Author details

Full Name

Cinque Soto

Affiliation

ORCID

Career Start Year

2002

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37647360	Immunosequencing and Profiling of T Cells at the Maternal-Fetal Interface of Women with Preterm Labor and Chronic Chorioamnionitis.		2023
34967699	Rapid discovery of diverse neutralizing SARS-CoV-2 antibodies from large-scale synthetic phage libraries.	MAbs	2022
35622335	Bulk Sequencing from mRNA with UMI for Evaluation of B-Cell Isotype and Clonal Evolution: A Method by the AIRR Community.	Methods in Molecular Biology	2022
35622331	AIRR Community Guide to Planning and Performing AIRR-Seq Experiments.	Methods in Molecular Biology	2022
35676279	Computational identification of HCV neutralizing antibodies with a common HCDR3 disulfide bond motif in the antibody repertoires of infected individuals.	Nat Commun	2022
33325481	ClonoMatch: a tool for identifying homologous immunoglobulin and T-cell receptor sequences in large databases.	Bioinformatics	2021
34037521	Biological controls for standardization and interpretation of adaptive immune receptor repertoire profiling.	Elife	2021
32668251	High Frequency of Shared Clonotypes in Human T Cell Receptor Repertoires.	Cell Rep	2020
32397786	Human-likeness of antibody biologics determined by back-translation and comparison with large antibody variable gene repertoires.	MAbs	2020
32747832	Integrated pipeline for the accelerated discovery of antiviral antibody therapeutics.	Nat Biomed Eng	2020
32634163	Diverse patterns of antibody variable gene repertoire disruption in patients with amyloid light chain (AL) amyloidosis.	PLoS One	2020
32677886	PyIR: a scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST.	BMC Bioinformatics	2020
31004012	Prolonged evolution of the memory B cell response induced by a replicating adenovirus-influenza H5 vaccine.	Sci Immunol	2019
31801472	Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures.	BMC Bioinformatics	2019
31641091	Human VH1-69 Gene-Encoded Human Monoclonal Antibodies against Staphylococcus aureus IsdB Use at Least Three Distinct Modes of Binding To Inhibit Bacterial Growth and Pathogenesis.	mBio	2019
31640540	Glycosylator: a Python framework for the rapid modeling of glycans.	BMC Bioinformatics	2019
30760926	High frequency of shared clonotypes in human B cell receptor repertoires.	Nature	2019
30420516	Role of humoral immunity against hepatitis B virus core antigen in the pathogenesis of acute liver failure.	Proceedings of the National Academy of Sciences of the United States of America	2018
30258051	Structural basis for broad neutralization of ebolavirusesÂ by an antibody targeting the glycoprotein fusion loop.	Nature Communications	2018
28133812	Antibodyomics: bioinformatics technologies for understanding B-cell immunity to HIV-1.	Immunol Rev	2017
28890362	Microsecond Dynamics and Network Analysis of the HIV-1 SOSIP Env Trimer Reveal Collective Behavior and Conserved Microdomains of the Glycan Shield.	Structure	2017
28445724	Quantification of the Impact of the HIV-1-Glycan Shield on Antibody Elicitation.	Cell Rep	2017
28166380	Insights from NMR Spectroscopy into the Conformational Properties of Man-9 and Its Recognition by Two HIV Binding Proteins.	ChemBioChem	2017
26689967	Structures of HIV-1 Env V1V2 with broadly neutralizing antibodies reveal commonalities that enable vaccine design.	Nat Struct Mol Biol	2016
27114034	Trimeric HIV-1-Env Structures Define Glycan Shields from Clades A, B, and G.	Cell	2016
27299673	Developmental Pathway of the MPER-Directed HIV-1-Neutralizing Antibody 10E8.	PLoS One	2016
27174988	Fusion peptide of HIV-1 as a site of vulnerability to neutralizing antibody.	Science	2016
26949186	Maturation Pathway from Germline to Broad HIV-1 Neutralizer of a CD4-Mimic Antibody.	Cell	2016
27478931	Iterative structure-based improvement of a fusion-glycoprotein vaccine against RSV.	Nat Struct Mol Biol	2016
27477385	Somatic Hypermutation-Induced Changes in the Structure and Dynamics of HIV-1 Broadly Neutralizing Antibodies.	Structure	2016
27453470	Vaccine-Induced Antibodies that Neutralize Group 1 and Group 2 Influenza A Viruses.	Cell	2016
26098893	A Cysteine Zipper Stabilizes a Pre-Fusion F Glycoprotein Vaccine for Respiratory Syncytial Virus.	PLoS One	2015
25865483	Maturation and Diversity of the VRC01-Antibody Lineage over 15 Years of Chronic HIV-1 Infection.	Cell	2015
26098315	Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env.	Nat Struct Mol Biol	2015
26004070	Structural Repertoire of HIV-1-Neutralizing Antibodies Targeting the CD4 Supersite in 14 Donors.	Cell	2015
25142607	Enhanced potency of a broadly neutralizing HIV-1 antibody in vitro improves protection against lentiviral infection in vivo.	J Virol	2014
25296255	Structure and immune recognition of trimeric pre-fusion HIV-1 Env.	Nature	2014
24590074	Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies.	Nature	2014
23359663	Assembly of the transmembrane domain of E. coli PhoQ histidine kinase: implications for signal transduction from molecular simulations.	PLoS Comput Biol	2013
24106303	De novo identification of VRC01 class HIV-1-neutralizing antibodies by next-generation sequencing of B-cell transcripts.	Proc Natl Acad Sci U S A	2013
24179220	Structure-based design of a fusion glycoprotein vaccine for respiratory syncytial virus.	Science	2013
22024595	A photon-free approach to transmembrane protein structure determination.	J Mol Biol	2011
21247754	Structural and dynamic mechanisms for the function and inhibition of the M2 proton channel from influenza A virus.	Curr Opin Struct Biol	2011
20130653	Structure of the amantadine binding site of influenza M2 proton channels in lipid bilayers.	Nature	2010
18987357	Species differences in small molecule binding to alpha IIb beta 3 are the result of sequence differences in 2 loops of the alpha IIb beta propeller.	Blood	2009
19633083	Molecular basis of ChvE function in sugar binding, sugar utilization, and virulence in Agrobacterium tumefaciens.	J Bacteriol	2009
18408016	Identification of the pore-lining residues of the BM2 ion channel protein of influenza B virus.	J Biol Chem	2008
17729286	Loop modeling: Sampling, filtering, and scoring.	Proteins	2008
18468622	Determination of the physiological dimer interface of the PhoQ sensor domain.	J Mol Biol	2008
18235504	Structural basis for the function and inhibition of an influenza virus proton channel.	Nature	2008