Sang Chul C. Choi, Ph.D. - Related publications

Affiliations: 
Cornell University, Ithaca, NY, United States 
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Gayoso A, Steier Z, Lopez R, Regier J, Nazor KL, Streets A, Yosef N. Joint probabilistic modeling of single-cell multi-omic data with totalVI. Nature Methods. PMID 33589839 DOI: 10.1038/s41592-020-01050-x   
2021 Weke K, Singh A, Uwugiaren N, Alfaro JA, Wang T, Hupp TR, O'Neill JR, Vojtesek B, Goodlett DR, Williams SM, Zhou M, Kelly RT, Zhu Y, Dapic I. MicroPOTS Analysis of Barrett's Esophageal Cell Line Models Identifies Proteomic Changes after Physiologic and Radiation Stress. Journal of Proteome Research. PMID 33491460 DOI: 10.1021/acs.jproteome.0c00629   
2021 Schmitz S, Ertelt M, Merkl R, Meiler J. Rosetta design with co-evolutionary information retains protein function. Plos Computational Biology. 17: e1008568. PMID 33465067 DOI: 10.1371/journal.pcbi.1008568   
2021 Schmitz S, Ertelt M, Merkl R, Meiler J. Rosetta design with co-evolutionary information retains protein function. Plos Computational Biology. 17: e1008568. PMID 33465067 DOI: 10.1371/journal.pcbi.1008568   
2021 Zhang Y, Gao Y, Wei J, Gao Y. Dynamic Changes of Urine Proteome in Rat Models Inoculated with Two Different Hepatoma Cell Lines. Journal of Oncology. 2021: 8895330. PMID 33505467 DOI: 10.1155/2021/8895330   
2021 Zakas PM, Coyle CW, Brehm A, Bayer M, Solecka-Witulska B, Radford CE, Brown C, Nesbitt K, Dwyer C, Kannicht C, Spencer HT, Gaucher EA, Doering CB, Lillicrap D. Molecular coevolution of coagulation factor VIII and von Willebrand factor. Blood Advances. 5: 812-822. PMID 33560395 DOI: 10.1182/bloodadvances.2020002971   
2021 Ward TL, Tai W, Morton SU, Impens F, VanDamme P, Van Haver D, Timmerman E, Venturini G, Zhang K, Jang MY, Willcox JA, Haghighi A, Gelb BD, Chung WK, Goldmuntz E, et al. Mechanisms of Congenital Heart Disease Caused by NAA15 Haploinsufficiency. Circulation Research. PMID 33557580 DOI: 10.1161/CIRCRESAHA.120.316966   
2021 Seyyedsalehi SF, Soleymani M, Rabiee HR, Mofrad MRK. PFP-WGAN: Protein function prediction by discovering Gene Ontology term correlations with generative adversarial networks. Plos One. 16: e0244430. PMID 33630862 DOI: 10.1371/journal.pone.0244430   
2021 Duś-Szachniewicz K, Rymkiewicz G, Agrawal AK, Kołodziej P, Wiśniewski JR. Large-Scale Proteomic Analysis of Follicular Lymphoma Reveals Extensive Remodeling of Cell Adhesion Pathway and Identifies Hub Proteins Related to the Lymphomagenesis. Cancers. 13. PMID 33562532 DOI: 10.3390/cancers13040630   
2021 Skruber K, Read TA, Vitriol EA. Delivering defined amounts of purified protein with high precision into living cells. Star Protocols. 2: 100272. PMID 33511357 DOI: 10.1016/j.xpro.2020.100272   
2021 Swamy KBS, Schuyler SC, Leu JY. Protein Complexes Form a Basis for Complex Hybrid Incompatibility. Frontiers in Genetics. 12: 609766. PMID 33633780 DOI: 10.3389/fgene.2021.609766   
2021 Herrera NG, Morano NC, Celikgil A, Georgiev GI, Malonis RJ, Lee JH, Tong K, Vergnolle O, Massimi AB, Yen LY, Noble AJ, Kopylov M, Bonanno JB, Garrett-Thomson SC, Hayes DB, et al. Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis. Acs Omega. 6: 85-102. PMID 33458462 DOI: 10.1021/acsomega.0c03512   
2021 Mehboob MZ, Lang M. Structure, function, and pathology of protein O-glucosyltransferases. Cell Death & Disease. 12: 71. PMID 33436558 DOI: 10.1038/s41419-020-03314-y   
2021 Lee DW, Hwang I. Understanding the evolution of endosymbiotic organelles based on the targeting sequences of organellar proteins. The New Phytologist. PMID 33404103 DOI: 10.1111/nph.17167   
2021 Acosta EV, Ospina-E JC, Muñoz DA, Alvarez H. Towards a phenomenological based model for predicting the hardness of a processed meat product. Journal of Food Science and Technology. 58: 701-709. PMID 33568864 DOI: 10.1007/s13197-020-04584-2   
2021 Tong CL, Lee KH, Seelig B. De novo proteins from random sequences through in vitro evolution. Current Opinion in Structural Biology. 68: 129-134. PMID 33517151 DOI: 10.1016/j.sbi.2020.12.014   
2021 Chen J, Zheng S, Zhao H, Yang Y. Structure-aware protein solubility prediction from sequence through graph convolutional network and predicted contact map. Journal of Cheminformatics. 13: 7. PMID 33557952 DOI: 10.1186/s13321-021-00488-1   
2021 Panigrahi R, Glover JNM. Structural insights into DNA double-strand break signaling. The Biochemical Journal. 478: 135-156. PMID 33439989 DOI: 10.1042/BCJ20200066   
2021 Haridhasapavalan KK, Ranjan SH, Bhattacharyya S, Thummer RP. Soluble expression, purification, and secondary structure determination of human MESP1 transcription factor. Applied Microbiology and Biotechnology. PMID 33651130 DOI: 10.1007/s00253-021-11194-1   
2021 Huang LF, Sinaga DS, Tan CC, Hsieh SM, Huang CH. Expression of Recombinant Human Octamer-Binding Transcription Factor 4 in Rice Suspension Cells. International Journal of Molecular Sciences. 22. PMID 33573352 DOI: 10.3390/ijms22031409   
2021 Vistain LF, Tay S. Single-Cell Proteomics. Trends in Biochemical Sciences. PMID 33653632 DOI: 10.1016/j.tibs.2021.01.013   
2021 Villatoro AJ, Martín-Astorga MDC, Alcoholado C, Sánchez-Martín MDM, Becerra J. Proteomic Analysis of the Secretome and Exosomes of Feline Adipose-Derived Mesenchymal Stem Cells. Animals : An Open Access Journal From Mdpi. 11. PMID 33498940 DOI: 10.3390/ani11020295   
2021 Thole JF, Fadero TC, Bonin JP, Stadmiller SS, Giudice JA, Pielak GJ. Oocytes for Eukaryotic In-Cell NMR. Biochemistry. PMID 33534998 DOI: 10.1021/acs.biochem.0c00922   
2021 Littmann M, Heinzinger M, Dallago C, Olenyi T, Rost B. Embeddings from deep learning transfer GO annotations beyond homology. Scientific Reports. 11: 1160. PMID 33441905 DOI: 10.1038/s41598-020-80786-0   
2021 Romero-Romero S, Kordes S, Michel F, Höcker B. Evolution, folding, and design of TIM barrels and related proteins. Current Opinion in Structural Biology. 68: 94-104. PMID 33453500 DOI: 10.1016/j.sbi.2020.12.007   
2021 Hawkins-Hooker A, Depardieu F, Baur S, Couairon G, Chen A, Bikard D. Generating functional protein variants with variational autoencoders. Plos Computational Biology. 17: e1008736. PMID 33635868 DOI: 10.1371/journal.pcbi.1008736   
2021 Liu J, Jang JY, Pirooznia M, Liu S, Finkel T. The secretome mouse provides a genetic platform to delineate tissue-specific in vivo secretion. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33431665 DOI: 10.1073/pnas.2005134118   
2021 Lee JH, Ryu SW, Ender NA, Paull TT. Poly-ADP-ribosylation drives loss of protein homeostasis in ATM and Mre11 deficiency. Molecular Cell. PMID 33571423 DOI: 10.1016/j.molcel.2021.01.019   
2021 Lei T, Wang J, Liu Y, Chen P, Zhang Z, Zhang X, Wang X, Li Q, Du H. Calreticulin as a special marker to distinguish dental pulp stem cells from gingival mesenchymal stem cells. International Journal of Biological Macromolecules. PMID 33647340 DOI: 10.1016/j.ijbiomac.2021.02.126   
2021 Qin W, Cho KF, Cavanagh PE, Ting AY. Deciphering molecular interactions by proximity labeling. Nature Methods. PMID 33432242 DOI: 10.1038/s41592-020-01010-5   
2021 Hakun MC, Gu B. Challenges and Opportunities in NUT Carcinoma Research. Genes. 12. PMID 33562801 DOI: 10.3390/genes12020235   
2021 Suazo KF, Jeong A, Ahmadi M, Brown C, Qu W, Li L, Distefano MD. Metabolic labeling with an alkyne probe reveals similarities and differences in the prenylomes of several brain-derived cell lines and primary cells. Scientific Reports. 11: 4367. PMID 33623102 DOI: 10.1038/s41598-021-83666-3   
2021 Azad GK, Khan PK. Variations in Orf3a protein of SARS-CoV-2 alter its structure and function. Biochemistry and Biophysics Reports. 100933. PMID 33527091 DOI: 10.1016/j.bbrep.2021.100933   
2021 Narasimhan S, Pinto C, Lucini Paioni A, van der Zwan J, Folkers GE, Baldus M. Characterizing proteins in a native bacterial environment using solid-state NMR spectroscopy. Nature Protocols. PMID 33442051 DOI: 10.1038/s41596-020-00439-4   
2021 Spagnolli G, Massignan T, Astolfi A, Biggi S, Rigoli M, Brunelli P, Libergoli M, Ianeselli A, Orioli S, Boldrini A, Terruzzi L, Bonaldo V, Maietta G, Lorenzo NL, Fernandez LC, et al. Pharmacological inactivation of the prion protein by targeting a folding intermediate. Communications Biology. 4: 62. PMID 33437023 DOI: 10.1038/s42003-020-01585-x   
2021 Park H, Kim S. Gene-specific mutagenesis enables rapid continuous evolution of enzymes in vivo. Nucleic Acids Research. PMID 33406230 DOI: 10.1093/nar/gkaa1231   
2021 Benson CE, Southgate L. The DOCK protein family in vascular development and disease. Angiogenesis. PMID 33548004 DOI: 10.1007/s10456-021-09768-8   
2021 Karagöz IK, Munk MR, Kaya M, Rückert R, Yıldırım M, Karabaş L. Using bioinformatic protein sequence similarity to investigate if SARS CoV-2 infection could cause an ocular autoimmune inflammatory reactions? Experimental Eye Research. 203: 108433. PMID 33400927 DOI: 10.1016/j.exer.2020.108433   
2021 Nishad S, Chauhan PK, Sowdhamini R, Ghosh A. Chronic exposure of humans to high level natural background radiation leads to robust expression of protective stress response proteins. Scientific Reports. 11: 1777. PMID 33469066 DOI: 10.1038/s41598-020-80405-y   
2021 Prasanna P, Kumar R, Singh VK, Upadhyay A. Cloning, purification, and homology modeling of Histone deacetylase in Leishmania donovani. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 104738. PMID 33516971 DOI: 10.1016/j.meegid.2021.104738   
2021 Nilewski S, Varatnitskaya M, Masuch T, Kusnezowa A, Gellert M, Baumann AF, Lupilov N, Kusnezow W, Koch MH, Eisenacher M, Berkmen M, Lillig CH, Leichert LI. Functional metagenomics of the thioredoxin superfamily. The Journal of Biological Chemistry. 100247. PMID 33453280 DOI: 10.1074/jbc.RA120.016350   
2021 Wang B, Su Z, Wu Y. Characterizing the function of domain linkers in regulating the dynamics of multi-domain fusion proteins by microsecond molecular dynamics simulations and artificial intelligence. Proteins. PMID 33620752 DOI: 10.1002/prot.26066   
2021 Mandad S, Kracht G, Fornasiero EF. In Vivo Protein Lifetime Measurements Across Multiple Organs in the Zebrafish. Methods in Molecular Biology (Clifton, N.J.). 2218: 291-302. PMID 33606240 DOI: 10.1007/978-1-0716-0970-5_23   
2021 Hon J, Marusiak M, Martinek T, Kunka A, Zendulka J, Bednar D, Damborsky J. SoluProt: Prediction of Soluble Protein Expression in Escherichia coli. Bioinformatics (Oxford, England). PMID 33416864 DOI: 10.1093/bioinformatics/btaa1102   
2021 Eisenhaber B, Sinha S, Jadalanki CK, Shitov VA, Tan QW, Sirota FL, Eisenhaber F. Conserved sequence motifs in human TMTC1, TMTC2, TMTC3, and TMTC4, new O-mannosyltransferases from the GT-C/PMT clan, are rationalized as ligand binding sites. Biology Direct. 16: 4. PMID 33436046 DOI: 10.1186/s13062-021-00291-w   
2021 Bornberg-Bauer E, Hlouchova K, Lange A. Structure and function of naturally evolved de novo proteins. Current Opinion in Structural Biology. 68: 175-183. PMID 33567396 DOI: 10.1016/j.sbi.2020.11.010   
2021 Sakuma C, Sato T, Shibata T, Nakagawa M, Kurosawa Y, Okumura CJ, Maruyama T, Arakawa T, Akuta T. Western blotting analysis of proteins separated by agarose native gel electrophoresis. International Journal of Biological Macromolecules. 166: 1106-1110. PMID 33157142 DOI: 10.1016/j.ijbiomac.2020.10.265   
2021 Swovick K, Firsanov D, Welle KA, Hryhorenko JR, Wise JP, George C, Sformo TL, Seluanov A, Gorbunova V, Ghaemmaghami S. Interspecies Differences in Proteome Turnover Kinetics Are Correlated With Life Spans and Energetic Demands. Molecular & Cellular Proteomics : McP. 20: 100041. PMID 33639418 DOI: 10.1074/mcp.RA120.002301   
2021 Lu W, Bueno C, Schafer NP, Moller J, Jin S, Chen X, Chen M, Gu X, Davtyan A, de Pablo JJ, Wolynes PG. OpenAWSEM with Open3SPN2: A fast, flexible, and accessible framework for large-scale coarse-grained biomolecular simulations. Plos Computational Biology. 17: e1008308. PMID 33577557 DOI: 10.1371/journal.pcbi.1008308   
2021 Kruglikov A, Rakesh M, Wei Y, Xia X. Applications of Protein Secondary Structure Algorithms in SARS-CoV-2 Research. Journal of Proteome Research. PMID 33617253 DOI: 10.1021/acs.jproteome.0c00734