Reads, clonal groups, and lineages numbers per individual and condition. The table shows the number of raw and used sequences as well as the number of clonotypes and lineages per individual. (XLS 30 kb

Aarón Salinas-Rodríguez

Andrés Aguilar-Salgado

Benjamin J. Doranz

Bernardo Cortina-Ceballos

Elizabeth Ernestina Godoy-Lozano

Gilberto Sánchez-González

Hugo Sámano-Sánchez

Humberto Valdovinos-Torres

Héctor Vivanco-Cid

Irma López-Martínez

Jennifer M. Pfaff

Jesús Martínez-Barnetche

Juan Téllez-Sosa

Karina Hernández-Flores

Kristen M. Kahle

Mario H. Rodriguez

Rosa Elena Gómez-Barreto

SHM rates in global and selected IGHV segments of randomly subsampled clonotypes. Each dot represents the percentage of mutations in the largest lineage of 250 randomly sampled clonotypes per individual, classified according to clinical status. (A) Global mutation rates; (B) IGHV1-2; (C) IGHV1-18; and (D) IGHV1-69 (DWS− A, green; DWS− Pc, dark green; DWS+ A, blue; DWS+ Pc, dark blue) (Kruskal–Wallis test, Dunn’s correction for multiple testing, **p < 0.01, ***p < 0.001). (PDF 483 kb

Elizabeth Godoy-Lozano (3578762)

Juan Téllez-Sosa (429748)

Gilberto Sánchez-González (2578765)

Hugo Sámano-Sánchez (3578756)

Andrés Aguilar-Salgado (3578765)

Aarón Salinas-Rodríguez (518220)

Bernardo Cortina-Ceballos (3172569)

Héctor Vivanco-Cid (3579482)

Karina Hernández-Flores (3579473)

Jennifer Pfaff (3579476)

Kristen Kahle (3579479)

Benjamin Doranz (3579485)

Rosa Gómez-Barreto (3578759)

Humberto Valdovinos-Torres (429750)

Irma López-Martínez (606285)

Mario Rodriguez (2630947)

Jesús Martínez-Barnetche (429756)

The Francis Crick Institute

Additional file 12: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Monte Carlo simulation to calculate the probability to sample mB or ASCs. A detailed description of how the simulation model was built, including the sources of information regarding relative amounts of the relevant subpopulations (IgG+ mB cells and ASCs), as well as the relative Ig transcription levels in either subpopulation. (PDF 701 kb

Additional file 1: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Additional file 5: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

IGHV allelic variation in patients with DENV infection. ImmunediveRsity output data in raw reads were used for allele calling. The matrix depicts each individual and the presence (dark blue) of absence (gray) of IGHV1-2, IGHV1-18, IGHV1-69, and IGHV2-5 alleles. (PDF 22 kb

Additional file 9: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Neutralization summary of DENV RVPs by human sera. The 50 % neutralization titers (NT50) are shown as reciprocal serum dilutions. (XLS 29 kb

Additional file 4: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Digital CDRH3 “spectratyping” of acute phase DENV infection. CDRH3 “spectratyping” of all segments and according to IGHV1-2, IGHV1-18, and IGHV1-69 segments based on the CDRH3 size of 1280 lineage subsample. Clinical and immune status is shown in upper bars. CDRH3 length (bp) is shown in x axis and lineage relative frequency is shown in y axis (color bars: DWS−, green and DWS+, blue. Upper lines: DWS−, green; DWS+, blue; primary, orange; secondary, purple). (PDF 619 kb

Additional file 8: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Heat map representation of SHM according to IGHV segment ( rows ) and clinical status ( columns ). Acute DENV infection had significantly lower levels of SHM than post-convalescent and control samples (Mann–Whitney U test for non-parametric data, *** p < 0.001). (PDF 43 kb

Additional file 14: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

SHM rates in global and selected IGHV segments in the ImmunediveRsity -reconstructed repertoire using a CDRH3 identity clustering threshold of 92 %. Each dot represents the percentage of mutations in randomly sampled lineages per individual, classified according to clinical status. (A) Global mutation rates; (B) IGHV1-2; (C) IGHV1-18; and (D) IGHV1-69 (DWS− A, green; DWS− Pc, dark green; DWS+ A, blue; DWS+ Pc, dark blue) (Kruskal–Wallis test, Dunn’s correction for multiple testing, **p < 0.01, ***p < 0.001). (PDF 2177 kb

Additional file 13: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Absolute number of non-synonymous mutations. Quantitative analysis of non-synonymous somatic hypermutation (DWS− A, green; DWS− Pc, dark green; DWS+ A, blue; DWS+ Pc, dark blue) (Kruskal–Wallis test for non-parametric data with Dunn’s multiple comparison test, *** p < 0.001). (PDF 1967 kb

Additional file 10: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

Days after onset of clinical illness for blood sampling according to clinical status. DWS- A, green; DWS− Pc, dark green; DWS+ A, blue; DWS+ Pc, dark blue. (One-way ANOVA, p > 0.05, not significant). (PDF 16 kb

Additional file 3: of Lower IgG somatic hypermutation rates during acute dengue virus infection is compatible with a germinal center-independent B cell response

https://figshare.com/articles/Additional_file_12_of_Lower_IgG_somatic_hypermutation_rates_during_acute_dengue_virus_infection_is_compatible_with_a_germinal_center-independent_B_cell_response/4467629