Nicholas Ching Hai Wu

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2020

A high-affinity antibody against the CSP N-terminal domain lacks Plasmodium falciparum inhibitory activity

Thai, E., Costa, G., Weyrich, A., Murugan, R., Oyen, D., Flores-Garcia, Y., Prieto, K., Bosch, A., Valleriani, A., Wu, N. C., Pholcharee, T., Scally, S. W., Wilson, I. A., Wardemann, H., Julien, J. P. & Levashina, E. A., Nov 2 2020, In : The Journal of experimental medicine. 217, 11

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Open Access

A highly conserved cryptic epitope in the receptor binding domains of SARS-CoV-2 and SARS-CoV

Yuan, M., Wu, N. C., Zhu, X., Lee, C. C. D., So, R. T. Y., Lv, H., Mok, C. K. P. & Wilson, I. A., May 8 2020, In : Science. 368, 6491, p. 630-633 4 p.

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Open Access

An Alternative Binding Mode of IGHV3-53 Antibodies to the SARS-CoV-2 Receptor Binding Domain

Wu, N. C., Yuan, M., Liu, H., Lee, C. C. D., Zhu, X., Bangaru, S., Torres, J. L., Caniels, T. G., Brouwer, P. J. M., van Gils, M. J., Sanders, R. W., Ward, A. B. & Wilson, I. A., Sep 28 2020, (Accepted/In press) In : Cell Reports. 108274.

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Open Access

An influenza A hemagglutinin small-molecule fusion inhibitor identified by a new high-throughput fluorescence polarization screen

Yao, Y., Kadam, R. U., Lee, C. C. D., Woehl, J. L., Wu, N. C., Zhu, X., Kitamura, S., Wilson, I. A. & Wolan, D. W., Aug 4 2020, In : Proceedings of the National Academy of Sciences of the United States of America. 117, 31, p. 18431-18438 8 p.

Research output: Contribution to journalArticle

Open Access

Benchmarking of computational error-correction methods for next-generation sequencing data

Mitchell, K., Brito, J. J., Mandric, I., Wu, Q., Knyazev, S., Chang, S., Martin, L. S., Karlsberg, A., Gerasimov, E., Littman, R., Hill, B. L., Wu, N. C., Yang, H. T., Hsieh, K., Chen, L., Littman, E., Shabani, T., Enik, G., Yao, D., Sun, R. & 6 others, Schroeder, J., Eskin, E., Zelikovsky, A., Skums, P., Pop, M. & Mangul, S., Mar 17 2020, In : Genome biology. 21, 1, 71.

Research output: Contribution to journalArticle

Open Access

Convergent Evolution in Breadth of Two VH6-1-Encoded Influenza Antibody Clonotypes from a Single Donor

Wu, N. C., Andrews, S. F., Raab, J. E., O'Connell, S., Schramm, C. A., Ding, X., Chambers, M. J., Leung, K., Wang, L., Zhang, Y., Mascola, J. R., Douek, D. C., Ledgerwood, J. E., McDermott, A. B. & Wilson, I. A., 2020, (Accepted/In press) In : Cell Host and Microbe. 28, 3, p. 434-444.e4

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Open Access

Cross-reactive Antibody Response between SARS-CoV-2 and SARS-CoV Infections

Lv, H., Wu, N. C., Tsang, O. T. Y., Yuan, M., Perera, R. A. P. M., Leung, W. S., So, R. T. Y., Chan, J. M. C., Yip, G. K., Chik, T. S. H., Wang, Y., Choi, C. Y. C., Lin, Y., Ng, W. W., Zhao, J., Poon, L. L. M., Peiris, J. S. M., Wilson, I. A. & Mok, C. K. P., Jun 2 2020, In : Cell Reports. 31, 9, 107725.

Research output: Contribution to journalArticle

Open Access

Different genetic barriers for resistance to HA stem antibodies in influenza H3 and H1 viruses

Wu, N. C., Thompson, A. J., Lee, J. M., Su, W., Arlian, B. M., Xie, J., Lerner, R. A., Yen, H. L., Bloom, J. D. & Wilson, I. A., Jun 19 2020, In : Science. 368, 6497, p. 1335-1340 6 p.

Research output: Contribution to journalArticle

Immunity against cancer cells may promote their proliferation and metastasis

Lin, C. W., Xie, J., Zhang, D., Han, K. H., Grande, G., Wu, N. C., Yang, Z., Yea, K. & Lerner, R. A., Jan 7 2020, In : Proceedings of the National Academy of Sciences of the United States of America. 117, 1, p. 426-431 6 p.

Research output: Contribution to journalArticle

Open Access

Influenza hemagglutinin structures and antibody recognition

Wu, N. C. & Wilson, I. A., Aug 2020, In : Cold Spring Harbor perspectives in medicine. 10, 8, p. 1-20 20 p., a038778.

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Open Access

Isolation of potent SARS-CoV-2 neutralizing antibodies and protection from disease in a small animal model

Rogers, T. F., Zhao, F., Huang, D., Beutler, N., Burns, A., He, W. T., Limbo, O., Smith, C., Song, G., Woehl, J., Yang, L., Abbott, R. K., Callaghan, S., Garcia, E., Hurtado, J., Parren, M., Peng, L., Ramirez, S., Ricketts, J., Ricciardi, M. J. & 14 others, Rawlings, S. A., Wu, N. C., Yuan, M., Smith, D. M., Nemazee, D., Teijaro, J. R., Voss, J. E., Wilson, I. A., Andrabi, R., Briney, B., Landais, E., Sok, D., Jardine, J. G. & Burton, D. R., Aug 21 2020, In : Science (New York, N.Y.). 369, 6506, p. 956-963 8 p.

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Open Access

Major antigenic site B of human influenza H3N2 viruses has an evolving local fitness landscape

Wu, N. C., Otwinowski, J., Thompson, A. J., Nycholat, C. M., Nourmohammad, A. & Wilson, I. A., Mar 6 2020, In : Nature communications. 11, 1, 1233.

Research output: Contribution to journalArticle

Open Access

Recognition of the SARS-CoV-2 receptor binding domain by neutralizing antibodies

Yuan, M., Liu, H., Wu, N. C. & Wilson, I. A., Oct 10 2020, (Accepted/In press) In : Biochemical and Biophysical Research Communications.

Research output: Contribution to journalArticle

Open Access

Serological assays for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), March 2020

Perera, R. A. P. M., Mok, C. K. P., Tsang, O. T. Y., Lv, H., Ko, R. L. W., Wu, N. C., Yuan, M., Leung, W. S., Chan, J. M. C., Chik, T. S. H., Choi, C. Y. C., Leung, K., Chan, K. H., Chan, K. C. K., Li, K. C., Wu, J. T., Wilson, I. A., Monto, A. S., Poon, L. L. M. & Peiris, M., 2020, In : Eurosurveillance. 25, 16, p. 14-22 2000421.

Research output: Contribution to journalArticle

Open Access

Structural basis of a shared antibody response to SARS-CoV-2

Yuan, M., Liu, H., Wu, N. C., Lee, C. C. D., Zhu, X., Zhao, F., Huang, D., Yu, W., Hua, Y., Tien, H., Rogers, T. F., Landais, E., Sok, D., Jardine, J. G., Burton, D. R. & Wilson, I. A., Aug 28 2020, In : Science (New York, N.Y.). 369, 6507, p. 1119-1123 5 p.

Research output: Contribution to journalArticle

Open Access
2019

Bacterial glycosyltransferase-mediated cell-surface chemoenzymatic glycan modification

Hong, S., Shi, Y., Wu, N. C., Grande, G., Douthit, L., Wang, H., Zhou, W., Sharpless, K. B., Wilson, I. A., Xie, J. & Wu, P., Dec 1 2019, In : Nature communications. 10, 1, 1799.

Research output: Contribution to journalArticle

Open Access

Conformational Plasticity in the HIV-1 Fusion Peptide Facilitates Recognition by Broadly Neutralizing Antibodies

Yuan, M., Cottrell, C. A., Ozorowski, G., van Gils, M. J., Kumar, S., Wu, N. C., Sarkar, A., Torres, J. L., de Val, N., Copps, J., Moore, J. P., Sanders, R. W., Ward, A. B. & Wilson, I. A., Jun 12 2019, In : Cell Host and Microbe. 25, 6, p. 873-883.e5

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Open Access

Identification of Antibodies Targeting the H3N2 Hemagglutinin Receptor Binding Site following Vaccination of Humans

Zost, S. J., Lee, J., Gumina, M. E., Parkhouse, K., Henry, C., Wu, N. C., Lee, C. C. D., Wilson, I. A., Wilson, P. C., Bloom, J. D. & Hensley, S. E., Dec 24 2019, In : Cell Reports. 29, 13, p. 4460-4470.e8

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Open Access

Immunodominance and Antigenic Variation of Influenza Virus Hemagglutinin: Implications for Design of Universal Vaccine Immunogens

Zost, S. J., Wu, N. C., Hensley, S. E. & Wilson, I. A., Apr 8 2019, In : Journal of Infectious Diseases. 219, p. S38-S45

Research output: Contribution to journalArticle

MiCoP: Microbial community profiling method for detecting viral and fungal organisms in metagenomic samples

Lapierre, N., Mangul, S., Alser, M., Mandric, I., Wu, N. C., Koslicki, D. & Eskin, E., Jun 6 2019, In : BMC genomics. 20, 423.

Research output: Contribution to journalArticle

Open Access

Multistate design of influenza antibodies improves affinity and breadth against seasonal viruses

Sevy, A. M., Wu, N. C., Gilchuk, I. M., Parrish, E. H., Burger, S., Yousif, D., Nagel, M. B. M., Schey, K. L., Wilson, I. A., Crowe, J. E. & Meiler, J., Jan 29 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 5, p. 1597-1602 6 p.

Research output: Contribution to journalArticle

Open Access

Preventing an Antigenically Disruptive Mutation in Egg-Based H3N2 Seasonal Influenza Vaccines by Mutational Incompatibility

Wu, N. C., Lv, H., Thompson, A. J., Wu, D. C., Ng, W. W. S., Kadam, R. U., Lin, C. W., Nycholat, C. M., McBride, R., Liang, W., Paulson, J. C., Mok, C. K. P. & Wilson, I. A., Jun 12 2019, In : Cell Host and Microbe. 25, 6, p. 836-844.e5

Research output: Contribution to journalArticle

Open Access

The in vivo ISGylome links ISG15 to metabolic pathways and autophagy upon Listeria monocytogenes infection

Zhang, Y., Thery, F., Wu, N. C., Luhmann, E. K., Dussurget, O., Foecke, M., Bredow, C., Jiménez-Fernández, D., Leandro, K., Beling, A., Knobeloch, K. P., Impens, F., Cossart, P. & Radoshevich, L., Dec 1 2019, In : Nature communications. 10, 1, 5383.

Research output: Contribution to journalArticle

Open Access
2018

A complex epistatic network limits the mutational reversibility in the influenza hemagglutinin receptor-binding site

Wu, N. C., Thompson, A. J., Xie, J., Lin, C. W., Nycholat, C. M., Zhu, X., Lerner, R. A., Paulson, J. C. & Wilson, I. A., Dec 1 2018, In : Nature communications. 9, 1, 1264.

Research output: Contribution to journalArticle

Open Access

Clinical correlations of transcriptional profile in patients infected with avian influenza H7N9 virus

Guan, W., Yang, Z., Wu, N. C., Lee, H. H. Y., Li, Y., Jiang, W., Shen, L., Wu, D. C., Chen, R., Zhong, N., Wilson, I. A., Peiris, M. & Mok, C. K. P., Sep 8 2018, In : Journal of Infectious Diseases. 218, 8, p. 1238-1248 11 p.

Research output: Contribution to journalArticle

Open Access

Deep mutational scanning of hemagglutinin helps predict evolutionary fates of human H3N2 influenza variants

Lee, J. M., Huddleston, J., Doud, M. B., Hooper, K. A., Wu, N. C., Bedford, T. & Bloom, J. D., Aug 28 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 35, p. E8276-E8285

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Open Access

Fully human agonist antibodies to TrkB using autocrine cell-based selection from a combinatorial antibody library

Merkouris, S., Barde, Y. A., Binley, K. E., Allen, N. D., Stepanov, A. V., Wu, N. C., Grande, G., Lin, C. W., Li, M., Nan, X., Chacon-Fernandez, P., DiStefano, P. S., Lindsay, R. M., Lerner, R. A. & Xie, J., Jul 24 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 30, p. E7023-E7032

Research output: Contribution to journalArticle

Open Access

Genome-wide identification of interferon-sensitive mutations enables influenza vaccine design

Du, Y., Xin, L., Shi, Y., Zhang, T. H., Wu, N. C., Dai, L., Gong, D., Brar, G., Shu, S., Luo, J., Reiley, W., Tseng, Y. W., Bai, H., Wu, T. T., Wang, J., Shu, Y. & Sun, R., Jan 19 2018, In : Science. 359, 6373, p. 290-296 7 p.

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Open Access

Recurring and Adaptable Binding Motifs in Broadly Neutralizing Antibodies to Influenza Virus Are Encoded on the D3-9 Segment of the Ig Gene

Wu, N. C., Yamayoshi, S., Ito, M., Uraki, R., Kawaoka, Y. & Wilson, I. A., Oct 10 2018, In : Cell Host and Microbe. 24, 4, p. 569-578.e4

Research output: Contribution to journalArticle

Open Access

Structure-Activity Relationships in Metal-Binding Pharmacophores for Influenza Endonuclease

Credille, C. V., Dick, B. L., Morrison, C. N., Stokes, R. W., Adamek, R. N., Wu, N. C., Wilson, I. A. & Cohen, S. M., Nov 21 2018, In : Journal of Medicinal Chemistry. 61, 22, p. 10206-10217 12 p.

Research output: Contribution to journalArticle

2017

A Broadly Neutralizing Antibody Targets the Dynamic HIV Envelope Trimer Apex via a Long, Rigidified, and Anionic β-Hairpin Structure

Lee, J. H., Andrabi, R., Su, C. Y., Yasmeen, A., Julien, J. P., Kong, L., Wu, N. C., McBride, R., Sok, D., Pauthner, M., Cottrell, C. A., Nieusma, T., Blattner, C., Paulson, J. C., Klasse, P. J., Wilson, I. A., Burton, D. R. & Ward, A. B., Apr 18 2017, In : Immunity. 46, 4, p. 690-702 13 p.

Research output: Contribution to journalArticle

Open Access

Antibody 27F3 Broadly Targets Influenza A Group 1 and 2 Hemagglutinins through a Further Variation in VH1-69 Antibody Orientation on the HA Stem

Lang, S., Xie, J., Zhu, X., Wu, N. C., Lerner, R. A. & Wilson, I. A., Sep 19 2017, In : Cell Reports. 20, 12, p. 2935-2943 9 p.

Research output: Contribution to journalArticle

Open Access

A structural explanation for the low effectiveness of the seasonal influenza H3N2 vaccine

Wu, N. C., Zost, S. J., Thompson, A. J., Oyen, D., Nycholat, C. M., McBride, R., Paulson, J. C., Hensley, S. E. & Wilson, I. A., Oct 2017, In : PLoS pathogens. 13, 10, e1006682.

Research output: Contribution to journalArticle

Open Access

Diversity of Functionally Permissive Sequences in the Receptor-Binding Site of Influenza Hemagglutinin

Wu, N. C., Xie, J., Zheng, T., Nycholat, C. M., Grande, G., Paulson, J. C., Lerner, R. A. & Wilson, I. A., Jun 14 2017, In : Cell Host and Microbe. 21, 6, p. 742-753.e8

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Open Access

Immunochemical engineering of cell surfaces to generate virus resistance

Xie, J., Sok, D., Wu, N. C., Zheng, T., Zhang, W., Burton, D. R. & Lerner, R. A., May 2 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 18, p. 4655-4660 6 p.

Research output: Contribution to journalArticle

Open Access

In vitro evolution of an influenza broadly neutralizing antibody is modulated by hemagglutinin receptor specificity

Wu, N. C., Grande, G., Turner, H. L., Ward, A. B., Xie, J., Lerner, R. A. & Wilson, I. A., May 15 2017, In : Nature communications. 8, 15371.

Research output: Contribution to journalArticle

Open Access

Long Single-Molecule Reads Can Resolve the Complexity of the Influenza Virus Composed of Rare, Closely Related Mutant Variants

Artyomenko, A., Wu, N. C., Mangul, S., Eskin, E., Sun, R. & Zelikovsky, A., Jun 2017, In : Journal of Computational Biology. 24, 6, p. 558-570 13 p.

Research output: Contribution to journalArticle

Quantifying perinatal transmission of Hepatitis B viral quasispecies by tag linkage deep sequencing

Du, Y., Chi, X., Wang, C., Jiang, J., Kong, F., Yan, H., Wang, X., Li, J., Wu, N. C., Dai, L., Zhang, T. H., Shu, S., Zhou, J., Yoshizawa, J. M., Li, X., Bhattacharya, D., Wu, T. T., Niu, J. & Sun, R., Dec 1 2017, In : Scientific reports. 7, 1, 10168.

Research output: Contribution to journalArticle

Open Access

Structure-based optimization and synthesis of antiviral drug Arbidol analogues with significantly improved affinity to influenza hemagglutinin

Wright, Z. V. F., Wu, N. C., Kadam, R. U., Wilson, I. A. & Wolan, D. W., 2017, In : Bioorganic and Medicinal Chemistry Letters. 27, 16, p. 3744-3748 5 p.

Research output: Contribution to journalArticle

Systematic identification of anti-interferon function on hepatitis C virus genome reveals p7 as an immune evasion protein

Qi, H., Chu, V., Wu, N. C., Chen, Z., Truong, S., Brar, G., Su, S. Y., Du, Y., Arumugaswami, V., Olson, C. A., Chen, S. H., Lin, C. Y., Wu, T. T. & Sun, R., Feb 21 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 8, p. 2018-2023 6 p.

Research output: Contribution to journalArticle

Open Access
2016

A benchmark study on error-correction by read-pairing and tag-clustering in amplicon-based deep sequencing

Zhang, T. H., Wu, N. C. & Sun, R., Feb 12 2016, In : BMC genomics. 17, 1, 108.

Research output: Contribution to journalArticle

Open Access

Adaptation in protein fitness landscapes is facilitated by indirect paths

Wu, N. C., Dai, L., Olson, C. A., Lloyd-Smith, J. O. & Sun, R., Jul 8 2016, In : eLife. 5, JULY, e16965.

Research output: Contribution to journalArticle

Open Access

Annotating protein functional residues by coupling high-throughput fitness profile and homologous-structure analysis

Du, Y., Wu, N. C., Jiang, L., Zhang, T., Gong, D., Shu, S., Wu, T. T. & Sun, R., 2016, In : mBio. 7, 6, e01801-16.

Research output: Contribution to journalArticle

Open Access

Coupling high-throughput genetics with phylogenetic information reveals an epistatic interaction on the influenza A virus M segment

Wu, N. C., Du, Y., Le, S., Young, A. P., Zhang, T. H., Wang, Y., Zhou, J., Yoshizawa, J. M., Dong, L., Li, X., Wu, T. T. & Sun, R., Jan 12 2016, In : BMC genomics. 17, 1, 46.

Research output: Contribution to journalArticle

Open Access

High-throughput identification of protein mutant stability computed from a double mutant fitness landscape

Wu, N. C., Olson, C. A. & Sun, R., Feb 1 2016, In : Protein Science. 25, 2, p. 530-539 10 p.

Research output: Contribution to journalArticle

Open Access
2015

Functional Constraint Profiling of a Viral Protein Reveals Discordance of Evolutionary Conservation and Functionality

Wu, N. C., Olson, C. A., Du, Y., Le, S., Tran, K., Remenyi, R., Gong, D., Al-Mawsawi, L. Q., Qi, H., Wu, T. T. & Sun, R., Jul 1 2015, In : PLoS genetics. 11, 7, e1005310.

Research output: Contribution to journalArticle

Open Access

Limiting Cholesterol Biosynthetic Flux Spontaneously Engages Type i IFN Signaling

York, A. G., Williams, K. J., Argus, J. P., Zhou, Q. D., Brar, G., Vergnes, L., Gray, E. E., Zhen, A., Wu, N. C., Yamada, D. H., Cunningham, C. R., Tarling, E. J., Wilks, M. Q., Casero, D., Gray, D. H., Yu, A. K., Wang, E. S., Brooks, D. G., Sun, R., Kitchen, S. G. & 4 others, Wu, T. T., Reue, K., Stetson, D. B. & Bensinger, S. J., Dec 17 2015, In : Cell. 163, 7, p. 1716-1729 14 p.

Research output: Contribution to journalArticle

Open Access
2014

Accurate viral population assembly from ultra-deep sequencing data

Mangul, S., Wu, N. C., Mancuso, N., Zelikovsky, A., Sun, R. & Eskin, E., Jun 15 2014, In : Bioinformatics. 30, 12, p. I329-I337

Research output: Contribution to journalArticle

Open Access

A comprehensive biophysical description of pairwise epistasis throughout an entire protein domain

Olson, C. A., Wu, N. C. & Sun, R., 2014, In : Current Biology. 24, 22, p. 2643-2651 9 p.

Research output: Contribution to journalArticle

Open Access

A comprehensive functional map of the hepatitis C virus genome provides a resource for probing viral proteins

Remenyi, R., Qi, H., Su, S. Y., Chen, Z., Wu, N. C., Arumugaswami, V., Truong, S., Chu, V., Stokelman, T., Lo, H. H., Anders Olson, C., Wu, T. T., Chen, S. H., Lin, C. Y. & Sun, R., Sep 30 2014, In : mBio. 5, 5, e01469-14.

Research output: Contribution to journalArticle

Open Access