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The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications.
Sharp PM, Li WH. Sharp PM, et al. Among authors: li wh. Nucleic Acids Res. 1987 Feb 11;15(3):1281-95. doi: 10.1093/nar/15.3.1281. Nucleic Acids Res. 1987. PMID: 3547335 Free PMC article.
Codon usage in regulatory genes in Escherichia coli does not reflect selection for 'rare' codons.
Sharp PM, Li WH. Sharp PM, et al. Among authors: li wh. Nucleic Acids Res. 1986 Oct 10;14(19):7737-49. doi: 10.1093/nar/14.19.7737. Nucleic Acids Res. 1986. PMID: 3534792 Free PMC article.
CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model.
Wang L, Park HJ, Dasari S, Wang S, Kocher JP, Li W. Wang L, et al. Among authors: li w. Nucleic Acids Res. 2013 Apr 1;41(6):e74. doi: 10.1093/nar/gkt006. Epub 2013 Jan 17. Nucleic Acids Res. 2013. PMID: 23335781 Free PMC article.
Genome-wide profiling reveals stimulus-specific functions of p53 during differentiation and DNA damage of human embryonic stem cells.
Akdemir KC, Jain AK, Allton K, Aronow B, Xu X, Cooney AJ, Li W, Barton MC. Akdemir KC, et al. Among authors: li w. Nucleic Acids Res. 2014 Jan;42(1):205-23. doi: 10.1093/nar/gkt866. Epub 2013 Sep 27. Nucleic Acids Res. 2014. PMID: 24078252 Free PMC article.
A feedback loop comprising PRMT7 and miR-24-2 interplays with Oct4, Nanog, Klf4 and c-Myc to regulate stemness.
Lee SH, Chen TY, Dhar SS, Gu B, Chen K, Kim YZ, Li W, Lee MG. Lee SH, et al. Among authors: li w. Nucleic Acids Res. 2016 Dec 15;44(22):10603-10618. doi: 10.1093/nar/gkw788. Epub 2016 Sep 12. Nucleic Acids Res. 2016. PMID: 27625395 Free PMC article.
An essential role for UTX in resolution and activation of bivalent promoters.
Dhar SS, Lee SH, Chen K, Zhu G, Oh W, Allton K, Gafni O, Kim YZ, Tomoiga AS, Barton MC, Hanna JH, Wang Z, Li W, Lee MG. Dhar SS, et al. Among authors: li w. Nucleic Acids Res. 2016 May 5;44(8):3659-74. doi: 10.1093/nar/gkv1516. Epub 2016 Jan 13. Nucleic Acids Res. 2016. PMID: 26762983 Free PMC article.
The SOX9 upstream region prone to chromosomal aberrations causing campomelic dysplasia contains multiple cartilage enhancers.
Yao B, Wang Q, Liu CF, Bhattaram P, Li W, Mead TJ, Crish JF, Lefebvre V. Yao B, et al. Among authors: li w. Nucleic Acids Res. 2015 Jun 23;43(11):5394-408. doi: 10.1093/nar/gkv426. Epub 2015 May 4. Nucleic Acids Res. 2015. PMID: 25940622 Free PMC article.
Oplr16 serves as a novel chromatin factor to control stem cell fate by modulating pluripotency-specific chromosomal looping and TET2-mediated DNA demethylation.
Jia L, Wang Y, Wang C, Du Z, Zhang S, Wen X, Zhou L, Li H, Chen H, Li D, Zhang S, Li W, Xu W, Hoffman AR, Cui J, Hu JF. Jia L, et al. Among authors: li h, li d, li w. Nucleic Acids Res. 2020 Apr 17;48(7):3935-3948. doi: 10.1093/nar/gkaa097. Nucleic Acids Res. 2020. PMID: 32055844 Free PMC article.
CRISP-view: a database of functional genetic screens spanning multiple phenotypes.
Cui Y, Cheng X, Chen Q, Song B, Chiu A, Gao Y, Dawson T, Chao L, Zhang W, Li D, Zeng Z, Yu J, Li Z, Fei T, Peng S, Li W. Cui Y, et al. Among authors: li d, li z, li w. Nucleic Acids Res. 2020 Oct 3:gkaa809. doi: 10.1093/nar/gkaa809. Online ahead of print. Nucleic Acids Res. 2020. PMID: 33010154
AmoebaDB and MicrosporidiaDB: functional genomic resources for Amoebozoa and Microsporidia species.
Aurrecoechea C, Barreto A, Brestelli J, Brunk BP, Caler EV, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Iodice J, Kissinger JC, Kraemer ET, Li W, Nayak V, Pennington C, Pinney DF, Pitts B, Roos DS, Srinivasamoorthy G, Stoeckert CJ Jr, Treatman C, Wang H. Aurrecoechea C, et al. Among authors: li w. Nucleic Acids Res. 2011 Jan;39(Database issue):D612-9. doi: 10.1093/nar/gkq1006. Epub 2010 Oct 24. Nucleic Acids Res. 2011. PMID: 20974635 Free PMC article.
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