Brian Pierce headshot
Contact Info
Office: 1107D, Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville MD
Personal webpage
Brian Pierce
Associate Professor

Teaching

  • Bioinformatics and Integrated Genomics (BSCI411)
  • Computational Structural Biology (CBMG688G)

Graduate Program Affiliations

  • BISI-Computational Biology, Bioinformatics, & Genomics (CBBG)
  • BISI-Molecular & Cellular Biology (MOCB)

Research Interests

Computational Structural Biology, Immune Recognition and Structure-Based Vaccine Design

Education

  • Ph.D., Bioinformatics, Boston University, 2008
  • B.S., Physics and Computer Science, Duke University, 2000

All Publications

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Latest Publications

Sajadi MM,Abbasi A,Tehrani ZR,Siska C,Clark R,Chi W,Seaman MS,Mielke D,Wagh K,Liu Q,Jumpa T,Ketchem RR,Nguyen DN,Tolbert WD,Pierce BG,Atkinson B,Deming D,Sprague M,Asakawa A,Ferrer D,Dunn Y,Calvillo S,Yin R,Guest JD,Korber B,Mayer BT,Sato AH,Ouyang X,Foulke S,Habibzadeh P,Karimi M,Aslanabadi A,Hojabri M,Saadat S,Zareidoodeji R,Kędzior M,Pozharski E,Heredia A,Montefiori D,Ferrari G,Pazgier M,Lewis GK,Jardine JG,Lusso P,DeVico A
A comprehensive engineering strategy improves potency and manufacturability of a near pan-neutralizing antibody against HIV.
bioRxiv. 2024 Oct 17;:. pii: 2024.10.14.618178. doi: 10.1101/2024.10.14.618178. Epub 2024 Oct 17
Ribeiro-Filho HV,Jara GE,Guerra JVS,Cheung M,Felbinger NR,Pereira JGC,Pierce BG,Lopes-de-Oliveira PS
Exploring the potential of structure-based deep learning approaches for T cell receptor design.
PLoS Comput Biol. 2024 Sep;20(9):e1012489. doi: 10.1371/journal.pcbi.1012489. Epub 2024 Sep 30
Lin V,Cheung M,Gowthaman R,Eisenberg M,Baker BM,Pierce BG
TCR3d 2.0: expanding the T cell receptor structure database with new structures, tools and interactions.
Nucleic Acids Res. 2024 Sep 26;:. pii: gkae840. doi: 10.1093/nar/gkae840. Epub 2024 Sep 26
Reinstein ZZ,Zhang Y,Ospina OE,Nichols MD,Chu VA,Pulido AM,Prieto K,Nguyen JV,Yin R,Moran Segura C,Usman A,Sell B,Ng S,de la Iglesia JV,Chandra S,Sosman JA,Cho RJ,Cheng JB,Ivanova E,Koralov SB,Slebos RJC,Chung CH,Khushalani NI,Messina JL,Sarnaik AA,Zager JS,Sondak VK,Vaske C,Kim S,Brohl AS,Mi X,Pierce BG,Wang X,Fridley BL,Tsai KY,Choi J
Preexisting Skin-Resident CD8 and γδ T-cell Circuits Mediate Immune Response in Merkel Cell Carcinoma and Predict Immunotherapy Efficacy.
Cancer Discov. 2024 Sep 4;14(9):1631-1652. doi: 10.1158/2159-8290.CD-23-0798. Epub
Felbinger N,Ribeiro-Filho HV,Pierce BG
Proscan: a structure-based proline design web server.
Nucleic Acids Res. 2024 Jul 5;52(W1):W280-W286. doi: 10.1093/nar/gkae408. Epub
Wu D,Yin R,Chen G,Ribeiro-Filho HV,Cheung M,Robbins PF,Mariuzza RA,Pierce BG
Structural characterization and AlphaFold modeling of human T cell receptor recognition of NRAS cancer neoantigens.
bioRxiv. 2024 May 23;:. pii: 2024.05.21.595215. doi: 10.1101/2024.05.21.595215. Epub 2024 May 23
Pierce BG,Felbinger N,Metcalf M,Toth EA,Ofek G,Fuerst TR
Hepatitis C Virus E1E2 Structure, Diversity, and Implications for Vaccine Development.
Viruses. 2024 May 18;16(5):. doi: 10.3390/v16050803. Epub 2024 May 18
Ribeiro-Filho HV,Jara GE,Guerra JVS,Cheung M,Felbinger NR,Pereira JGC,Pierce BG,Lopes-de-Oliveira PS
Exploring the Potential of Structure-Based Deep Learning Approaches for T cell Receptor Design.
bioRxiv. 2024 Apr 24;:. pii: 2024.04.19.590222. doi: 10.1101/2024.04.19.590222. Epub 2024 Apr 24
Azzam T,Du JJ,Flowers MW,Ali AV,Hunn JC,Vijayvargiya N,Knagaram R,Bogacz M,Maravillas KE,Sastre DE,Fields JK,Mirzaei A,Pierce BG,Sundberg EJ
Combinatorially restricted computational design of protein-protein interfaces to produce IgG heterodimers.
Sci Adv. 2024 Apr 12;10(15):eadk8157. doi: 10.1126/sciadv.adk8157. Epub 2024 Apr 10
Yin R,Pierce BG
Evaluation of AlphaFold antibody-antigen modeling with implications for improving predictive accuracy.
Protein Sci. 2024 Jan;33(1):e4865. doi: 10.1002/pro.4865. Epub
Dey D,Qing E,He Y,Chen Y,Jennings B,Cohn W,Singh S,Gakhar L,Schnicker NJ,Pierce BG,Whitelegge JP,Doray B,Orban J,Gallagher T,Hasan SS
A single C-terminal residue controls SARS-CoV-2 spike trafficking and incorporation into VLPs.
Nat Commun. 2023 Dec 15;14(1):8358. doi: 10.1038/s41467-023-44076-3. Epub 2023 Dec 15
Lensink MF,Brysbaert G,Raouraoua N,Bates PA,Giulini M,Honorato RV,van Noort C,Teixeira JMC,Bonvin AMJJ,Kong R,Shi H,Lu X,Chang S,Liu J,Guo Z,Chen X,Morehead A,Roy RS,Wu T,Giri N,Quadir F,Chen C,Cheng J,Del Carpio CA,Ichiishi E,Rodriguez-Lumbreras LA,Fernandez-Recio J,Harmalkar A,Chu LS,Canner S,Smanta R,Gray JJ,Li H,Lin P,He J,Tao H,Huang SY,Roel-Touris J,Jimenez-Garcia B,Christoffer CW,Jain AJ,Kagaya Y,Kannan H,Nakamura T,Terashi G,Verburgt JC,Zhang Y,Zhang Z,Fujuta H,Sekijima M,Kihara D,Khan O,Kotelnikov S,Ghani U,Padhorny D,Beglov D,Vajda S,Kozakov D,Negi SS,Ricciardelli T,Barradas-Bautista D,Cao Z,Chawla M,Cavallo L,Oliva R,Yin R,Cheung M,Guest JD,Lee J,Pierce BG,Shor B,Cohen T,Halfon M,Schneidman-Duhovny D,Zhu S,Yin R,Sun Y,Shen Y,Maszota-Zieleniak M,Bojarski KK,Lubecka EA,Marcisz M,Danielsson A,Dziadek L,Gaardlos M,Gieldon A,Liwo A,Samsonov SA,Slusarz R,Zieba K,Sieradzan AK,Czaplewski C,Kobayashi S,Miyakawa Y,Kiyota Y,Takeda-Shitaka M,Olechnovic K,Valancauskas L,Dapkunas J,Venclovas C,Wallner B,Yang L,Hou C,He X,Guo S,Jiang S,Ma X,Duan R,Qui L,Xu X,Zou X,Velankar S,Wodak SJ
Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment.
Proteins. 2023 Dec;91(12):1658-1683. doi: 10.1002/prot.26609. Epub 2023 Oct 31
Mariuzza RA,Wu D,Pierce BG
Structural basis for T cell recognition of cancer neoantigens and implications for predicting neoepitope immunogenicity.
Front Immunol. 2023;14:1303304. doi: 10.3389/fimmu.2023.1303304. Epub 2023 Nov 17
Choy C,Chen J,Li J,Gallagher DT,Lu J,Wu D,Zou A,Hemani H,Baptiste BA,Wichmann E,Yang Q,Ciffelo J,Yin R,McKelvy J,Melvin D,Wallace T,Dunn C,Nguyen C,Chia CW,Fan J,Ruffolo J,Zukley L,Shi G,Amano T,An Y,Meirelles O,Wu WW,Chou CK,Shen RF,Willis RA,Ko MSH,Liu YT,De S,Pierce BG,Ferrucci L,Egan J,Mariuzza R,Weng NP
SARS-CoV-2 infection establishes a stable and age-independent CD8(+) T cell response against a dominant nucleocapsid epitope using restricted T cell receptors.
Nat Commun. 2023 Oct 23;14(1):6725. doi: 10.1038/s41467-023-42430-z. Epub 2023 Oct 23
Yin R,Pierce BG
Evaluation of AlphaFold Antibody-Antigen Modeling with Implications for Improving Predictive Accuracy.
bioRxiv. 2023 Jul 21;:. pii: 2023.07.05.547832. doi: 10.1101/2023.07.05.547832. Epub 2023 Jul 21
Metcalf MC,Janus BM,Yin R,Wang R,Guest JD,Pozharski E,Law M,Mariuzza RA,Toth EA,Pierce BG,Fuerst TR,Ofek G
Structure of engineered hepatitis C virus E1E2 ectodomain in complex with neutralizing antibodies.
Nat Commun. 2023 Jul 5;14(1):3980. doi: 10.1038/s41467-023-39659-z. Epub 2023 Jul 5
Yin R,Ribeiro-Filho HV,Lin V,Gowthaman R,Cheung M,Pierce BG
TCRmodel2: high-resolution modeling of T cell receptor recognition using deep learning.
Nucleic Acids Res. 2023 Jul 5;51(W1):W569-W576. doi: 10.1093/nar/gkad356. Epub
Wu D,Efimov GA,Bogolyubova AV,Pierce BG,Mariuzza RA
Structural insights into protection against a SARS-CoV-2 spike variant by T cell receptor diversity.
J Biol Chem. 2023 Apr;299(4):103035. doi: 10.1016/j.jbc.2023.103035. Epub 2023 Feb 17
Li Q,Humphries F,Girardin RC,Wallace A,Ejemel M,Amcheslavsky A,McMahon CT,Schiller ZA,Ma Z,Cruz J,Dupuis AP,Payne AF,Maryam A,Yilmaz NK,McDonough KA,Pierce BG,Schiffer CA,Kruse AC,Klempner MS,Cavacini LA,Fitzgerald KA,Wang Y
Mucosal nanobody IgA as inhalable and affordable prophylactic and therapeutic treatment against SARS-CoV-2 and emerging variants.
Front Immunol. 2022;13:995412. doi: 10.3389/fimmu.2022.995412. Epub 2022 Sep 12
Yin R,Feng BY,Varshney A,Pierce BG
Benchmarking AlphaFold for protein complex modeling reveals accuracy determinants.
Protein Sci. 2022 Aug;31(8):e4379. doi: 10.1002/pro.4379. Epub