(#Co-first author; *Co-corresponding author)
Shi L#, Li S#, Zhu R#, Lu C#, Xu X, Li C, Huang X, Zhao X*, Mao F*, Li K*. CRISPRepi: a multi-omic atlas for CRISPR-based epigenome editing. Nucleic Acids Research, 2024;, gkae1039, https://doi.org/10.1093/nar/gkae1039
Yang Y#, Wen D#, Lin F#, Song X, Pang R, Sun W, Yu D, Zhang Z, Yu T, Kong J, Zhang L, Cao X, Liao W, Wang D, Yang Q, Liang J, Zhang N, Li K*, Xiong C*, Liu Y*. Suppression of non-muscle myosin II boosts T cell cytotoxicity against tumor. Sci Adv. 2024 Nov;10(44):eadp0631.
Li K*, Wei G*, Yin Y*, Feng J*. Targeting Noncoding Cis-regulatory Elements for Cancer Therapy in Context of 3D Genome. Cancer Discov. 2024 Nov 1;14(11):2061-2065.
Zhang T#, Qiu L#, Cao J#, Li Q#, Zhang L#, An G, Ni J, Jia H, Li S*, Li K*. ZFP36 loss-mediated BARX1 stabilization promotes malignant phenotypes by transactivating master oncogenes in NSCLC. Cell Death Dis. 2023 Aug 16;14(8):527.
Cao F#, Jiang Y#, Chang L, Du H, Chang D, Pan C, Huang X, Yu D, Zhang M, Fan Y, Bian X*, Li K*. High-throughput functional screen identifies YWHAZ as a key regulator of pancreatic cancer metastasis. Cell Death Dis. 2023 Jul 14;14(7):431.
Chang D, Du H, Chen X, Bian X, Tian W, Shen J, Wei Y, Jiang Y, Dela Cruz C, Xie L*, Sharma L*, Li K*. A controlled random gene perturbation method identifies ARPC1B gene as a key regulator of cancer metastasis. Genes Dis. 2022 Jul 7;10(3):687-689.
Yao Y#, Ye F#, Li K#, Xu P, Tan W, Feng Q*, Rao S#*. Genome and epigenome editing identify CCR9 and SLC6A20 as target genes at the 3p21.31 locus associated with severe COVID-19. Signal Transduct Target Ther. 2021 Feb 22;6(1):85.
Li K#, Zhang Y#, Liu X#, Liu Y#, Gu Z, Cao H, Dickerson KE, Chen M, Chen W, Shao Z, Ni M, Xu J*. Noncoding Variants Connect Enhancer Dysregulation with Nuclear Receptor Signaling in Hematopoietic Malignancies. Cancer Discov. 2020 May;10(5):724-745.
Li K#, Liu Y#, Cao H, Zhang Y, Gu Z, Liu X, Yu A, Kaphle P, Dickerson KE, Ni M, Xu J*. Interrogation of enhancer function by enhancer-targeting CRISPR epigenetic editing. Nat Commun. 2020 Jan 24;11(1):485. doi: 10.1038/s41467-020-14362-5.
Huang J#, Li K#, Cai W, Liu X, Zhang Y, Orkin SH, Xu J*, Yuan GC*. Dissecting super-enhancer hierarchy based on chromatin interactions. Nat Commun. 2018 Mar 5;9(1):943.
Others
Wang B, Hu Z, Cui L, Zhao M, Su Z, Jiang Y, Liu J, Zhao Y, Hou Y, Yang X, Zhang C, Guo B, Li D, Zhao L, Zheng S, Zhao Y, Yang W, Wang D, Yu S, Zhu S, Yan Y, Yuan G, Li K, Zhang W, Qin L, Zhang W, Sun F, Luo J, Zheng R. βAR-mTOR-lipin1 pathway mediates PKA-RIIβ deficiency-induced adipose browning. Theranostics. 2024 Aug 26;14(13):5316-5335. doi: 10.7150/thno.97046.
Guo CT, Jardin BD, Lin JS, Ambroise RL, Wang Z, Yang LZ, Mazumdar N, Lu FJ, Ma Q, Cao YP, Liu CZ, Li KL, Liu XJ, Lan F, Zhao MM, Xiao H, Dong ED, Pu WT, Guo YX. In vivo proximity proteomics uncovers palmdelphin (PALMD) as a Z-disc-associated mitigator of isoproterenol-induced cardiac injury. Acta Pharmacol Sin. 2024 Jul 23. doi: 10.1038/s41401-024-01348-y.
Lee HM, Muhammad N, Lieu EL, Cai F, Mu J, Ha YS, Cao G, Suchors C, Joves K, Chronis C, Li K, Ducker GS, Olszewski K, Cai L, Allison DB, Bachert SE, Ewing WR, Wong H, Seo H, Kim IY, Faubert B, Kim J, Kim J*. Concurrent loss of LKB1 and KEAP1 enhances SHMT-mediated antioxidant defence in KRAS-mutant lung cancer. Nat Metab. 2024 Jun 14. doi: 10.1038/s42255-024-01066-z.
Pang R#, Sun W#, Yang Y#, Wen D#, Lin F#, Wang D, Li K, Zhang N, Liang J*, Xiong C*, Liu Y*. PIEZO1 mechanically regulates the antitumour cytotoxicity of T lymphocytes. Nat Biomed Eng. 2024 Mar 21. doi: 10.1038/s41551-024-01188-5.
Wang K*, Liu X, Lian XL, Bao X, Li K. Editorial: Bioengineered gene and cell therapy for treating cardiovascular diseases. Front Bioeng Biotechnol. 2023 Aug 1;11:1250175.
Chang D, Lin M, Song N, Zhu Z, Gao J, Li S, Liu H, Liu D, Zhang Y, Sun W, Zhou X, Yang B, Li Y, Wang L, Xiao Z, Li K, Xing L, Xie L, Sharma L. The emergence of influenza B as a major respiratory pathogen in the absence of COVID-19 during the 2021-2022 flu season in China. Virol J. 2023 Aug 24;20(1):189. doi: 10.1186/s12985-023-02115-x.
Wu N, Wei L, Zhu Z, Liu Q, Li K, Mao F, Qiao J*, Zhao X*. Innovative insights into extrachromosomal circular DNAs in gynecologic tumors and reproduction. Protein Cell. 2023 May 26:pwad032. doi: 10.1093/procel/pwad032.
Fan J#, Shi L#, Liu Q#, Zhu Z, Wang F, Song R, Su J, Zhou D, Chen X, Li K, Xue L*, Sun L*, Mao F*. Annotation and evaluation of base editing outcomes in multiple cell types using CRISPRbase. Nucleic Acids Res. 2023 Jan 6;51(D1):D1249-D1256.
Huang F, Huffman KE, Wang Z, Wang X, Li K, Cai F, Yang C, Cai L, Shih TS, Zacharias LG, Chung A, Yang Q, Chalishazar MD, Ireland AS, Stewart CA, Cargill K, Girard L, Liu Y, Ni M, Xu J, Wu X, Zhu H, Drapkin B, Byers LA, Oliver TG, Gazdar AF, Minna JD, DeBerardinis RJ*. Guanosine triphosphate links MYC-dependent metabolic and ribosome programs in small-cell lung cancer. J Clin Invest. 2021 Jan 4;131(1).
Yao Y, Yang J, Qin Q, Tang C, Li Z, Chen L, Li K, Ren C, Chen L*, Rao S*. Functional annotation of genetic associations by transcriptome-wide association analysis provides insights into neutrophil development regulation. Commun Biol. 2020 Dec 18;3(1):790.
Kim J*, Lee HM, Cai F, Ko B, Yang C, Lieu EL, Muhammad N, Rhyne S, Li K, Haloul M, Gu W, Faubert B, Kaushik AK, Cai L, Kasiri S, Marriam U, Nham K, Girard L, Wang H, Sun X, Kim J, Minna JD, Unsal-Kacmaz K, DeBerardinis RJ*. The hexosamine biosynthesis pathway is a targetable liability in KRAS/LKB1 mutant lung cancer. Nat Metab. 2020 Dec;2(12):1401-1412.
Gu Z#, Liu Y#, Cai F, Patrick M, Zmajkovic J, Cao H, Zhang Y, Tasdogan A, Chen M, Qi L, Liu X, Li K, Lyu J, Dickerson KE, Chen W, Ni M, Merritt ME, Morrison SJ, Skoda RC, DeBerardinis RJ, Xu J*. Loss of EZH2 Reprograms BCAA Metabolism to Drive Leukemic Transformation. Cancer Discov. 2019 Sep;9(9):1228-1247.
Huang F, Ni M, Chalishazar MD, Huffman KE, Kim J, Cai L, Shi X, Cai F, Zacharias LG, Ireland AS, Li K, Gu W, Kaushik AK, Liu X, Gazdar AF, Oliver TG, Minna JD, Hu Z*, DeBerardinis RJ*. Inosine Monophosphate Dehydrogenase Dependence in a Subset of Small Cell Lung Cancers. Cell Metab. 2018 Sep 4;28(3):369-382.e5.
Liu X#, Zhang Y#, Chen Y#, Li M#, Zhou F#*, Li K, Cao H, Ni M, Liu Y, Gu Z, Dickerson KE, Xie S, Hon GC, Xuan Z, Zhang MQ, Shao Z, Xu J*. In Situ Capture of Chromatin Interactions by Biotinylated dCas9. Cell. 2017 Aug 24;170(5):1028-1043.e19.
Kim J, Hu Z, Cai L, Li K, Choi E, Faubert B, Bezwada D, Rodriguez-Canales J, Villalobos P, Lin YF, Ni M, Huffman KE, Girard L, Byers LA, Unsal-Kacmaz K, Peña CG, Heymach JV, Wauters E, Vansteenkiste J, Castrillon DH, Chen BPC, Wistuba I, Lambrechts D, Xu J, Minna JD, DeBerardinis RJ*. CPS1 maintains pyrimidine pools and DNA synthesis in KRAS/LKB1-mutant lung cancer cells. Nature. 2017 Jun 1;546(7656):168-172.