Year 2020

(as a corresponding PI*)

219. Strategic Design of Catalytic Lysine-Targeting Reversible Covalent BCR-ABL Inhibitors


David Quach, Jothi Anantharajan, Nithya Baburajendran, Anders Poulsen, John L. K. Wee, Priya Retna, Rong Li, Boping Liu, Doris H. Y. Tee, Perlyn Z. Kwek, Guanghui Tang, Joma K. Joy, Klement Foo,*, Shao Q. Yao,*, Thomas H. Keller*

218. Fluorescent probes for visualizing ROS-associated proteins

(2020), submitted.

Hui Wang, Xin Wang, Ping Li,* Mingyan Dong, Shao Q. Yao,* Bo Tang,*

217. Native Antibody and siRNA Co-delivery for Combination Therapy by Using Biodegradable Silica Nanocapsules


Peiyan Yuan, Si Si Liew, Xin Mao, Shao Q. Yao*

216. Late-stage C(sp2)-H Functionalization: A Powerful Toolkit to Arm Natural Products for In Situ Proteome Profiling?

(2020), submitted.

Ying-Jie Lim, Yulong Kuang, Jie Wu* and Shao Q. Yao*

215. Nuclear-Targeted Delivery of Native Proteins Using Biodegradable Silica Nanocapsules

(2020), submitted.

Wei Du, Shubo Du,* Xiao Dong, Qicai Xiao, Chaonan Yuan, Liqian Gao, Jingyan Ge, Lin Li,* Wei Huang,* and Shao Q. Yao*,

214. Intracellular Delivery of Therapeutic Proteins through N-Terminal Site-Specific Modification 

(2020), submitted.

Si Si Liew, Chengwu Zhang, Jie Zhang, Hongyan Sun, Lin Li* and Shao Q. Yao*

213. Mix-and-Go Cytosolic Delivery of Native Antibodies by Cell-Penetrating Poly(disulfide)s

J. Am. Chem. Soc., (2020), submitted.

Shubo Du, Si Si Liew, Chengwu zhang, Wei Du, Wenjie Lang, Cassandra C. Y. Yao, Lin Li, Jingyan Ge,* and Shao Q. Yao*

212.Novel Phenothiazinium-based Dyes as Lysosome-targeted Photosensitizers for Highly Efficient Photodynamic Antitumor Therapy

J. Med. Chem. (2020), 63, 4896-4907.

Qicai Xiao, Huirong Lin, Juan Wu, Xin Pang, Quanming Zhou, Yue Jiang, Pan Wang, Wingnang Leung, Hungkay Lee, Sheng Jiang, Shao Q. Yao, Liqian Gao*, Gang Liu*, Chuanshan Xu*

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211. Smart Design of Nanomaterials for Mitochondria-Targeted Nanotherapeutics

Angew. Chem. Int. Ed. (2020), in press.

Si Si Liew, Xiaofei Qin*, Jia Zhou, Lin Li*, Wei Huang, Shao Q. Yao*


210. Recent advances in small molecule-based fluorophore-drug conjugates

J. Pharm. Anal. (2020), submitted.

Wenjie Lang, Chaonan Yuan, Liquan Zhu, Shubo Du, Linghui Qian, Jingyan Ge,* Shao Q. Yao*

209. Rational Design of Two-photon Fluorogenic Probe for Visualizing Monoamine Oxidase A Activity in Human Glioma Tissues

Angew. Chem. Int. Ed. (2020), 59, 7536-7541.

Haixiao Fang, Hang Zhang, Lin Li*, Yun Ni, Riri Shi, Zheng Li, Xuekang Yang, Bo Ma, Chengwu Zhang, Qiong Wu, Changmin Yu, Naidi Yang, Shao Q. Yao* and Wei Huang*

PDF  (Suppl Info) (Suppl Info II)

208. Vibration induced emission based internal standard fluorogenic probe for visualizing PTP1B in living cells

Chem. Commun. (2020), 56, 58-61.

Gong, Qiuyu; Qin, Wenjing; Xiao, Peng; Wu, Xiang; Li, Lin;* Zhang, Gaobin; Zhang, Renshuai; Sun, Jinpeng;* Yao, Shao;* Huang, Wei

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207. Competition-Based Universal Photonic Crystal Biosensors by Using Antibody-Antigen Interaction

J. Am. Chem. Soc. (2020), 142, 417-423.

Junjie Qin, Xueqiang Li, Lixin Cao, Shubo Du, Wei Wang*, and Shao Q. Yao*

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Year 2019

206. Chemical Probes Reveal Sirt2’s New Function as a Robust “Eraser” of Lysine Lipoylation

J. Am. Chem. Soc. (2019), 141, 18428-18436.

Yusheng Xie, Lanfang Chen, Rui Wang, Jigang Wang, Jingyu Li, Wei Xu, Yingxue Li, Shao Q. Yao, Liang Zhang, Quan Hao, and Hongyan Sun*

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205. Rational Design of Nanocarriers for Protein Delivery.

Adv. Mat. (2019), 31, 1902791.

X. Qin, C. Yu, J. Wei, L. Li,* C. Zhang, Q. Wu, J. Liu, S. Q. Yao,* W. Huang,*


204. Light-Guided PEGylation/dePEGylation of the Nanocarriers for Enhanced Tumor Penetration

Nano Lett. (2019), 19, 3671-3675.

M. Zhou, H. Huang, D. Wang, H. Lu, J. Chen, Z. Chai, S.Q. Yao, Y. Hu*

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203. Mitochondria-Targeting Intracellular Delivery of Native Proteins by Using Biodegradable Silica Nanoparticles

Angew. Chem. Int. Ed. (2019), 58, 7657-7661.

P.Yuan, X. Mao, X. Wu, S. S. Liew, Lin Li,*; Shao Q. Yao*

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202. Live-cell imaging and profiling of c-Jun N-terminal kinases using covalent inhibitor-derived probes

Chem. Commun. (2019)  55, 1092-1095.

Qian, L.*; Pan, S.; Lee, J.-S.; Ge, J.; Li, L.*; Yao, S.Q.*

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Year 2018

201. Bypassing Endocytosis: Direct Cytosolic Delivery of Proteins

J. Am. Chem. Soc. (2018)140, 15986-15996.

Du, S.; Liew, S.S.; Li, L.*; Yao, S.Q.*


200. Nanoquencher-Based Selective Imaging of Glutathione and Protein Glutathionylation in Live Mammalian Cells

Angew. Chem. Int. Ed., (2018),57, 10257-10262.

Mao, X; Yuan, P.*; Yu, C.; Li L.; Yao, S.Q.*

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199.   A Vinyl Sulfone-Based Fluorogenic Probe Capable of Selective Labelling of PHGDH in Live Mammalian Cells

Angew. Chem. Int. Ed., (2018), 57, 579-583.

Pan, S.; Jang, S.-Y.; Liew, S. S.; Fu, J.; Wang, D.; Lee, J.-S.;* Shao Q. Yao*

PDF     (Suppl Info)

198. Intracellular Delivery of Native Proteins Facilitated by Cell-Penetrating Poly(disulfide)s

Angew, Chem. Int. Ed.(2018), 57, 1532-1536.

Qian, L.; Fu, J.; Yuan, P.; Du, S.; Huang, W.; Li, L.;* Yao, S. Q.*

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197.MSN-on-a-Chip: Cell-Based Screenings Made Possible on a Small Molecule Microarray of Native Natural Product

ChemBioChem, (2018), 19, 986-996.

Peng, B.; Yu, C.; Du, S.; Liew, S. S.; Mao, X.; Yuan, P.; Na, Z.; Yao, S.Q*

PDF     (Suppl Info)

Year 2017

196. A Chemoselective Cleavable Fluorescence Turn-ON Linker for Proteomic Studies

Chem. Commun., (2017), 53, 13332-13335.

Liew, S. S.; Du, S.; Ge, J.; Pan, S.; Jang, S.-Y.; Lee, J.-S.;* Yao, S.Q.*

PDF  (Suppl Info)  (Suppl Info II)

195.Tetrazole-based Probes Enable Integration of Phenotypic Screening with Target Identification, and Distinct Profiling of a Cancer Biomarker

Angew. Chem. Int. Ed.(2017), 56, 15044-15048..

Cheng, K.; Lee, J.-S.; Yao, S.Q.; Ding, K.;* Li, Z.*

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194.Iron modulates the activity of monoamine oxidase B in SH-SY5Y cells

BioMetals, (2017), 30:599–607

Lu, H.; Chen, J.; Huang, H.; Zhou, M.; Zhu, Q.; Yao, S.Q.; Chai, Z.; Hu, Y.


193. Intracellular Delivery of Functional Native Antibodies under Hypoxic Conditions by Using a Biodegradable Silica Nanoquencher

Angew. Chem. Int. Ed., (2017),  56, 12481 –12485

Yuan, P.; Zhang, H.; Qian, L.; Mao, X.; Du, S.; Yu, C.; Peng, B.; Yao, S.Q.*

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192.Cell Type-Selective Imaging and Profiling of Newly Synthesized Proteomes by Using Puromycin Analogues

Chem. Commun., (2017),53, 8443-8446.

Du, S. Wang, D.; Peng, B.; Lee, J-S.; Ge, J.*; Yao, S.Q.*

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191.A Suite of “Minimalist” Photo-Crosslinkers for Live-Cell Imaging and Chemical Proteomics: Case Study with BRD4 Inhibitors

Angew. Chem. Int. Ed.,(2017),  56, 11816-11821.

Pan, S.; Jang, S.-Y; Wang, D.; Liew, S. S.; Li, Z.; Lee, J.-S.*; Yao, S.Q.*

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190.Cell-Penetrating Poly(disulfide)s-Based Hyperbranched Polymer for Simultaneous Intracellular Delivery of miRNAs and Small Molecule Drugs

Polymer Chem., (2017), 8, 4043–4051.

Yang, W.; Yu, C.*; Wu, C.; Yao, S.Q.; Wu, S.*

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189. Simultaneous Imaging of Endogenous Survivin mRNA and On-Demand Drug Release in Live Cells by Using a Mesoporous Silica Nanoquencher

Small.,(2017), 1700569

P. Yuan, X. Mao, K. C. Chong, J. Fu, S. Pan, S. Wu, C. Yu*, S. Q. Yao*

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188.A Reaction-based OFF-ON Near-infrared Fluorescent Probe for Imaging Alkaline Phosphatase Activity in Living Cells and Mice

ACS Appl. Mater. Interfaces, (2017), 9, 6796-6803

Tan, Y.; Zhang, L.; Man, K. H.; Peltier, R.; Chen, G.; Zhang, H.; Zhou, L.; Wang, F.; Ho, D.; Yao, S. Q.; Hu, Y.;* Sun, H.*

PDF    (Suppl Info) 

187. Screening Mammalian Cells on a Hydrogel: Functionalized Small Molecule Microarray

Methods Mol. Biol., (2017), 1518, 241-255

Zhu, B.; Jiang, B.; Na, Z.; Yao, S.Q.*


186.Protein-Protein Interaction Inhibitors of BRCA1 Discovered Using Small Molecule Microarrays

Methods Mol. Biol., (2017), 1518, 139-156.

Na, Z.; Pan, S.; Uttamchandani, M.; Yao, S.Q.*


185.A Versatile Microarray Immobilization Strategy Based on a Biorthogonal Reaction Between Tetrazine and Trans-Cyclooctene

Methods Mol. Biol.(2017), 1518, 67-80

Wang, P.; Gao, L.; Lei, H.; Lee, S.S.; Yao, S.Q.; Sun, H.*


184.The Expanding World of Small Molecule Microarrays

Methods Mol. Biol., (2017), 1518, 1-17

Uttamchandani, M.; Yao, S.Q.*


183.Fused Bicyclic Caspase-1 Inhibitors Assembled via Copper-Free Strain-Promoted Alkyne-Azide Cycloaddition (SPAAC)

Chem. Eur. J., (2017), 23, 360-369.

Qian, L.; Zhang, C.-J.; Wu, J.; Yao, S.Q.*

PDF    (Suppl Info) 

182.Rapid synthesis of flavone-based monoamine oxidase (MAO) inhibitors targeting two active sites using click chemistry

Chem. Biol. Drug Des., (2017), 89, 141-151.

Jia, W. Z.; Cheng, F.; Zhang, Y. J.; Ge, J. Y.; Yao, S. Q.*; Zhu, Q*

PDF     (Suppl Info) 

181.Global Mapping of Protein-Lipid Interactions by Using Modified Choline-Containing Phospholipids Metabolically Synthesized in Live Cells

Angew. Chem. Int. Ed., (2017),56, 5829 –5833.

Wang, D.; Du, S.; Cazenave-Gassiot, A.; Ge, J.; Lee, J.-S.; Wenk, M.; Yao, S.Q.*

PDF.   (Suppl Info)

180.Small Molecule Microarray (SMM)-Based Discovery of PARP14 Inhibitors

Angew. Chem. Int. Ed,  (2017), 56, 248-253.

Peng, B.; Thorsell, A.-G.; Karlberg, T.; Schüler*, H.; Yao, S.Q.*

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Year 2016

179.Fluorescent Probes for Single-Step Detection and Proteomic Profiling of HDACs

J. Am. Chem. Soc., (2016),138, 15596−15604

Xie, Y.; Ge, J.; Lei, H.; Peng, B.; Zhang, H.; Wang, D.; Pan, S.; Chen, G.; Chen, L.; Wang, Y.; Hao, Q.; Yao, S. Q.; Sun, H*

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178.Cell-Penetrating Poly(disulfide)-Assisted Intracellular Delivery of Drug-Loaded Mesoporous Silica Nanoparticles for Simultaneous Inhibition of miR-21 Functions and Detection of  Subsequent Therapeutic Effects

Angew. Chem. Int. Ed., (2016),55,9272-9276

Yu, C.; Qian, L.; Ge, J.; Fu, J.; Yuan, P.; Samantha C. L. Yao;Yao, S. Q.*

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177. Two-photon Small Molecule Enzymatic Probes

Acc. Chem. Res., (2016), 49, 626-634          

Qian, L.; Li, L.*; Yao, S.Q.*


176. In Situ Proteome Profiling and Bioimaging Applications of Small-molecule Affinity-based Probes Derived from DOT1L Inhibitors

Chem. Eur. J., (2016), 22,7824-7836             

Zhu, B.; Zhang, H.; Pan, S.; Wang, C.; Ge, J,; Lee, J.-S.; Yao, S.Q.*

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175. Puromycin Analogues Capable of Multiplexed Imaging and Profiling of Protein Synthesis and Dynamics in Live Cells and Neurons

Angew. Chem. Int. Ed., (2016), 55,4933-4937.                      

Ge, J.; Zhang, C.-W.; Ng, X.W.; Peng, B.; Pan, S.; Du, S. Wang, D.; Li, L.; Lim, K.-L.; Wohland, T.; Yao, S.Q.*

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174. Accelerated Cellular On- And Off-Target Screening Of Bioactive Compounds Using Microarrays

Org. Biol. Chem.(2016), 14,59-64                       

Fu, J.; Na, Z.; Peng, B.; Uttamchandani, M.*; Yao, S.Q.*

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173.A Minimalist Fluorescent Probe for Differentiating Cys, Hcy and GSH in Live Cells

Chem. Sci., (2016),7,256-260                         

Zhang, H.; Liu, R.; Liu, J.; Li, L.; Wang, P.; Yao, S.Q.; Xu, Z.; Sun, H.

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172. Tetrazole Photoclick Chemistry: Reinvestigating Its Suitability as a Bioorthogonal Reaction and Potential Applications

Angew. Chem. Int. Ed., (2016), 55,2002-2006                

Li, Z.; Qian, L.; Li, L.; Bernhammer, J. C.; Huynh, H. V.; Lee, J.-S.; Yao, S. Q.*

PDF   (Suppl Info)   (Corrigendum)

171. Target identification of natural products and bioactive compounds using affinity-based probes

Nat. Prod. Rep., (2016), 33,612-620

Pan, S.; Zhang, H.; Wang, C.; Yao, S. C. L.; Yao, S. Q.*


170. Two-Photon Enzymatic Probes for Visualizing  Sub-cellular/Deep-brain Caspase Activities In Neurodegenerative Models

Sci. Rep., (2016), 6, 26385

Qian, L.; Zhang, C.; Li, L.; Gao, N.; Lim, K.-L.; Xu, Q.-H.; Yao, S. Q.*

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 Year 2015

169. Activity-based profiling of the proteasome pathway during hepatitis C virus infection

Proteomics, (2015), 15,3815-3825.                    

Nasheri, N.; Ning, Z.; Figeys, D.; Yao, S.; Goto, N. K.; Pezacki, J. P.

 PDF   (Suppl Info) 

168. Intracellular Delivery of Functional Proteins and Native Drugs by Cell-Penetrating Poly(disulfide)s

J. Am.Chem. Soc., (2015), 137, 12153-12160

Fu, J.; Yu, C.; Li, L.; Yao, S.Q.*

PDF     (Suppl Info)          Movie

167. Single Vehicular Delivery of Antagomir and Small Molecules to Inhibit miR-122 Function in Hepatocellular Carcinoma Cells with “Smart” Mesoporous Silica Nanoparticles

Angew. Chem. Int. Ed., (2015), 54,10574-10578

Yu, C.; Qian, L.; Uttamchandani, M.; Li, L.; Yao, S.Q.*

PDF    (Suppl Info)     Video

166. A Small Molecule Probe Capable of Selective Profiling and Imaging of Monoamine Oxidase B Activities in Parkinson’s Disease Models

Angew. Chem. Int. Ed., (2015)54, 10821-10825.

Li, L.; Zhang, C-W.; Ge, J.; Qian, L.; Chai, B-H.; Zhu, Q.; Lee, J.-S.; Lim, K.-L.; Yao, S.Q.*

PDF     (Suppl Info 1)

165. Controlled proliferation and screening of mammalian cells on a hydrogel-functionalized small molecule microarray

Chem. Commun., (2015), 51, 10431–10434

Zhu, B.; Jiang, B.; Na, Z.; Yao, S.Q.*

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164. Red-Emitting DPSB-Based Conjugated Polymer Nanoparticles with High Two-Photon Brightness for Cell Membrane Imaging

ACS Appl. Mater. Interfaces,(2015),7,6754-6763

Liu, P.; Li, S.; Jin, Y.; Qian, L. Gao, N.; Yao, S.Q.; Huang, F.; Xu, Q.-H.; Cao, Y.

PDF      (Suppl Info 1)

163. Chemical proteomics of host-pathogen interaction

Chem. Biol., (2015), 22, 434-435

Ge, J.; Yao, S.Q.*


 162. Developing new chemical tools for DNA methyltransferases 1 (DNMT 1): a small-molecule activity-based probe and novel tetrazole-containing inhibitors

Bioorg. Med. Chem., (2015), 23, 2917-2927

Zhu, B.; Ge, J.; Yao, S.Q.*

PDF        (Suppl Info 1)

161.In Situ Imaging And Proteome Profiling Indicate Andrographolide Is A Highly Promiscuous Compound

Sci. Rep., (2015), 5, 11522

Li, L.; Wijaya.H.; Samanta.S.; Lam, Y.*; Yao, S.Q.*

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160. Highly Efficient Conjugated Polymer Based Nano-photosensitizers for Targeted Two-photon Photodynamic Therapy and Imaging.

Chem.Eur.J.,(2015), 21, 2214-2221

Shen, X.; Li, S.; Li, L.; Yao, S. Q.; Xu, Q. -H.

PDF     (Suppl Info 1)

159. A Small Molecule Protein-Protein Interaction Inhibitor of PARP1 that Targets its BRCT Domain.

Angew. Chem. Int. Ed., (2015), 2015,54,2515-2519

Na, Z.; Peng, B.; Ng, S.; Pan, S.; Lee,J-S.; Shen, H.M.; Yao, S.Q.

PDF     (Suppl Info 1)

158. Multiplex Imaging and Cellular Target Identification of Kinase Inhibitors via an Affinity-Based Proteome Profiling Approach.

Sci.Rep.,(2015), 5:7724 (doi: 10.1038/srep07724).

Su, Y.; Pan, S.;Li, Z.; Li, L.;  Wu, X.; Hao, P.; Sze, S. K.; Yao, S.Q.*

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Year 2014

157.The zymogen of plasmepsin V from Plasmodium falciparum is enzymatically active

Mol. Biochem. Parasitol., (2014), 197, 56-63.

Xiao, H.; Bryksa, B.C.; Bhaumik, P.; Gustchina, A.; Kiso, Y.; Yao, S.Q.; Wlodawer, A.; Yada, R.Y.


156.Microarray immobilization of biomolecules using a fast trans-cyclooctene (TCO)-tetrazine reaction.

Chem Commun., (2014),50, 11818-1182.

Wang, P.; Na, Z.; Fu, J.; Tan, C.Y.J.; Zhang, H.; Yao, S.Q.; Sun, H.

PDF      (Suppl Info 1)       (Cover)

155.Conjugated Polymer Based Red-emitting Nanoparticles for Two-Photon Excitation Cell Imaging.

Langmuir, (2014),30, 7623-7627.

Li, S.;Shen, X.; Li, L.; Yuan, P.; Guan, Z.; Yao, S.Q.;Xu,Q.-H.

PDF     (Suppl Info 1)

154.Visualization of monoamine oxidases in living cells using “Turn-ON” fluorescence resonance energy transfer probes.

Analyst., (2014), 139,6092-6095.

Li, X.;Yu, J.; Zhu, Q.*; Qian, L.; Li, L.; Zheng, Y.*; Yao, S.Q.*

PDF      (Suppl Info 1)

153.Shape-Dependent Two-photon Photoluminescence of Single Gold Nanoparticles.

Phy. Chem. C., (2014), 118, 13904-13911.

Gao, N.; Chen, Yang.; Li, L.; Guan, Z.; Zhao, T.; Zhou, N.; Yuan, P.; Yao, S. Q.; Xu, Q.-H.

PDF     (Suppl Info 1)

152.”Minimalist” Cyclopropene-Containing Photo-Cross-Linkers Suitable for Live-Cell Imaging and Affinity-Based Protein Labeling.

J. Am.Chem. Soc., (2014), 136, 9990-9998.

Li, Z.; Wang, D., Li, L.; Pan, S.; Na, Z., Tan, C.Y.J.; Yao, S.Q.*

PDF   (Suppl Info 1)      (Suppl Info 2)

151.Discovery of Cell-Permeable Inhibitors that Target the BRCT Domains of BRCA1 Protein by using Small Molecule Microarray.

Angew. Chem. Int. Ed., (2014), 53, 8421-8426.

Na, Z.; Pan, S.; Uttamchandani, M.; Yao, S. Q.*

PDF   (Suppl Info 1)      (Highlight from Nature Chemistry)

150.A tuned affinity-based staurosporine probe for in situ profiling of protein kinases.

Chem Commun., (2014), 50, 2851-2853.

Cheng, X.; Li, L.; Uttamchandani, M.; Yao, S. Q.*

PDF     (Suppl Info)      (Suppl Table)

149.In situ Proteome Profiling of C75, a covalent bioactive compound with potential anti-cancer activities.

Org. Lett., (2014), 16, 1414-1417.

Cheng, X.; Li, L.; Uttamchandani, M.; Yao, S. Q.*

PDF      (Suppl Info)      (Suppl Table)

148.Gold Nanorods Enhanced Two-photon Excitation Fluorescence of Photosensitizers for Two-photon Imaging and Photodynamic Therapy.

ACS Appl. Mater. Interfaces., (2014), 6, 2700-2708.

Zhao, T.; Yu, K.; Shen, X.; Li, L.; Guan, Z.; Gao, N.; Yuan, P.; Li, S.; Yao, S.Q.; Xu, Q.-H.*; Xu, G.Q.*

PDF      (Suppl Info)

147.Targeting lipid metabolism in mycobacteria under different physiological conditions using activity based profiling with tetrahydrolipstatin.

Mol. Cell Proteomics, (2014), 13, 435-448.

Ravindran, M.S.; Rao, S.; Cheng, X.; Shukla, A.; Cazenave-Gassiot, A.; Yao, S. Q.; Wenk, M. R.*

PDF      (Suppl Info 1)       (Suppl Info 2)

146.Bidentate Inhibitors of Protein Tyrosine Phosphatases.

Antioxid. Redox Sign., (2014), 20, 2225-2250.

Low, J. -L.; Chai, C. L. L.;* Yao, S. Q.*


145.A Two-Photon Small Molecule Probe for Specific and Sensitive Detection of Monoamine Oxidase B Activities in Parkinson’s Disease Models.

Nat. Commun., (2014), 5:3276 (doi: 10.1038/ncomms4276).

Li, L.; Zhang, C.; Chen, G. Y. J.; Zhu, B.; Chai, C.; Xu, Q. -H., Tan, E. -K.; Zhu, Q.; Lim, K. -L.*; Yao, S. Q.*

PDF     (Suppl Info)     (Suppl Video 1)     (Suppl Video 2)


Year 2013

144.Preparation of Small Molecule Microarrays by Using trans-Cyclooctene Tetrazine ligation and Their Applications in High-Throughput Screening of Potential Protein-Protein-Interaction Inhibitors of Bromodomains.

Angew. Chem. Int. Ed., (2013), 52, 14060-14064 .

Zhang, C.; Tan, C. Y. J.; Na, Z.; Ge, J.; Chen, G. Y. J.; Uttamchandani, M.; Sun, H.; Yao, S. Q.*

PDF         (Suppl Info)

143.Profiling human Src homology 2 (SH2) domain proteins and ligand discovery using a peptide-hybrid small molecule microarray.

Chem. Commun., (2013), 49, 9660-9662.

Fu, J.; Na, Z.; Uttamchandani, M.; * and Yao, S.Q.*

PDF      (Suppl Info)

142.Site-specific immobilization of biomolecules by a biocompatible reaction between terminal cysteine and 2-cyanobenzothiazole.

Chem. Commun., (2013), 49, 8644-8646.

Wang, P.; Zhang, C.-J.; Chen, G.; Na, Z.; Yao, S.Q.; Sun, H.

PDF     (Suppl Info)

141.Target identification of biologically active small moleculesvia in situ

Curr. Opin. Chem. Biol., (2013), 17, 768-775.

Su, Y.; Ge, J.; Zhu, B.; Zheng, Y.-G.; Zhu, Q.; Yao, S.Q.*


140.Small Molecule Probe Suitable for In Situ Profiling and Inhibition of Protein Disulfide Isomerase.

ACS Chem. Biol. (2013),  8, 2577-2585.

Ge, J.; Zhang, C.J.; Li, L.; Chong, L.M.; Wu, X.; Hao, P.; Sze, S.K.; Yao, S.Q.*

PDF       (Suppl Info)  

139.Fluorescence-Activated Cell Sorting and Directed Evolution of α-N-Acetylgalactosaminidases Using a Quenched Activity-Based Probe (qABP).

Chem. Commun., (2013), 49, 7237-39.

Kalidasan,a, K.; Su, Y.; Wu, X.; Yao, S. Q.;* Uttamchandani, M*.

PDF      (Suppl Info)  

138.Recent advances in microarray technologies for proteomics.

Chem. Biol., 2013, 20, 685-699.

Sun, H.*; Chen, G. Y. J.; Yao, S.Q.*


137.Cell-Based Proteome Profiling Using an Affinity-Based Probe (AfBP) Derived from 3-Deazaneplanocin A (DzNep).

Chem. Asian. J., (2013), 8, 1818-1828.

Tam, E. K. W.; Li, Z.; Goh, Y. L.; Cheng, X.; Wong, S. Y. Wong, Santhanakrishnan, S.; Chai, C. L. L.*; Yao, S. Q.*

PDF       (Suppl Info 1)     (Suppl Info 2)    

136.Design and Synthesis of “Minimalist” Terminal Alkyne-Containing Diazirine Photo-Cross-Linkers and Their Incorporation into Kinase Inhibitors for Cell- and Tissue-Based Proteome Profiling.

Angew. Chem. Int. Ed., (2013), 52, 8551-8556.

Li, Z.; Hao, P.; Li, L.; Tan, C.Y.J.; Cheng, X.; Chen, G.Y.J.; Sze, S.K.; Shen, H.-M.; Yao, S.Q.*

PDF      (Suppl Info)  

135.Modulation of Fatty Acid Synthase Enzyme Activity and Expression during Hepatitis C Virus Replication.

Chem. Biol., (2013), 20, 570-582.

Nasheri, N.; Joyce, M.; Rouleau, Y.; Yang, P.; Yao, S.; Tyrrell, D. L.; Pezacki, J. P.*

PDF      (Suppl Info)  

134. A Switchable Two-photon Membrane Tracer Capable of Imaging Membrane-Associated Protein Tyrosine Phosphatase Activities.

Angew. Chem. Int. Ed. (2013), 52, 424 –428.

Li, L.; Shen, X.; Xu, Q.-H.; Yao, S. Q.*

PDF      (Suppl Info)  

133. AMPK mediates a pro-survival autophagy downstream of PARP-1 activation in response to DNA alkylating agents.

FEBS Lett., (2013), 587, 170-177.

Zhou, J.; Ng, S.; Huang, Q.; Wu, Y.T.; Li, Z.; Yao, S.Q.; Shen, H.M.*


132. Water-Soluble Conjugated Polymers for Simultaneous Two-Photon Cell Imaging and Two-Photon Photodynamic Therapy.

Adv. Opt. Mater., (2013), 1, 92-99.

Shen, X.; Li, L.; Chan, A. C. M.; Yao, S. Q.; Xu, Q.-H.*

PDF      (Suppl Info)  

131.Phosphopeptide Microarrays for Comparative Proteomic Profiling of Cellular Lysates.

Methods Mol. Biol. (2013), 1002, 233-251.

Gao, L.; Sun, H.; Uttamchandani, M.*; Yao, S.Q.*


130.Gold Nanorods as Dual Photo-sensitizating and Imaging Agents for Two-Photon Photodynamic Therapy.

Nanoscale, (2012), 4, 7712–7719.

T.T. Zhao, X.Q. Shen, L. Li, Z.P. Guan, N.Y. Gao, P.Y. Yuan, S.Q. Yao, Q.-H. Xu and G.Q Xu

PDF    (Suppl Info)


Year 2012

129. Organelle-Specific Detection of Phosphatase Activities with Two-Photon Fluorogenic Probes in Cells and Tissues.

J. Am. Chem. Soc.(2012),134, 12157-12167.

Li, L.; Ge, J.; Wu, H.; Xu, Q.-H.; Yao, S.Q.* 

PDF      (Suppl Info)

128.Microarray-Guided Discovery of Two-Photon (2P) Small Molecule Probes for Live-Cell Imaging of Cysteinyl Cathepsin Activities.

Chem. Commun., (2012), 48, 7304-7306.

Na, Z.; Li, L.; Uttamchandani, M.*; Yao, S.Q.*

PDF      (Suppl Info)

127.Ugi Reaction-Assisted Rapid Assembly of Affinity-Based Probes against Potential Protein Tyrosine Phosphatases.

Chem. Commun., (2012), 48, 4453-4455.

Ge, J.; Cheng, X.; Tan, L.P.; Yao, S.Q.*

PDF      (Suppl Info)

126.Parasite-Based Screening and Proteomic Profiling Reveal Orlistat™, an FDA-Approved Drug, as a Potential Anti-Trypanosoma brucei

Chem. Eur. J. (2012), 18, 8403-8413.

Yang, P.-Y.; Wang, M.; Liu, K.; Ngai, M.H.; Sheriff, O.; Lear, M.J.; Sze, S.K.; He, C.Y.*; Yao, S.Q.*

PDF      (Suppl Info)

125.Design, Synthesis and Biological Evaluation of Potent Azadipeptide Nitrile Inhibitors and Activity-Based Probes as Promising Anti-Trypanosoma brucei

Chem. Eur. J. (2012), 18, 6528-6541.

Yang P.-Y.; Wang M.; Li, L.; Wu, H.; He C.Y.*; Yao S.Q.*

PDF      (Suppl Info)

124.Current Advances in Peptide and Small Molecule Microarray Technologies.

Curr. Opin. Chem. Biol. (2012), 16, 234-242.

Foong, Y. M., Fu, J., Yao S. Q.*, Uttamchandani, M.*


123.Comparative Proteomic Profiling of Mammalian Cell Lysates Using Phosphopeptide Microarrays.

Chem. Commun. (2012), 48, 2240-2242.

Gao, L.; Uttamchandani, M.*; Yao, S.Q.*

PDF      (Suppl Info)

122.Proteomic Profiling and Potential Cellular Target Identification of K11777, a Clinical Cysteine Protease Inhibitor, inTrypanosoma brucei.

Chem. Commun. (2012), 48, 835-837.

Yang P.-Y.; Wang M.; He C.Y.; Yao S.Q.*

PDF      (Suppl Info)

121.Cell-Based Proteome Profiling of Potential Dasatinib™ Targets by Use of Affinity-Based Probes (AfBPs).

J. Am. Chem. Soc.(2012),134, 3001-3014.

Shi, H.; Zhang, C.; Chen, G.Y.J.; Yao, S.Q.*

PDF      (Suppl Info)

120.Current Chemical Biology Tools for Studying Protein Phosphorylation and Dephosphorylation.

Chem. Eur. J. (2012), 18, 28-39.

Lu, C.H.S.; Liu, K.; Tan, L.P.; Yao, S.Q.*



Year 2011

119.Photosensitizer-Doped Conjugated Polymer Nanoparticles for Simultaneous Two-photon Imaging and Two-photon Photodynamic Therapy in Living Cells.

Nanoscale (2011), 3, 5140-5146.

Shen, X.Q.; Li, L.; Wu, H.; Yao, S.Q.; Xu, Q.-H.

118.Proteome Profiling Reveals Potential Cellular Targets of Staurosporine Using a Clickable Cell-Permeable Probe.

Chem. Commun. (2011), 47, 11306-11308.

Shi, H.; Cheng, X.-M.; Sze, S.K.; Yao, S.Q.*

117.A Self-Immobilizing and Fluorogenic Unnatural Amino Acid that Mimics Phosphotyrosine.

Chem. Commun. (2011), 47, 10939-10941.

Ge, J.; Li, L.; Yao, S.Q.*

116.Applying Small Molecule Microarrays and Resulting Affinity Probe Cocktails for Proteome Profiling of Mammalian Cell Lysates.

Chem. -Asian. J. (2011), 6, 2803-2815.

Shi, H.; Uttamchandani, M.; Yao, S.Q.*

115.One- and Two-Photon Live Cell Imaging Using a Mutant SNAP-Tag Protein and Its FRET Substrate Pairs.

Org. Lett. (2011), 13, 4160-4163..

Zhang, C. -J.; Li, L.; Chen, G. Y. J.; Xu, Q. –H.; Yao, S. Q.*

114.Dynamic Monitoring of Newly Synthesized Proteomes: Up-Regulation of Myristoylated Protein Kinase A During Butyric Acid Induced Apoptosis.

Angew. Chem. Int. Ed. (2011), 50, 6776-6781.

Liu, K.; Yang, P.-Y.; Na, Z.; Yao, S.Q.*

113.Multicolor, One- and Two-Photon Imaging of Enzymatic Activities in Live Cells with Novel Fluorescently Quenched Activity-Based Probes (qABPs).

J. Am. Chem. Soc.(2011),133, 12009-12020.

Hu, M.; Li, L.; Wu, H.; Su, Y.; Yang, P.-Y.; Uttamchandani, M.; Xu, Q.-H.; Yao, S.Q.*

112.Chemical Modification and Organelle-Specific Localization of Orlistat-Like Natural Product-Based Probes.

Chem. -Asian. J., (2011), 6, 2762-2775.

Yang, P.-Y.; Liu, K.; Zhang, C.; Chen, G. Y. J.; Shen, Y.; Ngai, M. H.; Lear, M. J.; Yao, S. Q.*

111.Small Molecule Microarrays: The First Decade and Beyond.

Chem. Commun., (2011), 47, 5664-5670.

Wu, H.; Ge, J.; Uttamchandani, M.*; Yao, S.Q.*

110.Two-Photon Enhanced Singlet Oxygen Generation by Photosensitizer-Doped Conjugated Polymer Nanoparticles.

Langmuir (2011), 27, 1739-1744.

Shen, X.; He, F.; Wu, J.; Xu, G.Q.; Yao, S.Q.; Xu, Q.-H.

109.A Peptide Aldehyde Microarray for High-Throughput Profiling of Cellular Events.

J. Am. Chem. Soc.(2011),133, 1946-1954.

Wu, H.; Ge, J.; Yang, P.-Y..; Wang, J.; Uttamchandani, M.; Yao, S.Q.*


Year 2010

108.Click Synthesis of Small Molecule-Peptide Conjugates for Organelle-Specific Delivery and Inhibition of Lysomosal Cysteine Proteases.

Chem. Commun. (2010), 46, 8407-8409.

Loh, Y.; Shi, H.; Hu, M.; Yao, S.Q.*

107.Nanodroplet microarrays for high-throughput enzyme screening.

Methods Mol. Biol. (2010), 669, 79-93.

Aw, K.L.; Yao, S.Q.; Uttamchandani, M.*

106.A method for small molecule microarray-based screening for the rapid discovery of affinity-based probes.

Methods Mol. Biol. (2010), 669, 57-68.

Shi, H.; Uttamchandani, M.; Yao, S.Q.*

105.The expanding world of small molecule microarrays.

Methods Mol. Biol. (2010), 669, 1-15

Uttamchandani, M.;* Yao, S.Q.*

 104.Nanocomposites Containing Gold Nanorods and Porphyrin Doped Mesoporous Silica with Dual Capability of Two-photon Imaging and Photosensitization.

Langmuir (2010), 26, 14937-14942.

Zhao, T.; Wu, H.; Yao, S.Q.; Xu, Q.-H.* and Xu G.Q.*

 103.Microarray-Assisted High-Throughput Identification of a Cell-Permeable Small Molecule Binder of 14-3-3 Proteins.

Angew. Chem. Int. Ed. (2010), 49, 6528-6532.

Wu, H.; Ge, J.; Yao, S.Q.*

102.Click-based Synthesis and Proteomic Profiling of Lipstatin Analogues.

Chem. Commun. (2010), 46, 8335-8337.

Ngai, M.H.; Yang, P.-Y.; Liu, K.; Shen, Y.; Wenk, M.R.; Yao, S.Q.;* Lear, M.J.*

101.Activity-Based High-Throughput Determination of PTPs Substrate Specificity Using a Phosphopeptide Microarray.

Biopolymers (Pept. Sci), (2010), 94, 810-819.

Gao, L.; Sun, H.; Yao, S.Q.*

 100.An Unnatural Amino Acid That Mimics Phosphotyrosine.

Chem. Commun. (2010), 46, 2980-2982.

Ge, J.; Wu, H.; Yao, S.Q.*

99.The Use of Click Chemistry in the Emerging Field of Catalomics.

Org. Biol. Chem., (2010), 8, 1749-1762.

Kalesh, K.A.; Shi, H.; Ge, J.; Yao, S.Q.*

(Top-10 download in OBC)

 98.Activity-Based Proteome Profiling of Potential Cellular Targets of Orlistat – An FDA-Approved Drug with Anti-Tumor Activities.

J. Am. Chem. Soc.(2010),132, 656-666.

Yang, P-Y.; Liu, K.; Ngai, M.H.; Lear, M.J..; Wenk, M.; Yao, S.Q.*

97.Activity-Based Proteome Profiling of Hepatoma Cells During Hepatitis C Virus Replication Using Protease Substrate Probes.

Proteome Res.(2010),9, 912-923.

Blais, D.R.; Brlotte, M.; Qian, Y.; Bélanger, S.; Yao, S.Q.; Pezacki, J.P.

96.Small molecule probes that target Abl kinase.

Chem. Commun. (2010), 46, 1118-1120.

Kalesh, K.A.; Sim, S. B. D..; Wang, J.; Liu, K.; Lin, Q.; Yao, S.Q.*

 95.Peptide-based Activity-Based Probes (ABPs) for Target-Specific Profiling of Protein Tyrosine Phosphatases (PTPs).

Chem. Commun. (2010), 46, 589-591.

Kalesh, K.A,; Tan, L.P.; Liu, K.; Gao, L.; Wang, J.; Yao, S.Q.*


Year 2009

94.High-Throughput Discovery of Mycobacterium Tuberculosis Protein Tyrosine Phosphatase (MptpB) Inhibitors Using Click Chemistry.

Org. Lett. (2009), 11, 5102-5105.

Tan, L.P.; Wu, H.; Yang, P.-Y.; Kalesh, K.A.; Zhang, X.; Hu, M.; Srinivasan, R.; Yao, S.Q.*

93.Rapid Synthesis of Abelson Tyrosine Kinase Inhibitors Using Click Chemistry.

Org. Biomol. Chem., (2009), 7, 5129-5136.

Kalesh, K.A.; Liu, K.; Yao, S.Q.*

92.Functional Profiling, Identification and Inhibition of Plasmepsins in Intraerythrocytic Malaria Parasites.

Angew. Chem. Intl. Ed., (2009), 48, 8293-8297.

Liu, K.; Shi, H.; Xiao, H.; Chong, A.G.L.; Bi, X.; Chang, Y.T., Tan, K.; Yada, R.Y.; Yao, S.Q.*

91.Pin1 Catalyzes Conformational Changes of Thr-187 in p27Kip1 and Mediates Its Stability Through a Poly-ubiquitination Process.

Biol. Chem.(2009),284, 23980-23988.

Zhou, W.; Yang, Q.; Low, C.B.; Karthik, B.C.; Ryo, A.; Yao, S.Q.; Yang, D.; Liou. Y.-C.

90.Small Molecule Microarray (SMM)-Facilitated Screening of Affinity-Based Probes (AfBPs) forg-Secretase.

Chem. Commun. (2009), 5030-5032.

Shi, H.; Liu, K.; Xu, A.; Yao, S.Q.*

89.Rapid Synthesis, Screening and Identification of Xanthene- and Xanthene-Based Fluorophores Using Click Chemistry.

Org. Lett. (2009), 11, 3008-3011.

Li, J.; Hu, M.; Yao, S.Q.*

88.Expedient Solid-Phase Synthesis of Both Symmetric and Asymmetric Diol Libraries Targeting Aspartic Proteases.

Bioorg. Med. Chem. Lett. (2009), 19, 3945-3948.

Shi, H.; Liu, K.; Leong, W.Y.W.; Yao, S.Q.*

87.Next Generation Chemical Proteomic Tools for Rapid Enzyme Profiling.

Acc. Chem. Res., (2009), 42, 1183-1192.

Uttamchandani, M.; Lu, C.H.S.; Yao, S.Q.*

86.Expanding the Chemical Biologist’s Tool Kit: Chemical Labelling Strategies and Its Applications.

Curr. Med. Chem., (2009), 16, 4527-4543.

Chattopadhaya, S.; Bakar, F.B.A.; Yao, S.Q.*

 85.Use of Intein-Mediated Protein Ligation Strategies for the Fabrication of Functional Protein Arrays.

Methods in Enzymology, (2009), 462, 195-223.

Chattopadhaya, S.; Bakar, F.B.A.; Yao, S.Q.*

84.High-Throughput Synthesis of Azide Libraries Suitable for Direct “Click” Chemistry and in situ Screening.

Org. Biol. Chem., (2009), 7, 1821-1828.

Srinivasan; R.; Tan, L.P.; Wu, H.; Yang, P.-Y.; Kalesh, K.A,; Yao, S.Q.*

(Top-10 download Aug 2010)           (Top-10 download Sep 2010)

83.“Singapore Green” – A New Fluorescent Dye for Microarray and Bioimaging Applications.

Org. Lett. (2009), 11, 405-408.

Li, J.; Yao, S.Q.*

82.High-Throughput Screening of Catalytically Inactive Mutants of Protein Tyrosine Phosphatases (PTPs) in a Phosphopeptide Microarray.

Chem. Commun. (2009), 677-679.

Sun, H.; Tan, L.P.; Gao, L.; Yao, S.Q.*

81.Site-specific covalent labeling of proteins inside live cells using small molecule probes.

Bioorg. Med. Chem., (2009), 17, 981-989.

Chattopadhaya, S.; Srinivasan; R.; Yeo, S.Y.D.; Chen, G.Y.J.; Yao, S.Q.*


Year 2008

80.In Situ“Click” Assembly of Small Molecule Matrix Metalloprotease Inhibitors Containing Zinc-Chelating Groups.

Org. Lett. (2008), 10, 5529-5531.

Hu, M.; Li, J.; Yao, S.Q.*

79.Peptide Microarrays for High-throughput Studies of Ser/Thr Phosphatases.

Nat. Protocols, (2008), 3, 1485-1493.

Sun, H.; Lu, C.H.S.; Shi, H.; Gao, L.; Yao, S.Q.*

78.Rapid Affinity-Based Fingerprinting of 14-3-3 Isoforms Using A Combinatorial Peptide Microarray.

Angew. Chem. Intl. Ed., (2008), 47, 7438-7441.

Lu, C.H.S.; Sun, H.; Bakar, F.B.A.; Uttamchandani, M.; Zhou, W.; Liou, Y.-C.; Yao, S.Q.*

77.Solid-phase andIn Situ Screening of Protein Tyrosine Phosphatase Inhibitors.

Org. Lett., (2008), 10, 2295-2298.

Srinivasan; R.; Tan, L.P.; Wu, H.; Yao, S.Q.*

 76.An Improved Mechanism-Based Cross-Linker for Multiplexed Kinase Detection and Inhibition in A Complex Proteome.

ChemBioChem, (2008), 9, 1883-1888.

Liu, K.; Kalesh, K.A,; Ong L.B.; Yao, S.Q.*

 75.Peptide Microarrays: Next Generation Biochips for Detection, Diagnostics and High-Throughput Screening.

Curr. Pharm. Des., (2008), 14, 2428-2438.

Uttamchandani, M.*; Yao, S.Q.

74. Activity-Based Profiling: New Developments and Directions in Functional Proteomics.

ChemBioChem, (2008), 9, 667-675.

Uttamchandani, M; Li. J.; Sun, H.; Yao, S.Q*

73.“Click” Synthesis of Small Molecule Inhibitors Targeting Caspases.

Org. Biomol. Chem., (2008), 6, 844-847.

Ng, S.L., Yang, P.-Y.; Chen, K.Y.-T.; Srinivasan, R.; Yao, S.Q.*

 72.Solid-Phase Synthesis of Azidomethylene Inhibitors Targeting Cysteine Proteases.

Org. Lett., (2008), 10, 1881-1884

Yang, P-Y.; Wu, H.; Lee, M.Y.; Xu, A.; Srinivasan, R.; Yao, S.Q.*

71.Peptide Microarray for High-throughput Determination of Phosphatase Specificity and Biology.

Angew. Chem. Intl. Ed., (2008), 47, 1698-1702.

Sun, H.; Lu, C.H.S.; Uttamchandani, M.; Xia, Y.; Liou, Y.-C.; Yao, S.Q.*

70.In vivo Imaging of a Bacterial Cell Division Protein Using a Protease-Assisted Small Molecule Labeling Approach.

ChemBioChem, (2008), 9, 677-680.

Chattopadhaya, S.; Bakar, F.B.A.; Srinivasan; R.; Yao, S.Q.*


Year 2007

 69. Methods of Using Click Chemistry in the Discovery of Enzyme Inhibitors.

Nat. Protocols, (2007), 2, 2655-2664.

Srinivasan; R.; Li, J.; Ng, S.L.; Kalesh, K.A.; Yao, S.Q.*

68.Click Chemistry as a High-Throughput Amenable Platform in Catalomics.

QSAR Comb. Sci., (2007), 26, 1135-1144.

Kalesh, K.A.; Yang, P-Y.; Srinivasan, R.; Yao, S.Q.*

67.Inhibitor Fingerprinting of Metalloproteases Using Microplate and Microarray Platforms – An Enabling Technology in Catalomics.

Nat. Protocols, (2007), 2, 2126-2138.

Lee, W.L.; Li, J.; Uttamchandani, M.; Sun, H.; Yao, S.Q.*

66.Quantitative Inhibitor Fingerprinting of Metalloproteases Using Small Molecule Microarrays.

J. Am. Chem. Soc., (2007),129, 13110-13117..

Uttamchandani, M.; Lee, W.L.;Wang, J.; Yao, S.Q.*

65.Inhibitor Fingerprinting of Matrix Metalloproteases Using a Combinatorial Peptide Hydroxamate Library.

J. Am. Chem. Soc., (2007),129, 7848-7858.

Uttamchandani, M.; Wang, J.; Li, J.; Hu, M.; Sun, H.; Chen, K. Y.-T.; Liu, K.; Yao, S.Q.*

64.Activity-Based Fingerprinting of Proteases Using FRET Peptides.

Biopolymers (Pept. Sci.), (2007), 88, 141-149.

Sun, H.; Panicker, R.C.; Yao, S.Q.*

63.Activity-Based Fingerprinting and Inhibitor Discovery of Cysteine Proteases in a Microarray.

Chem. Commun., (2007), 1518-1520.

Uttamchandani, M; Liu, K.; Panicker, R.C.; Yao, S.Q.*     

highlighted as “hot paper” by Chem Commun, Chemical Science magazine and Chemistry World.


Year 2006

62.Strategies for the Site-Specific Biotinylation of Proteins Usingin vitroin vivo and Cell-Free Systems – Towards Functional Protein Microarrays.

Nat. Protocols, (2006), 1, 2386-2398.

Chattopadhaya, S.; Tan, L.P.; Yao, S.Q.*

61.Rapid Assembly of Matrix Metalloprotease (MMP) Inhibitors Using Click Chemistry.

Org. Lett., (2006), 8, 3821-3824.

Wang, J.; Uttamchandani, M.; Li, J.; Hu, M.; Yao, S.Q.*

 60.“Click” Synthesis of Small Molecule Probes for Activity-Based Fingerprinting of Matrix Metalloproteases.

Chem. Commun., (2006), 3783-3785.

Wang, J.; Uttamchandani, M.; Li, J.; Hu, M.; Yao, S.Q.*   

highlighted as “hot paper” by Chem Commun, Chemical Science magazine and Chemistry World.

59. Rapid Assembly and In Situ Screening of Bidentate Inhibitors of Protein Tyrosine Phosphatases (PTPs).

Org. Lett., (2006), 8, 713-716

Srinivasan, R.; Uttamchandani, M.; Yao, S.Q.*

58.Microarray: a versatile platform for high-throughput functional proteomics.

Comb. Chem. High Throughput Screening (2006), 9, 203-212.

Hu, Y.; Uttamchandani, M.; Yao, S.Q.*

57.Activity-Based High-Throughput Profiling of Metalloprotease Inhibitors Using Small Molecule Microarrays.

Chem. Commun. (2006), 717-719

Wang, J.; Uttamchandani, M.; Sun, L.P.; Yao, S.Q.*

56.Protein and Small Molecule Microarrays: Powerful Tools for High-Throughput Proteomics.

Mol. BioSyst. (2006), 2, 58-68.

Uttamchandani, M.; Wang, J.; Yao, S.Q.*

55.Advanced analytical tools in proteomics.

Anal. Chim. Acta. (2006), 556, 69-79.

 Panicker, R.C.; Chattopadhaya, S.; Yao, S.Q.*

 54.Activity-Based Fingerprinting of Proteases.

ChemBioChem, (2006), 7, 32-36.

Srinivasan, R.; Huang, X.; Ng, S.L.; Yao, S.Q.*

53.Application of Microarrays with special tagged libraries.

QSAR Comb. Sci. (2006), 11, 1009-1019.

Wang, J.; Uttamchandani, M.; Sun, H.; Yao, S.Q.*

52.Recent development in microarray-based enzyme assays: from functional annotation to substrate/inhibitor fingerprinting.

Anal. Bioanal. Chem. (2006), 386, 416-426.

Sun, H.; Chattopadhaya, S.; Wang, J.; Yao, S.Q.*


Year 2005

51.Site-specific immobilization of proteins in a microarray using intein-mediated protein splicing.

Bioorg. Med. Chem. Lett. (2005), 15, 2447-2451.

Girish, A., Sun, H., Yeo, D.S.Y., Chen, G.Y.J., Chua, T.-K. & Yao, S.Q.*

 50.An Affinity-based probe for the proteomic profiling of aspartic proteases.

Tetrahedron Lett. (2005), 46, 4053-4056.

Chattopadhaya, S.; Chan, E.W.S.; Yao, S.Q.*

49. Nanodroplet Profiling of Enzymatic Activities in a Microarray.

Bioorg. Med. Chem. Lett. (2005), 15, 2135-2139.

Uttamchandani, M.; Huang, X.; Chen, G.Y.J.; Yao, S.Q.;*

 48.Small molecule microarrays – recent advances and applications.

Curr. Opin. Chem. Biol. (2005), 9, 4-13.

Uttamchandani, M.; Walsh, D.P.; Yao, S.Q.;* Chang, Y.T.*

 47.Activity-based high-throughput screening of enzymes by using a DNA microarray.

Angew. Chem. Intl. Ed. (2005), 44, 1048-1053.

Hu, Y.; Chen, G.Y.J.; Yao, S.Q.*

 46.Intein-mediated, in vitro and in vivo protein modifications with small molecules.

Prot. Pept. Lett. (2005), 12, 769-775.

Tan, L.P.; Yao, S.Q.*

45.A proteomic strategy for the identification of caspase-associating proteins.

Chem. Commun. (2005), 596-598.

Tan, E.L.P.; Panicker, R.C.; Chen, G.Y.J.; Yao, S.Q.*


Year 2004

44.Lighting up the cancer cells with the “dots”.

Lancet. (2004), 364, 2001-2003.

Chen, G.Y.J.; Yao, S.Q.*

 43.Improving the intein-mediated, site-specific protein biotinylation strategies bothin vitro and in vivo.

Bioorg. Med. Chem. Lett. (2004), 14, 6067-6070.

Tan, L.P.; Lue, R.Y.P.; Chen, G.Y.J.; Yao, S.Q.*

42.Microarrays of tagged combinatorial triazine libraries in the discovery of small molecule ligands of Human IgG.

Comb. Chem.(2004),6, 862-868.

Uttamchandani, M.; Walsh, D.P.; Khersonsky, S.M.; Huang, X.; Yao, S.Q.*; Chang, Y.T.*

41.Developing photoactive affinity probes for proteomic profiling: hydroxamate-based probes for metalloproteases.

J. Am. Chem. Soc.(2004),126, 14435-14446.

Chan, E.W.S.; Chattopadhaya, S.; Panicker, R.C.; Huang, X.; Yao, S.Q.*

40.Developing novel activity-based fluorescent probes that target different classes of proteases.

Chem. Commun. (2004), 1512-1513.

Zhu, Q.; Girish, A.; Chattopadhaya, S.; Yao, S.Q.*

39.Expanded utility of the native chemical ligation reaction.

Chem. Eur. J. (2004), 10, 4664-4672.

Yeo, S.Y.D., Srinivasan, R.; Chen, G.Y.J.; Yao, S.Q.*

 38.Expanding the scope of site-specific protein biotinylation strategies using small molecules.

Bioorg. Med. Chem. Lett. (2004), 14, 5735-5738.

Tan, L.P., Chen, G.Y.J., Yao, S.Q.*

37.Chemical approaches for live cell bioimaging.

Comb. Chem. High Throughput Screening (2004), 7, 597-604.

Srinivasan, R., Yao, S.Q.*; Yeo, S.Y.D.*

 36.Strategies for immobilization of biomolecules in a microarray.

Comb. Chem. High Throughput Screening (2004), 7, 213-221.

Yeo, S.Y.D., Panicker, R.C., Tan, L.P., Yao, S.Q.*

 35.Recent advances in peptide-based microarray technologies.

Comb. Chem. High Throughput Screening (2004), 7, 547-556.

Panicker, R.C., Huang, X., Yao, S.Q.*

34. Versatile protein biotinylation strategies for potential high-throughput proteomics.

J. Am. Chem. Soc.(2004),126, 1055-1062..

Lue, R.Y.P.; Chen, G.Y.J.; Hu, Y.; Zhu, Q.; Yao, S.Q.*

33. Recent Advances in Gel-Based Proteome Profiling Techniques.

Mol. Biotechnol. (2004), 28, 63-76.

Hu, Y., Huan, X., Chen, G.Y.J., Yao, S.Q.*

32. Application of microarrays in high-throughput enzyme profiling.

Mol. Biotechnol. (2004), 28, 227-240.

Uttamchandani, M., Huang, X., Chen, G.Y.J., Tan, L.P., Yao, S.Q.*

 31. Site-specific Immobilization of  Biotinylated Proteins for Protein Microarray Analysis.

Methods Mol. Biol. (2004), 264, 85-100.

Lue, Y.P.R.; Chen, G.Y.J.; Zhu, Q.; Lesaicherre, M.L.; Yao, S.Q.*

 30. Site-Specific Peptide Immobilization Strategies for the Rapid Detection of Kinase Activity on Microarrays.

Methods Mol. Biol. (2004), 264, 191-205.

Uttanchandani, M.; Chen, G.Y.J.; Lesaicherre, M.L.; Yao, S.Q.*

 29. Design and synthesis of fluorogenic substrates that target protein phosphatases.

Tetrahedron Lett. (2004), 45, 707-710.

Zhu, Q., Huang, X., Chen, G.Y.J. & Yao, S.Q.*


Year 2003

28. Combinatorial synthesis of a small-molecule library based on the vinyl sulfone scaffold.

Org. Lett. (20035, 4437-4440.

Wang, G. & Yao, S.Q.*

 27. Cell-permeable small molecule probes for site-specific labeling of proteins.

Chem. Commun., (2003), 2870-2871.

Yeo, S.Y.D., Srinivasan, R., Uttamchandani, M., Chen, G.Y.J., Zhu, Q. & Yao, S.Q.*

Voted the Top Access Article in the journal of ChemComm in Nov 2003. More…

26. Enzyme-targeting small-molecule probes for proteomics applications.

Appl. Genomics Proteomics. (2003), 2, 225-239.

Huang, X., Tan, E.L.P., Chen, G.Y.J., Yao, S.Q.*

 25. Combinatorial peptide microarrays for the rapid determination of kinase specificity.

Bioorg. Med. Chem. Lett. (200313, 2997-3000.

Uttamchandani, M., Chan, E.W.S., Chen, G.Y.J., Yao, S.Q.*

 24. Enzymatic profiling system in a small-molecule microarray.

Org. Lett. (20035, 1257-1260.

Zhu, Q.; Uttamchandani, M.; Li, D.B.; Lesaicherre, M.L.; Yao, S. Q.*

 23. Developing a strategy for activity-based detection of enzymes in a protein microarray.

ChemBiochem. (20034, 336-339.

Chen, G.Y.J., Uttamchandani, M., Zhu, Q., Wang, G., Yao, S.Q.*

Voted the most downloaded article in the journal of ChemBiochem in 2003. More…

 22. Activity-based fluorescent probes that target phosphatases.

Tetrahedron Lett. (200344, 2669-2672.

Zhu, Q., Huang, X., Chen, G.Y.J., Yao, S.Q.*

 21. Proteome analysis ofSaccharomyces Cerevisiaeunder metal stress by two-dimensional differential gel electrophoresis (DIGE).

Electrophoresis (200324, 1458-1470.

Hu, Y.; Wang, G.; Chen, G.Y.J.; Fu, X.; Yao, S.Q.*

 20. Solid-phase synthesis of peptide vinyl sulfones as potential inhibitors and activity-based probes of cysteine proteases.

Org. Lett(20035, 737-740.

Wang, G., Uttamchandani, M., Chen, G.Y.J., Yao, S.Q.*

19. Facile synthesis of 7-amino-4-carbamoylmethylcoumarin (ACC)-containing solid supports and their corresponding fluorogenic protease substrates.

Bioorg. Med. Chem. Lett. (200313, 1033-1036.

Zhu, Q., Li, D.B., Uttamchandani, M., Yao, S.Q.*

18. Design and synthesis of an affinity probe that targets caspases in proteomic experiments.

Tetrahedron Lett. (200344, 1043-1046.

Liau, M.L., Panicker, R.C., Yao, S.Q.*

 17. Array-based technologies and their applications in proteomics.

Curr. Top. Med. Chem. (20033, 705-724.

Chen, G.Y.J., Uttamchandani, M., Lue, Y.P.R., Lesaicherre, M.L., Yao, S.Q.*


Year 2002

16. Intein-mediated biotinylation of proteins and its application in a protein microarray.

J. Am. Chem. Soc.(2002)124, 8768-8769.

Lesaicherre, M.L., Lue, Y.P.R., Chen, G.Y.J., Zhu, Q., Yao, S.Q.*

See commentary made by a Nature editor at Nat. Biotechnol. (2002) 20, 793.

 15. Combinatorial discovery of novel fluorescent dyes based on DapoxylTM.

Tetrahedron Lett. (200243, 5083-5086.

Zhu, Q., Yoon, H.S., Parikh, P.B., Chang, Y.T., Yao, S.Q.*

 14. Developing site-specific immobilization strategies of peptides in a microarray.

Bioorg. Med. Chem. Lett. (200212, 2079-2083.

Lesaicherre, M.L., Uttamchandani, M., Chen, G.Y.J., Yao, S.Q.*

 13. Antibody-based fluorescence detection of kinase activity on a peptide array.

Bioorg. Med. Chem. Lett. (200212, 2085-2088.

Lesaicherre, M.L., Uttamchandani, M., Chen, G.Y.J., Yao, S.Q.*

 12. Substrate spectrum of tyrocidine thioesterase probed with randomized peptide N-acetylcysteamine thioesters.

Bioorg. Med. Chem. Lett. (200212, 989-992.

Xie, G.Y., Uttamchandani, M., Chen, G.Y.J., Bu, X.Z., Lin, S.S., Wong, K. M., Yan, W.L., Yao, S.Q.*, Guo, Z.H.*

(with P. G. Schultz)

11. Functionalized xenon as a biosensor.

Proc. Natl. Acad. Sci. USA (200198, 10654-10657.

Spence, M.M., Rubin, S. M., Dimitrov, I.E., Ruiz, E. J., Wemmer, D. E, Pines, A., Yao, S.Q., Tian, F., Schultz, P.G.

10. SDS Capillary gel electrophoresis (SDS-CGE) of proteins in microfabricated channels.

Proc. Natl. Acad. Sci. USA (1999) 96, 5372-5377.

Yao, S., Anex, D.S., Caldwell, W.B., Arnold, D.W., Smith, K.B., Schultz, P.G.

(with J. Chmielewski)

 9.A pH-tunable peptide ligase.

Biopolymer (199951, 370-375.

Yao, S., Chmielewski, J.

8. DNA Binding Peptides

Comprehensive Natural Products Chemistry (19997, 477-490.

Ghosh, I., Yao, S., Chmielewski, J.

7. Selective amplificationbyauto- and cross-catalysis in a replicating peptide system.

Nature (1998396, 447-450.

Yao, S., Ghosh, I., Zutshi, R., Chmielewski, J.

See also Chem. & Eng. News (1998) 76, No.49, 40.

 6. A Self-replicating peptide under ionic control.

Angew. Chem. Int. Ed. Eng. (199837, 478-481. (Angew. Chem. (1998) 110, 489-492.)

Yao, S., Ghosh, I., Zutshi, R., Chmielewski, J.

 5. Endothiopeptide inhibitors of HIV-1 protease.

Bioorg. Med. Chem. Lett. (19988, 699-704.

Yao, S., Zutshi, R., Chmielewski, J.

4. Uncoilingc-Jun coiled-coils: inhibitory effects of truncated Fos peptides on Jun dimerization and DNA bindingin vitro.

Biopolymer (199847, 277-283.

Yao, S., Brickner, M., Pares-Matos, E. & Chmielewski, J.

3. Inhibiting dimerization and DNA binding of c-Jun oncoprotein.

Peptides: Frontiers of Peptide Science (1998) 15, 751-752.

Yao, S., Chmielewski, J.

2. Natural selection with self-replicating peptides.

Peptides: Frontiers of Peptide Science, (199815, 366-368.

Yao, S., Ghosh, I., Chmielewski, J.

1.A pH-modulated, self-replicating peptide.

Am. Chem. Soc.(1997)119, 10559-10560.

Yao, S., Ghosh I., Zutshi, R., Chmielewski, J.

See also Chem. & Eng. News 199775, No.44, 21.



1. Peptide-Based Microarray

in Microarrays: New Development Towards Recognition of Nucleic Acid and Protein Signatures2007

(K. Dill, et al ed.), Springer Verlag/Kluwer.

Panicker, R.C.; Sun, H.; Chen, G.Y.J.; Yao, S.Q.*

2. Protein Engineering for Surface Attachment

in Functional Protein Microarrays: Pathways to Discovery2006 (P. Predki, ed.), CRC press.

Girish, A.; Chen, G.Y.J.; Yao, S.Q.*

3. Enzyme Assays on Chips.

in Enzyme Assays and Enzyme Profiling: Wiley, 2005 (J.L. Reymond Ed).

Chattopadhaya, S.; Yao, S.Q.*

4. Novel strategies in protein microarray generation and detection.

in Protein Microarray: Jones and Barlett Publishers, 2004. (Schena Ed.)

Lue, Y.P.R. Yeo, S.Y.D., Tan, L.P., Uttamchandani, M., Chen, G.Y.J., Yao, S.Q.*

5. Site-specific immobilization of proteins in a microarray.

in The Proteomics Protocols Handbook (J.M. Walker, ed), Humana Press (Totowa, NJ), 2005, Chapter 63, pp. 747-756.

Lue, Y.P.R., Yeo, S.Y.D., Tan, L.P., Chen, G.Y.J., Yao, S.Q.*



1.Site-Specific Labelling of Proteins

US Patent No. 7,449,558, granted (on Nov 11, 2008).

Yao, S.Q. & Yeo, S.Y.D.

2.Novel strategies for site-specific immobilization of peptides and proteins onto glass slides.

US patent, submitted (2003).

Lesaicherre, M.L. et al. Yao, S.Q.

3.Novel methods for detecting enzymatic activity on a protein microarray.

US patent, submitted (2003).

Uttamchandani, M.; Chen, G.Y.J.; Yao, S.Q.

4.Gel electrophoresis of proteins in microchannels.

US patent, provisional (2000).

Anex, D.S. & Yao S.