About Chagastope

Chagastope is an atlas of antigens and epitopes for Chagas disease. The resource contains experimental data on antibody-binding to millions of synthetic peptides. Data was obtained by assaying high-density peptide arrays with serum samples from Chagas Disease subjects and matched healthy donors across the Americas.

The Summary section describes this in more detail. The Help section has additional information on plots, how to interact with this website, and how to download and access Chagastope Data.

Raw and normalized antibody-binding signal for all peptides in our microarrays
Antibody-binding signals for peptides, grouped by protein
Antibody-binding signals for peptides, grouped by antigenic region
Interactive antibody-binding plots for proteins
Antigenicity plots for the proteome-wide analysis of T. cruzi using pooled samples
Antibody-binding plots of proteins using individual samples
Antibody-binding plots of antigenic regions using individual samples
Single-Residue Mutagenesis of selected epitopes

Citing Chagastope.org

To cite your use of the Chagas Antigen and Epitope Atlas, please use:

A Trypanosoma cruzi Antigen and Epitope Atlas: deep characterization of antibody specificities in Chagas Disease patients across the Americas. Alejandro D. Ricci, Leonel Bracco, Janine M. Ramsey, Melissa S. Nolan, M. Katie Lynn, Jaime Altcheh, Griselda Ballering, Faustino Torrico, Norival Kesper, Juan C. Villar, Jorge D. Marco, Fernán Agüero. bioRxiv 2022.08.19.504544; doi:10.1101/2022.08.19.504544.

(This article is a preprint and has not been certified by peer review).

Peptides - Data
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Peptides

Sequences to search in our database Here you can write up to 100 sequences from 3 to 16 aa each All peptides in our database are 16 aa long. If a sequence you write has 16 aa, then we will return any perfect matches we find. For shorter sequences, we will return any peptide containing said sequence

Sources

Origin of the serums Prefixes: AR (Argentina), BO (Bolivia), BR (Brazil), CO (Colombia), MX (Mexico), US (United States), LE (Leishmaniasis) Suffixes: No suffix (Pooled serum), P# (Individual serum, was part of the pool), E# (Individual serum, wasn't part of the pool) You can copy and paste lists of serum samples with CTRL + C and CTRL + V

Serum Types

Antigenicity of the serums Positive pool: Pools of Chagas-positive individuals used to analyze the whole proteome Negative pool: Pools of healthy individuals used to analyze the whole proteome Positive serum: Serums of Chagas-positive individuals used to analyze the antigenic regions

Experiments

The experiments performed in this study CHAGASTOPE-v1: whole T.cruzi proteome, Chagas-positive and healthy pooled serums CHAGASTOPE-v2: antigenic regions of T.cruzi, Chagas-positive individual serums

Normalized Signal Range

Antigenicity signal of the peptides The antigenicity signal varied roughly between 1 and 60000. To discern high from low signal we calculated an antigenicity threshold for each experiment Antigenicity Threshold CHAGASTOPE-v1 = 10784.80 CHAGASTOPE-v2 = 5814.81
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Proteins - Data
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Proteins

Locus identifiers of T.cruzi proteins This list shows only a subset of all analyzed proteins. It will update as you write (it can take a few seconds) You can copy and paste lists of proteins with CTRL + C and CTRL + V

Sources

Origin of the serums Prefixes: AR (Argentina), BO (Bolivia), BR (Brazil), CO (Colombia), MX (Mexico), US (United States), LE (Leishmaniasis) Suffixes: No suffix (Pooled serum), P# (Individual serum, was part of the pool), E# (Individual serum, wasn't part of the pool) You can copy and paste lists of serum samples with CTRL + C and CTRL + V

Serum Types

Antigenicity of the serums Positive pool: Pools of Chagas-positive individuals used to analyze the whole proteome Negative pool: Pools of healthy individuals used to analyze the whole proteome Positive serum: Serums of Chagas-positive individuals used to analyze the antigenic regions

Experiments

The experiments performed in this study CHAGASTOPE-v1: whole T.cruzi proteome, Chagas-positive and healthy pooled serums CHAGASTOPE-v2: antigenic regions of T.cruzi, Chagas-positive individual serums

Signal Range

Antigenicity signal of the peptides The antigenicity signal varied roughly between 1 and 60000. To discern high from low signal we calculated an antigenicity threshold for each experiment Antigenicity Threshold CHAGASTOPE-v1 = 10784.80 CHAGASTOPE-v2 = 5814.81
Download data

Plot protein selected in table

Antigenic regions - Data
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Antigenic regions

Identifiers of T.cruzi antigenic regions This list shows only a subset of all analyzed regions It will update as you write (it can take a few seconds) You can copy and paste lists of regions with CTRL + C and CTRL + V

Sources

Origin of the serums Prefixes: AR (Argentina), BO (Bolivia), BR (Brazil), CO (Colombia), MX (Mexico), US (United States), LE (Leishmaniasis) Suffixes: No suffix (Pooled serum), P# (Individual serum, was part of the pool), E# (Individual serum, wasn't part of the pool) You can copy and paste lists of serum samples with CTRL + C and CTRL + V

Serum Types

Antigenicity of the serums Positive pool: Pools of Chagas-positive individuals used to analyze the whole proteome Negative pool: Pools of healthy individuals used to analyze the whole proteome Positive serum: Serums of Chagas-positive individuals used to analyze the antigenic regions

Experiments

The experiments performed in this study CHAGASTOPE-v1: whole T.cruzi proteome, Chagas-positive and healthy pooled serums CHAGASTOPE-v2: antigenic regions of T.cruzi, Chagas-positive individual serums

Signal Range

Antigenicity signal of the peptides The antigenicity signal varied roughly between 1 and 60000. To discern high from low signal we calculated an antigenicity threshold for each experiment Antigenicity Threshold CHAGASTOPE-v1 = 10784.80 CHAGASTOPE-v2 = 5814.81
Download data

Plot region selected in table

Proteins - Sample Pools

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Protein

Locus identifiers of T.cruzi proteins This list contains only the proteins with at least one peptide with an antigenicity signal above 8,106.10 (mode + 3 SD for CHAGASTOPE-v1) This list shows only a subset of all proteins with plots. It will update as you write (it can take a few seconds)
Proteins - Individual Samples

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Protein

Locus identifiers of T.cruzi proteins This list contains only the proteins analyzed in CHAGSTOPE-v2 (those with at least one antigenic region in CHAGASTOPE-v1) This list shows only a subset of all proteins with plots. It will update as you write (it can take a few seconds)
Antigenic regions - Individual Samples

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Antigenic region

Identifiers of T.cruzi antigenic regions This list shows only a subset of all analyzed regions It will update as you write (it can take a few seconds) You can copy and paste lists of regions with CTRL + C and CTRL + V
Alanine Scans - Individual Samples

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Protein - Sequence

Locus identifiers and sequences of T.cruzi proteins with alanine scans This list contains only the proteins and sequences where the alanine scan was performed This list shows only a subset of all proteins with plots. It will update as you write (it can take a few seconds)
Proteins - Dynamic Profiles

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Protein

Locus identifiers of T.cruzi proteins This list shows only a subset of all analyzed proteins. It will update as you write (it can take a few seconds)

Sources by hand

Origin of the serums Prefixes: AR (Argentina), BO (Bolivia), BR (Brazil), CO (Colombia), MX (Mexico), US (United States), LE (Leishmaniasis) Suffixes: No suffix (Pooled serum), P# (Individual serum, was part of the pool), E# (Individual serum, wasn't part of the pool) You can copy and paste lists of serum samples with CTRL + C and CTRL + V

Sources by conditions

This is an alternative way of populating the serum sources above The geographic location refers to where the individual comes from. Both the pool AR and the individual AR_P1 come from the location AR. While LE is not a location, is also present as an option. Selecting no location means selecting all. The options below control which serum samples to fetch from those locations, such as pools (e.g. AR) or indivudual serums that are part of those pools (e.g. AR_P1) or not (e.g. AR_E1) Min Signal: returns the serum samples where at least one peptide has a signal above this number (0 means no filter) Max Signal: returns the serum samples where all peptides have a signal below this number (0 means no filter)

Plot options

Options

Options - Plot Style

Different ways of visually arranging the selected sources Individual: Each source has its own independent plot, with its positive and negative (if it exists) signal. The Horizontal and Vertical versions have different preferences on how to arrange the plots (although for many sources they become similar) Combined: All sources are combined in one plot. While this can be confusing for large amounts of serums, you can show and hide serums by pressing the plot legends

Options - Threshold

Antigenicity Thresholds used as cutoff when assigning antigenic proteins and peptides in our experiments This horizontal line allows you to quickly identify if a peptide is above or below the antigenicity threshold. You can either select one of the antigenicity thresholds we used (which are different in each of the two array designs) or you can manually input an antigenicity threshold

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