Pennsylvania


Publications
45. Zhao P., Mondal S., Martin C., DuPlissis A., Chizari S., Ma K.Y, Zemelman B.V., Messing R.O., Jiang N., Ben-Yakar A., “Femtosecond laser microdissection for isolation of regenerating C. elegans neurons for single-cell RNA sequencing”, Nature Method, 2023 Apr;20(4):590-599. doi: 10.1038/s41592-023-01804-3
44. Campisi L., Chizari S., Gromova A., Arnold F., Mosca L., Mei X., Fstkchyan Y., Beharry, C., Ho J. S. Y., Korobeynikov V., Prazich J., Bennet C., Ostrow L. W., Lunetta C., Shneider N. A., Jiang N., La Spada A., Marazzi I., “Clonally expanded CD8 T cells characterize Amyotrophic Lateral Sclerosis 4”, Nature, 2022 Jun;606(7916):945-952. doi: 10.1038/s41586-022-04844-5 PMID: 35732742
43. He C*., Malone, M.J.*, Wendel B.S., Ma K.Y., Del Alcazar D., Weiner D.B., De Jager, P.L., Del Rio-Estrada P.M., Ablando-Terrazas Y., Reyes-Teran G., Su L.F., Jiang N., “Transcriptome and TCR Repertoire Measurements of CXCR3+ T Follicular Helper Cells Within HIV-Infected Human Lymph Nodes”, Frontiers in Immunology, 2022, May 06, Sec. Systems Immunology. doi: 10.3389/fimmu.2022.859070 *These authors contributed equally. PMID: 35619703, PMCID: PMC9128546
42. Bhusal P., Alam M., Chen K, Jiang N. and Xiao J., “Scalable Sequence Clustering for Large-Scale Immune Repertoire Analysis”, 2021 IEEE International Conference on Big Data (Big Data), 2021, pp. 1349-1358, doi: 10.1109/BigData52589.2021.9671320
41. Ma K.Y., Schonnesen A.A., He C., Xia A.Y., Sun E., Chen E., Sebastian K.R., Guo Y.W., Balderas R., Kulkarni-Date M., Jiang N., “High-Throughput and High-Dimensional Single Cell Analysis of Antigen-Specific CD8+ T cells”, Nature Immunology, 2021 Dec;22(12):1590-1598. doi: 10.1038/s41590-021-01073-2 PMID: 34811538, PMCID: PMC9184244
40. Song Q, Ando, A, Jiang N., Ikeda Y., Chen J.Z., “Single-cell RNA-seq analysis reveals ploidy-dependent and cell-specific transcriptome changes in Arabidopsis female gametophytes”, Genome Biol., 22020 Jul 22;21(1):178.
pdf
39. Wendel B.S., Fu Y., He C., Hernandez S.M., Qu M., Zhang Z., Jiang Y., Han X., Xu J., Ding H., Fu S., Jiang N.*, Shang H.*, “Rapid HIV progression is associated with extensive ongoing somatic hypermutation”, J. Immunol., 2020 Aug 1; 205(3): 587–594. *co-correspondence.
pdf
38. Zhu K, He C., Liu S.-Q., Qu M., Yang X., Lei L., Zhou X., Shi L., Zhang D., Cheng Y., Sun Y., Zheng H., Shen X., Li Q.-J., Jiang N., Zhang B., “Lineage tracking the generation of T regulatory cells from microbial activated T effector cells in naïve mice”, Frontiers in Immunology, 2019; 10: 3109.
pdf
37. Zheng M., Zhang X., Zhou Y., Tang J., Han Q., Zhang Y., Ni Q., Chen G., Jia Q., Yu H., Liu S., Robins E., Jiang N., Wan Y., Li Q.J., Chen Z.N., Zhu P., "TCR repertoire and CDR3 motif analyses depict the role of αβ T cells in Ankylosing spondylitis", EBioMedicine, 2019 Sep;47:414-426
pdf
36. Del Alcazar D., Wang Y., He C., Wendel B.S., Del Rio-Estrada P.M., Lin J., Ablanedo-Terrazas Y., Malone M.J., Hernandez S.M., Frank I., Naji A., Reyes-Teran G., Jiang N., Su L.F., "Mapping the Lineage Relationship between CXCR5+ and CXCR5− CD4+ T Cells in HIV-Infected Human Lymph Nodes", Cell Rep., 2019 Sep 17;28(12):3047-3060.e7.

pdf
35. Moreno A.M., Palmer N., Aleman F., Chen G., Pla A., Jiang N., Chew W.L., Law M., Mali P., "Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy", Nat. Biomed. Eng.,2019, Oct;3(10):806-816
pdf
34. Ma K.Y., Schonnesen A.A., Brock A., Van Den Berg C., Eckhardt S.G., Liu Z., Jiang N., "Single Cell RNA Sequencing of Lung Adenocarcinoma Reveals Heterogeneity of Immune Response-related Genes", JCI Insight,2019;4(4):e121387.
pdf
33. Jiang N., Schonnesen A., Ma K.Y., "Ushering in Integrated T Cell Repertoire Profiling in Cancer", Trends in Cancer,Feb;5(2):85-94.
pdf
32. Singarapu N., Ma K.Y., Reeh K., Shen J., Lancaster J., Yi S., Xie H., Orkin S., Manley N., Ehrlich L., Jiang N., Richie E., "Polycomb Repressive Complex 2 is essential for development and maintenance of a functional TEC compartment", Scientific Report,2018 Sep 25;8(1):14335.
pdf
31. Zhang S.Q., Ma K.Y., Schonnesen A., Zhang M., He C., Sun E., Williams C., Jia W.*, Jiang N.*, "High-throughput determination of the antigen specificities of T cell receptors in single cells", Nature Biotechnology,2018 Nov 12.
pdf
30. Ben S. Wendel, Daniel Del Alcazar, Chenfeng He, Perla M. Del Rio-Estrada, Benjamas Aiamkitsumrit, Yuria Ablanedo-Terrazas, Stefany M. Hernandez, Ke-Yue Ma, Michael Betts, Laura Pulido, Jun Huang, Phyllis A. Gimotty, Gustavo Reyes-Teran, Jiang N.*, Laura F. Su*, "The receptor repertoire and functional profile of follicular T cells in HIV-infected lymph nodes." Science Immunology, 06 Apr 2018, Vol. 3, Issue 22, eaan8884,* co-correspondence
pdf
29. Ma K.Y., He C., Wendel B.S., Williams C.M., Xiao J., Yang H., Jiang N., "Immune Repertoire Sequencing using Molecular Identifiers Enables Accurate Clonality Discovery and Clone Size Quantification." Frontiers in Immunology, doi: 10.3389/fimmu.2018.00033
pdf
28. Rubelt F., Busse C.E., Bukhari S.A.C., Burckert J.P., Mariotti-Ferrandiz E., Cowell L.G., Watson C.T., Marthandan N., Faison W.J., Hershberg U., Laserson U., Corrie B.D., Davis M.M., Peters B., Lefranc M.P., Scott J.K., Breden F., The AIRR Community, Luning Prak E.T., Kleinstein, S.H., "Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data", Nature Immunology, 2017
27. He C., Wendel B.S., Xiao J., Chen K., Jiang N., "COLT-Viz: Interactive Visualization of Antibody Lineage Trees", BioRxiv, 2017. doi: https://doi.org/10.1101/219592
26. Wendel B.S., He C., Crompton P.D., Pierce S.K.,Jiang N., "A streamlined approach to antibody novel germline allele prediction and validation". Frontiers in Immunology, 2017 Sep 04; Doi.org/10.3389/fimmu.2017.01072. PMID: 28928742 PMCID: PMC5591497
pdf
25. Wendel B. S., He C., Qu M., Wu D., Hernandez S.M., Ma K.Y., Liu E., Xiao J., Crompton P.D., Pierce S.K., Ren P., Chen K.,Jiang N., "Accurate Immune Repertoire Sequencing Reveals Malaria Infection Driven Antibody Lineage Diversification in Young Children". Nat. Commun., 2017 Sep 14;8(1):531. doi: 10.1038/s41467-017-00645-x. PMID: 28912592
pdf
24. Williams C., Schonnesen A., Zhang S.Q., Ma K.Y., He C., Yamamoto T., Eckhardt S.G., Klebanoff C.A.,Jiang N., "Normalized synergy predicts that CD8 co-receptor contribution to TCR and pMHC binding decreases as TCR affinity increases in human viral-specific T cells". Frontiers in Immunology, 2017 Jul 28;8:894. PMID: 28804489 PMCID: PMC5532383
pdf
23. Liu C., Obliosca J.M., Liu Y.- L., Chen Y.- A.,Jiang N., Hsin-Chih Yeh, "3D single-molecule tracking enables direct hybridization kinetics measurement in solution". Nanoscale, 2017, 9, 5664.
22. Jiang N., "Immune engineering: from systems immunology to engineering immunity". Proceedings of Current Opinion in Biomedical Engineeringe, 2017, 1, 54-62.
pdf
21. Jiang N., Chen W., Jothikumar P., Patel J.M., Shashidharamurthy R., Selvaraj P., Zhu C., "Effects of anchor structure and glycosylation of Fcγ receptor III on ligand binding affinity". Proceedings of Mol. Biol. Cell, 2016, Nov 7; 27(22); 3449-3458.
pdf
20. Chen K., Gogu V., Wu D., Jiang N., "COLT: Constrained Lineage Tree Generation from Sequence Data". Proceedings of IEEE International Conference on Bioinformatics and Biomedicine, 2016.
pdf
19. Hart G.T., Akkaya M., Chida A.S., Wei C., Jenks S.A., Tipton C., He C., Wendel B.S., Skinner J., Keyentao K., Ongoiba A., Doumbo O., Traore B., Narum D.L., Jiang N., Crompton P.D., Sanz I., Pierce S.K., "The regulation of inherently autoreactive VH4-34-expressing B cells in individuals living in a malaria endemic area of West Africa", J. Immunol., 2016 Nov 15;197(10):3841-3849. PMID: 27798155 PMCID: PMC5113821
pdf
18. Zhang S., Parker P., Ma K., He C., Shi Q., Cui Z., Williams C., Wendel B.S., Meriwether A., Salazar M.A., Jiang N., "Direct measurement of T cell receptor affinity and sequence from naive antiviral T cells", Sci. Transl. Med., 01 Jun 2016: Vol. 8, Issue 341, pp. 341ra77.
pdf
17. Liu C., Liu Y.-L., Perillo E. P., Jiang N., Dunn A. K., Yeh H.-C., "Improving z-tracking accuracy in the two-photon single-particle tracking microscope", Appl. Phys. Lett, 107, 153701 (2015); doi: 10.1063/1.4932224
pdf
16. Jia Q., Zhou J., Chen G., Shi Y., Yu H., Guan P., Lin R., Jiang N., Yu P., Li Q.J., Wan Y., "Diversity Index of Mucosal Resident T Lymphocyte Repertoire Predicts Clinical Prognosis in Gastric Cancer", OncoImmunology, 2015 Jan 22;4(4):e1001230. eCollection 2015. PMID: 26137399 PMCID: PMC4485732
pdf
15. Wong Y., Jiang N., Ebert P., Kidd B.A., Muller S., Lund P.J., Juang J., Adachi K., Tse T., Birnbaum M.E., Newell E.W., Wilson, D.M., Grotenbreg G.M., Valitutti S., Quake S.R., Davis M.M., "Clonal Deletion Prunes, but does not Eliminate Self-Specific αβ CD8+ T Lymphocytes". Immunity, 2015 May 19;42(5):929-941. PMID: 25992863 PMC: 4455602
pdf
14. Jiang N., Zhang S., Ma K., "An ID Card for T cells". Nat Biotechnol., 2014 Jul;32(7):639-40. PMID: 25004230
pdf
13. Li J., Wu D., Jiang N., Zhuang Y., "Combined deletion of Id2 and Id3 genes reveals multiple roles for E proteins in invariant NKT cell development and expansion". J. Immunol., 2013 Nov 15;191(10):5052-64. PMID: 24123680 PMC3837387.
pdf
12. Zhang Y., Jiang N., Klopocki A.G., McEver R.P., Zhu C., "P-selectin glycoprotein ligand-1 forms dimeric interactions with E-selectin but monomeric interactions with L-selectin on cell surfaces". PLOS ONE, 2013;8(2):e57202. Epub 2013 Feb 25. PMID:  23451187  PMCID:  PMC3581448.
11.

Jiang N., He J., Weinstein J.A., Penland L., Sasaki S., He X.S., Dekker C.L., Zheng N.Y., Huang M., Sullivan M., Wilson P.C., Greenberg H.B., Davis M.M., Fisher D.S., Quake S.R., "Lineage Structure of the Human Antibody Repertoire in Response to Influenza Vaccination". Science Translational Medicine, 2013, 5, 171ra19.

Discussed by Dr. Francis Collins in his NIH Director's blog, http://directorsblog.nih.gov/taking-a-snapshot-of-the-human-immune-system/#more-538

Reported by a Brazilian newspaper - Correio Braziliense

News report by The Doctor Will See You Now

http://www.thedoctorwillseeyounow.com/content/public_health/art3961.html

pdf
10. Zhu C., Jiang N., Huang J., Zarnitsyna V.I., Evavold B.D., "Insights from in situ analysis of TCR-pMHC recognition: Response of an interaction network". Immunological Review, 2013 Jan;251(1):49-64.
pdf
9. Jiang N., Weinstein J.A., Penland L., White R.A. III, Fisher D.S., Quake S.R., "Determinism and stochasticity during maturation of the zebrafish antibody repertoire". Proc Natl Acad Sci U S A., 2011 Mar 29;108(13):5348-53.
pdf
8. Jiang N., Huang J., Edwards L.J., Zhang Y., Liu B., Beal C.D., Evavold B.D., Zhu C., "Two-stage cooperative T cell receptor-peptide major histocompatibility complex-CD8 trimolecular interactions amplify antigen discrimination". Immunity, 2011 Jan 28;34(1):13-23.
pdf

Faculty of 1000, scored 10 "Exceptional", http://f1000.com/8208956 See Preview by P. Anton van der Merwe1 and Shaun-Paul Cordoba, "Late Arrival: Recruiting Coreceptors to the T Cell Receptor Complex", Immunity, 2011 Jan 28:34(1):1-3
pdf
7. Huang J., Zarnitsyna V.I., Liu B., Edwards L.J., Jiang N., Evavold BD, Zhu C., "The kinetics of two-dimensional TCR and pMHC interactions determine T-cell responsiveness", Nature, 2010; 464(7290):932-6.
6. Kim J.V., Jiang N., Tadokoro C.E., Liu L., Ransohoff R.M., Lafaille J.J., Dustin M.L., "Two-photon laser scanning microscopy imaging of intact spinal cord and cerebral cortex reveals requirement for CXCR6 and neuroinflammation in immune cell infiltration of cortical injury sites", J. Immunol. Methods 2010; 352(1-2):89-100.
5. Weinstein J.A. *, Jiang N. *, White R.A. III, Fisher D.S., Quake S.R., "High-throughput Sequencing of the Zebrafish Antibody Repertoire", Science, 2009; 324(5928):807-10.
* These authors contributed equally.
pdf
4. Wasserman, H.A., Beal C.D., Zhang, Y., Jiang, N., Zhu, C., Evavold, B.D. "MHC variant peptide-mediated anergy of encephalitogenic T cells requires SHP-1", J. Immunol., 2008;181(10):6843-6849.
3. Chien, Y., Jiang, N., Li, F., Zhang, F., Zhu, C., Leckband, D. "Two Stage Cadherin Kinetics Require Multiple Extracellular Domains but Not the Cytoplasmic Region", J. Biol. Chem., 2008; 283: 1848-1856.
2. Li, P.*, Jiang, N.*, Nagarajan, S., Wohlhueter, R., Selvaraj, P., Zhu, C. "Affinity and Kinetic Analysis of Fc? Receptor IIIa (CD16a) Binding to IgG Ligands", J. Biol. Chem., 2007; 282: 6210-6221.
* These authors contributed equally.
1. Long, M., Chen, J., Jiang, N., Selvaraj, P., McEver, R.P., Zhu, C. "Probabilistic Modeling of Rosette Formation", Biophys. J., 2006; 91: 352-363.