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Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma.

Clark DJ, Dhanasekaran SM, Petralia F, Pan J, Song X, Hu Y, da Veiga Leprevost F, Reva B, Lih TM, Chang HY, Ma W, Huang C, Ricketts CJ, Chen L, Krek A, Li Y, Rykunov D, Li QK, Chen LS, Ozbek U, Vasaikar S, Wu Y, Yoo S, Chowdhury S, Wyczalkowski MA, Ji J, Schnaubelt M, Kong A, Sethuraman S, Avtonomov DM, Ao M, Colaprico A, Cao S, Cho KC, Kalayci S, Ma S, Liu W, Ruggles K, Calinawan A, Gümüş ZH, Geizler D, Kawaler E, Teo GC, Wen B, Zhang Y, Keegan S, Li K, Chen F, Edwards N, Pierorazio PM, Chen XS, Pavlovich CP, Hakimi AA, Brominski G, Hsieh JJ, Antczak A, Omelchenko T, Lubinski J, Wiznerowicz M, Linehan WM, Kinsinger CR, Thiagarajan M, Boja ES, Mesri M, Hiltke T, Robles AI, Rodriguez H, Qian J, Fenyö D, Zhang B, Ding L, Schadt E, Chinnaiyan AM, Zhang Z, Omenn GS, Cieslik M, Chan DW, Nesvizhskii AI, Wang P, Zhang H; Clinical Proteomic Tumor Analysis Consortium.

Cell. 2019 Oct 31;179(4):964-983.e31. doi: 10.1016/j.cell.2019.10.007.


Transthoracic fine-needle aspiration diagnosis of solid, subsolid, and partially calcified lung nodules: A retrospective study from a single academic center.

Zhou Y, Gong G, Wang H, Habibabady ZA, Lang P, Hales R, Askin F, Gabrielson E, Li QK.

Cytojournal. 2019 Aug 22;16:16. doi: 10.4103/cytojournal.cytojournal_43_18. eCollection 2019.


Analysis of the antimicrobial activity of Lactobacillus plantarum YM-4-3: implications of suitable conditions for extending the shelf life of fermented soybean products.

Liu CJ, Luo MY, Li QK, Deng G, Li XR, Yang E, Luo YY.

Food Funct. 2019 Sep 1;10(9):5282-5289. doi: 10.1039/c9fo00672a. Epub 2019 Aug 29.


Pathologic Complete Response After Chemoradiation of a Massive Primary Urethral Carcinoma.

Singh T, Li QK, Song DY.

Adv Radiat Oncol. 2019 Mar 14;4(3):487-491. doi: 10.1016/j.adro.2019.02.005. eCollection 2019 Jul-Sep. No abstract available.


Structural characteristics in deformation mechanism transformation in nanoscale metallic glasses.

Zhang Q, Li QK, Zhao SF, Wang WH, Li M.

J Phys Condens Matter. 2019 Nov 13;31(45):455401. doi: 10.1088/1361-648X/ab3529. Epub 2019 Jul 25.


Dissecting cell diversity and connectivity in skeletal muscle for myogenesis.

Liu YX, Wu BB, Gong L, An CR, Lin JX, Li QK, Jiang DM, Jin KX, Mechakra A, Bunpetch V, Li Y, Zou YW, Ouyang HW, Zou XH.

Cell Death Dis. 2019 Jun 3;10(6):427. doi: 10.1038/s41419-019-1647-5.


Expression of p16 and p53 in non-small-cell lung cancer: clinicopathological correlation and potential prognostic impact.

Zhou Y, Höti N, Ao M, Zhang Z, Zhu H, Li L, Askin F, Gabrielson E, Zhang H, Li QK.

Biomark Med. 2019 Jun;13(9):761-771. doi: 10.2217/bmm-2018-0441. Epub 2019 Jun 3.


Transcriptomic analysis of de novo folate biosynthetic genes in Lactobacillus plantarum strain 4_3 in fermented soybean.

Liu CJ, Wu B, Zhang SY, Li QK, Zeng XQ, Yang E, Luo YY, Li XR.

Food Funct. 2019 May 22;10(5):2426-2438. doi: 10.1039/c8fo01952e.


Dynamics of Tumor and Immune Responses during Immune Checkpoint Blockade in Non-Small Cell Lung Cancer.

Anagnostou V, Forde PM, White JR, Niknafs N, Hruban C, Naidoo J, Marrone K, Sivakumar IKA, Bruhm DC, Rosner S, Phallen J, Leal A, Adleff V, Smith KN, Cottrell TR, Rhymee L, Palsgrove DN, Hann CL, Levy B, Feliciano J, Georgiades C, Verde F, Illei P, Li QK, Gabrielson E, Brock MV, Isbell JM, Sauter JL, Taube J, Scharpf RB, Karchin R, Pardoll DM, Chaft JE, Hellmann MD, Brahmer JR, Velculescu VE.

Cancer Res. 2019 Mar 15;79(6):1214-1225. doi: 10.1158/0008-5472.CAN-18-1127. Epub 2018 Dec 12.


Mapping the O-glycoproteome using site-specific extraction of O-linked glycopeptides (EXoO).

Yang W, Ao M, Hu Y, Li QK, Zhang H.

Mol Syst Biol. 2018 Nov 20;14(11):e8486. doi: 10.15252/msb.20188486.


Cooperative Spin Transition of Monodispersed FeN3 Sites within Graphene Induced by CO Adsorption.

Li QK, Li XF, Zhang G, Jiang J.

J Am Chem Soc. 2018 Nov 14;140(45):15149-15152. doi: 10.1021/jacs.8b07816. Epub 2018 Nov 5.


Detection of RAS and RAS-associated alterations in primary lung adenocarcinomas. A correlation between molecular findings and tumor characteristics.

Shaukat I, Kern JJ, Höti N, Zhang H, Li J, Zheng G, Askin F, Gabrielson E, Li QK.

Hum Pathol. 2019 Feb;84:18-25. doi: 10.1016/j.humpath.2018.09.004. Epub 2018 Sep 25.


High serum Ephrin-B2 levels predict poor prognosis for patients with gastric cancer.

Yue WJ, Liu YP, Li M, Liu CX, Mou SJ, Li QK, Chen ZP.

Oncol Lett. 2018 Oct;16(4):4455-4461. doi: 10.3892/ol.2018.9202. Epub 2018 Jul 24.


Challenges and opportunities in the proteomic characterization of clear cell renal cell carcinoma (ccRCC): A critical step towards the personalized care of renal cancers.

Li QK, Pavlovich CP, Zhang H, Kinsinger CR, Chan DW.

Semin Cancer Biol. 2019 Apr;55:8-15. doi: 10.1016/j.semcancer.2018.06.004. Epub 2018 Jul 25. Review.


[Seasonal Variations in Particle Size Distribution and Water-soluble Ion Composition of Atmospheric Particles in Chengdu].

Tao YL, Li QK, Zhang J, Li SQ, Li XD.

Huan Jing Ke Xue. 2017 Oct 8;38(10):4034-4043. doi: 10.13227/j.hjkx.201702175. Chinese.


De novo lipogenesis represents a therapeutic target in mutant Kras non-small cell lung cancer.

Singh A, Ruiz C, Bhalla K, Haley JA, Li QK, Acquaah-Mensah G, Montal E, Sudini KR, Skoulidis F, Wistuba II, Papadimitrakopoulou V, Heymach JV, Boros LG, Gabrielson E, Carretero J, Wong KK, Haley JD, Biswal S, Girnun GD.

FASEB J. 2018 Jun 15:fj201800204. doi: 10.1096/fj.201800204. [Epub ahead of print]


Single-pulse writing of a concave microlens array.

Cao XW, Chen QD, Zhang L, Tian ZN, Li QK, Wang L, Juodkazis S, Sun HB.

Opt Lett. 2018 Feb 15;43(4):831-834. doi: 10.1364/OL.43.000831.


Intranuclear Inclusions in Conventional Clear Cell Renal Cell Carcinoma (ccRCC): Diagnosis and Differential Diagnosis.

McClain A, Sakowski L, Conti M, Zhang H, Li QK.

Arch Urol Res. 2018;2(1):5-7. doi: 10.17352/aur.000003. Epub 2018 Oct 24.


Primary parotid adenocarcinoma metastasis to the spleen with PIK3CA mutation: cytological findings and review of the literature.

Inouye CM, Anagnostou V, Li QK.

Int J Clin Exp Pathol. 2017;10(5):5999-6005. Epub 2017 May 15. Review.


Current WHO guidelines and the critical role of immunohistochemical markers in the subclassification of non-small cell lung carcinoma (NSCLC): Moving from targeted therapy to immunotherapy.

Osmani L, Askin F, Gabrielson E, Li QK.

Semin Cancer Biol. 2018 Oct;52(Pt 1):103-109. doi: 10.1016/j.semcancer.2017.11.019. Epub 2017 Nov 26. Review.


Nano-ablation of silica by plasmonic surface wave at low fluence.

Wang L, Cao XW, Abid MI, Li QK, Tian WJ, Chen QD, Juodkazis S, Sun HB.

Opt Lett. 2017 Nov 1;42(21):4446-4449. doi: 10.1364/OL.42.004446.


Multilevel phase-type diffractive lens embedded in sapphire.

Li QK, Lu YM, Hua JG, Yu YH, Wang L, Chen QD, Juodkazis S, Sun HB.

Opt Lett. 2017 Oct 1;42(19):3832-3835. doi: 10.1364/OL.42.003832.


Current insight in the localized insulin-derived amyloidosis (LIDA): clinico-pathological characteristics and differential diagnosis.

Ansari AM, Osmani L, Matsangos AE, Li QK.

Pathol Res Pract. 2017 Oct;213(10):1237-1241. doi: 10.1016/j.prp.2017.08.013. Epub 2017 Sep 1. Review.


Bronchoscopy with endobronchial ultrasound guided transbronchial needle aspiration vs. transthoracic needle aspiration in lung cancer diagnosis and staging.

Munoz ML, Lechtzin N, Li QK, Wang K, Yarmus LB, Lee HJ, Feller-Kopman DJ.

J Thorac Dis. 2017 Jul;9(7):2178-2185. doi: 10.21037/jtd.2017.07.26.


Protein signatures of molecular pathways in non-small cell lung carcinoma (NSCLC): comparison of glycoproteomics and global proteomics.

Yang S, Chen L, Chan DW, Li QK, Zhang H.

Clin Proteomics. 2017 Aug 15;14:31. doi: 10.1186/s12014-017-9166-9. eCollection 2017.


Direct detection of early-stage cancers using circulating tumor DNA.

Phallen J, Sausen M, Adleff V, Leal A, Hruban C, White J, Anagnostou V, Fiksel J, Cristiano S, Papp E, Speir S, Reinert T, Orntoft MW, Woodward BD, Murphy D, Parpart-Li S, Riley D, Nesselbush M, Sengamalay N, Georgiadis A, Li QK, Madsen MR, Mortensen FV, Huiskens J, Punt C, van Grieken N, Fijneman R, Meijer G, Husain H, Scharpf RB, Diaz LA Jr, Jones S, Angiuoli S, Ørntoft T, Nielsen HJ, Andersen CL, Velculescu VE.

Sci Transl Med. 2017 Aug 16;9(403). pii: eaan2415. doi: 10.1126/scitranslmed.aan2415.


[Research advances in epithelial - mesenchymal transition in hepatocellular carcinoma].

Yu JX, Liu T, Li QK, Xu MY, Lu LG.

Zhonghua Gan Zang Bing Za Zhi. 2017 May 20;25(5):389-392. doi: 10.3760/cma.j.issn.1007-3418.2017.05.017. Review. Chinese.


INSM1 Demonstrates Superior Performance to the Individual and Combined Use of Synaptophysin, Chromogranin and CD56 for Diagnosing Neuroendocrine Tumors of the Thoracic Cavity.

Rooper LM, Sharma R, Li QK, Illei PB, Westra WH.

Am J Surg Pathol. 2017 Nov;41(11):1561-1569. doi: 10.1097/PAS.0000000000000916.


Biomarkers in the accurate subclassification of non-small-cell lung carcinoma for targeted therapy: issues and prospects.

Osmani L, Li QK.

Biomark Med. 2017 May;11(5):405-407. doi: 10.2217/bmm-2017-0059. No abstract available.


The critical role of EBUS-TBNA cytology in the staging of mediastinal lymph nodes in lung cancer patients: A correlation study with positron emission tomography findings.

Lilo MT, Allison DB, Younes BK, Cui M, Askin FB, Gabrielson E, Li QK.

Cancer Cytopathol. 2017 Sep;125(9):717-725. doi: 10.1002/cncy.21886. Epub 2017 Jun 13.


An integrated proteomic and glycoproteomic approach uncovers differences in glycosylation occupancy from benign and malignant epithelial ovarian tumors.

Li QK, Shah P, Tian Y, Hu Y, Roden RBS, Zhang H, Chan DW.

Clin Proteomics. 2017 May 10;14:16. doi: 10.1186/s12014-017-9152-2. eCollection 2017.


Fabrication of an anti-reflective microstructure on sapphire by femtosecond laser direct writing.

Li QK, Cao JJ, Yu YH, Wang L, Sun YL, Chen QD, Sun HB.

Opt Lett. 2017 Feb 1;42(3):543-546. doi: 10.1364/OL.42.000543.


Key factors affecting mechanical behavior of metallic glass nanowires.

Zhang Q, Li QK, Li M.

Sci Rep. 2017 Jan 30;7:41365. doi: 10.1038/srep41365.


Strong current polarization and perfect negative differential resistance in few-FeN4-embedded zigzag graphene nanoribbons.

Li XF, Liu L, Yan Q, Li QK, Wang Y, Deng M, Qiu Q.

Phys Chem Chem Phys. 2017 Jan 25;19(4):2674-2678. doi: 10.1039/c6cp08357a.


Heterogeneous expression of PD-L1 in pulmonary squamous cell carcinoma and adenocarcinoma: implications for assessment by small biopsy.

Gniadek TJ, Li QK, Tully E, Chatterjee S, Nimmagadda S, Gabrielson E.

Mod Pathol. 2017 Apr;30(4):530-538. doi: 10.1038/modpathol.2016.213. Epub 2017 Jan 6.


Evolution of Neoantigen Landscape during Immune Checkpoint Blockade in Non-Small Cell Lung Cancer.

Anagnostou V, Smith KN, Forde PM, Niknafs N, Bhattacharya R, White J, Zhang T, Adleff V, Phallen J, Wali N, Hruban C, Guthrie VB, Rodgers K, Naidoo J, Kang H, Sharfman W, Georgiades C, Verde F, Illei P, Li QK, Gabrielson E, Brock MV, Zahnow CA, Baylin SB, Scharpf RB, Brahmer JR, Karchin R, Pardoll DM, Velculescu VE.

Cancer Discov. 2017 Mar;7(3):264-276. doi: 10.1158/2159-8290.CD-16-0828. Epub 2016 Dec 28.


Uniform and perfectly linear current-voltage characteristics of nitrogen-doped armchair graphene nanoribbons for nanowires.

Liu L, Li XF, Yan Q, Li QK, Zhang XH, Deng M, Qiu Q, Luo Y.

Phys Chem Chem Phys. 2016 Dec 21;19(1):44-48. doi: 10.1039/c6cp06640b.


Expression of P40 and P63 in lung cancers using fine needle aspiration cases. Understanding clinical pitfalls and limitations.

Lilo MT, Allison D, Wang Y, Ao M, Gabrielson E, Geddes S, Zhang H, Askin F, Li QK.

J Am Soc Cytopathol. 2016 May-Jun;5(3):123-132.


[Distribution Characteristics of Solute Nitrogen in the Water-Sediment of Farmland Drainage Ditch].

Li QK, Hu YW, Song CJ, Peng C.

Huan Jing Ke Xue. 2016 Aug 8;37(8):2973-2978. doi: 10.13277/j.hjkx.2016.08.019. Chinese.


Conversion of Dinitrogen to Ammonia by FeN3-Embedded Graphene.

Li XF, Li QK, Cheng J, Liu L, Yan Q, Wu Y, Zhang XH, Wang ZY, Qiu Q, Luo Y.

J Am Chem Soc. 2016 Jul 20;138(28):8706-9. doi: 10.1021/jacs.6b04778. Epub 2016 Jul 11.


[Transformation of Non-point Source Soluble Nitrogen in Simulated Drainage Ditch].

Li QK, Song CJ, Hu YW, Peng C, Ma Q, Jiang ZX, Ju YR.

Huan Jing Ke Xue. 2016 Feb 15;37(2):520-6. Chinese.


[Effects of two phenolic acids on root zone soil nutrients, soil enzyme activities and pod yield of peanut].

Li QK, Liu P, Tang ZH, Zhao HJ, Wang JT, Song XZ, Yang L, Wan SB.

Ying Yong Sheng Tai Xue Bao. 2016 Apr 22;27(4):1189-1195. doi: 10.13287/j.1001-9332.201604.039. Chinese.


Utility of a novel triple marker (combination of thyroid transcription factor 1, Napsin A, and P40) in the subclassification of non-small cell lung carcinomas using fine-needle aspiration cases.

Sharma R, Wang Y, Chen L, Gurda GT, Geddes S, Gabrielson E, Askin F, Li QK.

Hum Pathol. 2016 Aug;54:8-16. doi: 10.1016/j.humpath.2016.02.027. Epub 2016 Apr 1.


Detection of PIK3CA mutations, including a novel mutation of V344G in exon 4, in metastatic lung adenocarcinomas: A retrospective study of 115 FNA cases.

Allison DB, Lilo MT, Geddes S, Pallavajjalla A, Askin F, Gabrielson E, Zheng G, Li QK.

Cancer Cytopathol. 2016 Jul;124(7):485-92. doi: 10.1002/cncy.21714. Epub 2016 Mar 23.


[Simulation and validation of diffuse radiation in Qianyanzhou area, Jiangxi, China].

Han Jia-yin, Li SG, Zhang LM, Wen XF, Li QK, Wang HM.

Ying Yong Sheng Tai Xue Bao. 2015 Oct;26(10):2991-9. Chinese.


Critical Role of Pathologists in the Accurate Subclassification of Non-Small Cell Lung Carcinoma (NSCLC) for Targeted Therapies: Evidence- Based Practice and the Role of IHC Markers.

Li QK.

Diagn Pathol Open Access. 2016;1(3). pii: e105. doi: 10.4172/2476-2024.1000e105. Epub 2016 Dec 31. No abstract available.


Control of PD-L1 Expression by Oncogenic Activation of the AKT-mTOR Pathway in Non-Small Cell Lung Cancer.

Lastwika KJ, Wilson W 3rd, Li QK, Norris J, Xu H, Ghazarian SR, Kitagawa H, Kawabata S, Taube JM, Yao S, Liu LN, Gills JJ, Dennis PA.

Cancer Res. 2016 Jan 15;76(2):227-38. doi: 10.1158/0008-5472.CAN-14-3362. Epub 2015 Dec 4.


CDX-2 Expression in Primary Lung Adenocarcinoma.

Cowan ML, Li QK, Illei PB.

Appl Immunohistochem Mol Morphol. 2016 Jan;24(1):16-9. doi: 10.1097/PAI.0000000000000250.


The genomic landscape of response to EGFR blockade in colorectal cancer.

Bertotti A, Papp E, Jones S, Adleff V, Anagnostou V, Lupo B, Sausen M, Phallen J, Hruban CA, Tokheim C, Niknafs N, Nesselbush M, Lytle K, Sassi F, Cottino F, Migliardi G, Zanella ER, Ribero D, Russolillo N, Mellano A, Muratore A, Paraluppi G, Salizzoni M, Marsoni S, Kragh M, Lantto J, Cassingena A, Li QK, Karchin R, Scharpf R, Sartore-Bianchi A, Siena S, Diaz LA Jr, Trusolino L, Velculescu VE.

Nature. 2015 Oct 8;526(7572):263-7. doi: 10.1038/nature14969. Epub 2015 Sep 30.

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