Publications

Peer-reviewed 

2018

(39) "A high-throughput platform to identify small-molecule inhibitors of CRISPR-Cas9." Under revision

(38) "A universal method for sensitive and cell-free detection of CRISPR-associated nucleases." Under review

(37) "Precision control of CRISPR-associated nucleases.” Invited perspective article. To be submitted

(36) “Facile optical control of CRISPR-Cas9 using small molecules.” In preparation

(35) "A synthetic gene drive with small-molecule contigency." In preparation

(34) "Rapid degradation of CRISPR-Cas9 using a small molecule." In preparation

(33) "A method for rapid identification of small-molecule inhibitors of CRISPR-associated nucleases." In preparation

 

2017

(32) Andrew, A; Perry, B. W.; Card, D. C.; Schield, D. R.; Ruggiero, R. P.; McGaugh, S. E.; Choudhary, A.; Secor, S. M.; Castoe, T. A. " Growth and stress response mechanisms underlying post-feeding regenerative organ growth in the Burmese python". BMC Genomics. In press.

(31) Wu, P. and Choudhary, A. Kinase inhibitor drugs. In Succesful drug discovery, Vol 3 ,  Wiley-VCH Verlag GmbH & Co. KGaA (Weinheim). In Press.

 

2016

(30) Maji, B§, Moore, CL§, Zetsche, B, Volz, SE, Zhang, F, Shoulders, MD*, Choudhary, A*  “Multidimensional chemogenic control of CRISPR-Cas9”. Nature Chemical Biology. doi:10.1038/nchembio.2224

     Highlighted by Nat. Chem. Biol. News & Views. doi: 10.1038/nchembio.2243.

(29) Vasta, J.D.; Choudhary, A.; Jensen, K.H.; McGrath, N.A.; Raines, R.T.*  “Prolyl 4-hydroxylase: Substrate isosteres in which an (E)- or (Z)-alkene replaces the prolyl peptide bond”. Biochemistry. In press.

 

2015

(28)  Chou, D H-C§; Vetere, A§; Choudhary, A§ et al "Kinase-independent small molecule inhibition of JAK-STAT signaling". J. Am. Chem. Soc. 137; 7929–7934.      

(27)  Choudhary, A.§; Kamer, K.J.§; Shoudlers, M.D.§; Raines, R.T. "4-Ketoproline: An electrophilic proline analog for bioconjugation" Biopolymers (Pept Sci) 104; 110–115     

 

2014

(26)  Vetere, A.§; Choudhary, A.§; Burns, S. M.§; Wagner, B. K.* “Targeting pancreatic beta cell to treat diabetes”. Nature Rev. Drug Discov. 13; 278-289.

(25)  Choudhary, A. §; Hu He, K.§; Mertins, P.; Udeshi, N. U.; Dančík, V.; Yadlin-Fomina, D.; Kubicek, S.; Clemons, P. A.; Schreiber, S. L.; Carr, S. A.; Wagner, B. K.* “Quantitative phosphoproteomics comparison of alpha and beta cells to uncover novel targets for lineage reprogramming”. PLOS ONE.  DOI: 10.1371/journal.pone.0095194

(24) Choudhary, A.; Newberry, RN, Raines, R. T.* “n→π* interactions engender chirality in carbonyl group”, Org. Lett. 16; 3421-3423.

 

2013

(23)  Vetere, A.§; Choudhary, A.§; Wagner, B. K.* “Strategies to increase pancreatic beta cell mass and function”. Nature Rev. Drug Discov.

(22)  Choudhary, A.; Fry, C. G.; Kamer, K. J.; Raines, R. T.* “An nπ* interaction reduces the electrophilicity of the acceptor carbonyl group". Chem. Comm. 49, 8166-8168. 
                       HOT Chem Comm article
 
(21)  Guzei, I. A.*; Choudhary, A.; Raines, R. T. “Pyramidalization of a carbonyl carbon atom in (2S)-N-(selenoacetyl)proline methyl ester”, Acta Cryst. E69, o805–o806.

 

2012

(20) Choudhary, A.; Kamer, K. J.; Raines, R. T.* “A conserved interaction with the chromophores of fluorescent proteins”, Prot. Sci. 21, 171–177.

(19)  Krow, G. R.*; Shoulders, M. D.; Edupuganti, R.; Gandla, D.; Yu, F; Sonnet, P. E.; Sender, M; Choudhary, A.; DeBrosse, C.; Ross III, C. W.; Carroll, P.; Raines, R. T. “Synthesis of 5-fluoro- and 5-hydroxymethanoprolines via lithiation of N-Boc-methanopyrrolidines. Constrained Cγ-exo and Cγ-endo Flp and Hyp conformer mimics”, J. Org. Chem. 77, 5331–5344.

(18)  Kamer, K. J.; Choudhary, A.; Raines, R. T.* “Intimate interactions with carbonyl groups: Dipole–dipole or n→π*?J. Org. Chem. 78, 2099–2103.

2011

(17) Choudhary, A. and Raines, R. T.* “An evaluation of peptide bond isosteres”, ChemBiochem, 12, 1801–1807.

(16) Choudhary, A.; Kamer, K. J.; Raines, R. T.* “An nπ* interaction in aspirin: Implications for structure and reactivity”, J. Org. Chem. 76, 7933–7937.
                   Highlighted by Faculty of 1000 Biology.
                   Highlighted by Chemistry World (RSC)
 
(15) Choudhary, A. and Raines, R. T.* “Signature of the nπ* interaction in a-helices”, Prot. Sci. 20, 1077–1081.
                  Cover article 
                  Highlighted by Prot. Sci. DOI:10.1002/pro.645
 

(14) Krow, G. R.*; Shoulders, M. D.; Sender, M; Cannon, K. C.; DeBrosse, C.; Yu, F; Gandla, D.; Edupuganti, R.; Sonnet, P. E.; Ross III, C. W.; Zdilla, M. J.; Choudhary, A.; Raines, R. T. “Synthesis of conformationally constrained 5-fluoro- and 5-hydroxymethano-pyrrolidines. Ring puckered mimics of gauche and anti-3-fluoro- and 3-hydroxypyrrolidines”, J. Org. Chem. 76, 3626–3634.

(13) Choudhary, A.; Pua, K. H.; Raines, R. T.* “Quantum mechanical origin of the conformational preferences of 4-thiaproline and its S-oxides”, Amino Acids41, 181–186.

 

2010

(12) Shoulders, M.D.; Kotch, F.W.; Choudhary, A.; Guzei, I.A.; Raines, R.T. * “The aberrance of the 4S diastereomer of 4-hydroxyproline”, J. Am. Chem. Soc. 132, 10857–10865.

(11) Choudhary, A.; Kamer, K. J.; Powner, M. W.; Sutherland, J. D.*; Raines, R. T.* “A stereoelectronic effect in prebiotic nucleotide synthesis”, ACS Chem. Biol. 5, 655–657.
                  Highlighted in Chem. & Eng. News 2010, 88, 39.
 
(10) Bartlett, G. J.§; Choudhary, A.§; Raines, R. T.*; Woolfson, D. N.* “n→π* Interaction in proteins”, Nat. Chem. Biol. 6, 615–620.
                 Highlighted in News and Views, Nat. Chem. Biol. 2010, 6, 567–568. 
                 Highlighted by Faculty of 1000 Biology.
                 Highlighted in Chem. & Eng. News 2010, 88, 7.
 

(9) Jakobsche, C. E.§; Choudhary, A.§; Miller, S. J.*; Raines, R. T. * “nπ* Interaction and n)(π Pauli repulsion are antagonistic for protein stability”, J. Am. Chem. Soc. 132, 6651–6653.

 (8) Choudhary, A.; Fry, C. G.; Raines, R. T.* “Modulation of an nπ* interaction with a–fluoro groups”, ARKIVOC 8, 251–262.

 

2009

(7) Krow, G. R.*; Edupuganti, R.; Gandla, D.; Choudhary, A.; Lin, G.; Sonnet, P. E.; DeBrosse, C.; Ross III, C. W.; Cannon, K. C.; Raines, R. T. “5(6)-anti-Substituted-2-azabicyclo[2.1.1]hexanes: A nucleophilic displacement route”, J. Org. Chem. 74, 8232–8242.

(6) Choudhary, A.; Gandla, D.; Krow, G. R.; Raines, R. T.* “Nature of amide carbonyl–carbonyl interactions in proteins”, J. Am. Chem. Soc. 131, 7244–7246.

                 Highlighted in Nat. Chem. Biol. 2009, 5, 456.

 

2007

(5)  Prasad, K. R.*; Penchalaiah, K.; Choudhary, A.; Anbarsan, P. “Stereoselective synthesis of (-)–microcarpalide”,Tet. Lett. 48, 309–311.

 

Conference proceedings

(4) Secor, S; Choudhary, A; Lundh, M; Wagner, B; Is extreme physiology of Burmese pythons relevant to diabetes? FASEB 2014, 28, 1108.8

(3) Lundh, M; Choudhary, A; Chou, DHC; Tang, A; Poulsen-Mandrup, T; Wagner, B; "Transcription and activity of the proteasome are induced by pro-inflammatory cytokines, and proteasome expression is inhibited by HDAC and deubiquitinase inhibition" Diabetologia  2012, 55, S207

(2) Choudhary, A. and Raines, R. T.* “n→π* interaction in the molecules of life” Proceedings of the 31st European Peptide Symposium (Lebl, M.; Meldal, M. M.; Jensen, K. J.; Jensen, T. H., Eds.), 2010, 2–3.

(1) Choudhary, A. and Raines, R. T.* “A donor–acceptor perspective on carbonyl–carbonyl interactions in proteins.” Breaking Away: The Proceedings of the 21st American Peptide Symposium (Michal Lebl, Ed.). 2009, 347–349.