al. Among authors: yang l. Nucleic Acids Res. 2018 Nov 16;46(20):10682-10696. doi: 10.1093/nar/gky752. Nucleic Acids Res. 2018. PMID: 30137486 Free PMC article.

7

BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data.

Lachance JC, Lloyd CJ, Monk JM, Yang L, Sastry AV, Seif Y, Palsson BO, Rodrigue S, Feist AM, King ZA, Jacques PÉ. Lachance JC, et al. Among authors: yang l. PLoS Comput Biol. 2019 Apr 22;15(4):e1006971. doi: 10.1371/journal.pcbi.1006971. eCollection 2019 Apr. PLoS Comput Biol. 2019. PMID: 31009451 Free PMC article.

8

Cellular responses to reactive oxygen species are predicted from molecular mechanisms.

Yang L, Mih N, Anand A, Park JH, Tan J, Yurkovich JT, Monk JM, Lloyd CJ, Sandberg TE, Seo SW, Kim D, Sastry AV, Phaneuf P, Gao Y, Broddrick JT, Chen K, Heckmann D, Szubin R, Hefner Y, Feist AM, Palsson BO. Yang L, et al. Proc Natl Acad Sci U S A. 2019 Jul 9;116(28):14368-14373. doi: 10.1073/pnas.1905039116. Epub 2019 Jul 3. Proc Natl Acad Sci U S A. 2019. PMID: 31270234 Free PMC article.

9

The Escherichia coli transcriptome mostly consists of independently regulated modules.

Sastry AV, Gao Y, Szubin R, Hefner Y, Xu S, Kim D, Choudhary KS, Yang L, King ZA, Palsson BO. Sastry AV, et al. Among authors: yang l. Nat Commun. 2019 Dec 4;10(1):5536. doi: 10.1038/s41467-019-13483-w. Nat Commun. 2019. PMID: 31797920 Free PMC article.

10

Metabolic and genetic basis for auxotrophies in Gram-negative species.

Seif Y, Choudhary KS, Hefner Y, Anand A, Yang L, Palsson BO. Seif Y, et al. Among authors: yang l. Proc Natl Acad Sci U S A. 2020 Mar 17;117(11):6264-6273. doi: 10.1073/pnas.1910499117. Epub 2020 Mar 4. Proc Natl Acad Sci U S A. 2020. PMID: 32132208 Free PMC article.

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