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Unclassified software tools | Immunoinformatics

EpiSweep
Desktop

EpiSweep

Allows users to design protein and deimmunization algorithms. EpiSweep can…

Allows users to design protein and deimmunization algorithms. EpiSweep can assess tradeoffs between a protein’s immunogenic potential and its molecular function. It integrates validated…

mCSM-AB
Web

mCSM-AB

Allows to predict antibody–antigen affinity changes upon mutation which…

Allows to predict antibody–antigen affinity changes upon mutation which relies on graph-based signatures. mCSM-AB can help users which desire to realize design and development of therapeutic and…

RimmPort
Desktop

RimmPort

Prepares National Institute of Allergy and Infectious Diseases (NIAID)-funded…

Prepares National Institute of Allergy and Infectious Diseases (NIAID)-funded research study datasets in ImmPort for analysis in R. RImmPort comprises of three main components: (i) a specification of…

ImmQuant
Desktop

ImmQuant

A software for studying the physiology of immune-cell types in complex tissues…

A software for studying the physiology of immune-cell types in complex tissues on the basis of gene-expression data, without the need for experimental cell sorting. ImmQuant builds on the DCQ…

ImmPort
Web

ImmPort The immunology database and analysis portal

Provides an immunology database and analysis portal system. ImmPort is the…

Provides an immunology database and analysis portal system. ImmPort is the archival repository and dissemination vehicle for clinical and molecular datasets created by research consortia funded by…

ImmunoRatio
Web

ImmunoRatio

Automates image analysis of estrogen receptor (ER), progesterone receptor (PR),…

Automates image analysis of estrogen receptor (ER), progesterone receptor (PR), and Ki-67 tissue sections. ImmunoRatio uses monoclonal antibodis 6F11, PgR636 and MIB-1 to detect respectively ER, PR…

VarDom
Web

VarDom

Contains information on domain classes and homology blocks and classifies new…

Contains information on domain classes and homology blocks and classifies new sequences. VarDom facilitates the development of new approaches in PfEMP1 research and allows better interpretation. It…

CombiNAber
Web

CombiNAber

Predicts and analyzes combination antibody neutralization scores using IC50…

Predicts and analyzes combination antibody neutralization scores using IC50 and/or IC80 for individual antibodies. CombiNaber is a web-tool that predict bnAb combination neutralization results from…

NEP
Web

NEP Neutralization-based Epitope Prediction

An efficient computational method to predict antibody-specific epitopes at the…

An efficient computational method to predict antibody-specific epitopes at the residue level based on neutralization panels of diverse viral strains. The method primarily utilizes neutralization…

VallettaAndReck…
Desktop

VallettaAndRecker2017

Provides a R script of feature selection procedure. VallettaAndRecker2017…

Provides a R script of feature selection procedure. VallettaAndRecker2017 offers a random forests machine learning approach developed to analyse antibody profiles against panels of P.…

Deimmunization
Web

Deimmunization

Identifies immunodominant regions in a given therapeutically important protein.…

Identifies immunodominant regions in a given therapeutically important protein. Deimmunization is a web application that suggests amino-acid substitutions and creates non-immunogenic versions of the…

CATNAP
Web

CATNAP Compile, Analyze and Tally NAb Panels

A comprehensive platform focusing on neutralizing antibody potencies in…

A comprehensive platform focusing on neutralizing antibody potencies in conjunction with viral sequences. CATNAP integrates neutralization and sequence data from published studies, and allows users…

DEAL
Desktop

DEAL Diversity Estimator of Antibody Libraries

Allows to determine the minimal functional complexity of an antibody library.…

Allows to determine the minimal functional complexity of an antibody library. DEAL is based on a Polymerase Chain Reaction (PCR)-free Next Generation Sequencing (NGS) approach. It can take into…

Cytosplore
Desktop

Cytosplore

Permits user to realize interactive investigation. Cytosplore is a single-cell…

Permits user to realize interactive investigation. Cytosplore is a single-cell analysis framework allowing interactive exploration of the hierarchy by a set of embeddings and used for subsequent…

LibBP
Web

LibBP Library of Binding Protein scaffolds

A computational framework for finding desirable binding protein scaffolds by…

A computational framework for finding desirable binding protein scaffolds by utilizing protein structure and sequence information. For each protein, its structure and the sequences of…

TypeLoader
Web

TypeLoader

Automates the gene feature annotation information and deviations of novel…

Automates the gene feature annotation information and deviations of novel allele from the identified closest known allele requiring minimal intervention. TypeLoader facilitates submission of…

ISDTool
Desktop

ISDTool

A computational model for predicting immunosuppressive domains (ISDs). The…

A computational model for predicting immunosuppressive domains (ISDs). The software could be used to identify typical ISDs in retroviruses including HERV, HTLV, HIV, STLV, SIV and MLV.

C-ImmSim
Web

C-ImmSim

Calculates the immune response to a generic pathogenic secondary structure.…

Calculates the immune response to a generic pathogenic secondary structure. C-ImmSim allows users to submit the antigen protein sequence and specify the schedule of its injection as well as the host…

Early Bird
Web

Early Bird

Provides a parallel coordinates visualization tool. Early Bird allows users to…

Provides a parallel coordinates visualization tool. Early Bird allows users to upload their data sets in CSV files, or to visualize data stored from selected studies. Early Bird hosts a large…

Epipox
Dataset

Epipox

Provides data about predicted T-cell epitome. Epipox is organised around three…

Provides data about predicted T-cell epitome. Epipox is organised around three different axes: peptides, predictions, and proteins. It contains about 18700 human leukocyte antigen (HLA) I and 32700…

Glydin
Web

Glydin

Allows visualization of relationships between epitopes based on monosaccharide…

Allows visualization of relationships between epitopes based on monosaccharide composition. Glydin compiles and maps information relative to glycoepitopes (glycan determinants) as published in the…

Flutope
Dataset

Flutope

Gathers information about human leukocyte antigen (HLA) response-type of…

Gathers information about human leukocyte antigen (HLA) response-type of influenza type A. Flutope is a database which compiles data for all strains resulted from a study investigating the influence…

IMS
Desktop

IMS Immunogenetic Management Software

Permits multiplexed analysis of complex immunogenetic traits that are necessary…

Permits multiplexed analysis of complex immunogenetic traits that are necessary for the accurate planning and execution of experiments involving large animal models, including nonhuman primates. IMS…

ATIVS
Web

ATIVS Analysis Tools for Influenza virus surveillance

Provides a web application for generating antigenic maps. ATIVS can perform two…

Provides a web application for generating antigenic maps. ATIVS can perform two types of analysis: a serological data analysis for all influenza subtypes and HA1 sequence data for influenza A/H3N2…

PAComplex
Web

PAComplex

Allows users to identify peptide antigens and homologous peptide antigens.…

Allows users to identify peptide antigens and homologous peptide antigens. PAComplx is a web application which takes into account two T-cell receptors binding to peptide-major histocompatibility…

NHLBI-AbDesigne…
Web

NHLBI-AbDesigner

Allows users to design peptide-directed antibodies. AbDesigner is a web…

Allows users to design peptide-directed antibodies. AbDesigner is a web application which starts from an amino acid sequence extracted from a given protein to help in inferring the fittest immunizing…

HLA
Web

HLA

Permits the creation of SQL queries for the human leukocyte antigen (HLA)…

Permits the creation of SQL queries for the human leukocyte antigen (HLA) database. The HLA database offers data about sequences of the human major histocompatibility complex (MHC).

HLAV3D
Web

HLAV3D

Permits sequence alignments of antigen presenting platform of human leukocyte…

Permits sequence alignments of antigen presenting platform of human leukocyte antigens (HLA) I and II molecules from which the variability analyses were performed. HLAV3D allows sequence variability…

CrossTope
Dataset

CrossTope Structural Data Bank for Cross-Reactivity

Provides information about 3D structures of peptide: Major Histocompatibility…

Provides information about 3D structures of peptide: Major Histocompatibility Complex (MHC) complexes by considering curated data on immunogenicity, similarity relationships and cross-reactivity.…

AbAg
Web

AbAg

A web server for calculating the endpoint titers and concentrations of…

A web server for calculating the endpoint titers and concentrations of antibody/antigen (Ab/Ag) from the optical density (OD) taken from ELISA data. The server utilizes a graphical method (Raghava et…

CHOPPI
Dataset

CHOPPI CHO Protein Predicted Immunogenicity

Gathers information about CHO protein impurities (CHOPs). CHOPPI provides a…

Gathers information about CHO protein impurities (CHOPs). CHOPPI provides a resource for assessing impurity risks related to CHOPs and their immunogenicity. The database provides an entry for each…

ICEPOP
Web
Desktop

ICEPOP Immune CEll POPulation

Estimates the relative immune cell response for each cell type. ICEPOP uses…

Estimates the relative immune cell response for each cell type. ICEPOP uses gene names and the associated expression values from microarray data of mouse and human organ or tissue samples to work. It…

ImmTree
Dataset

ImmTree

Provides evolutionary trees of proteins in the human immune system. ImmTree…

Provides evolutionary trees of proteins in the human immune system. ImmTree facilitates queries according to the classic groupings of immune functions, such as humoral immunity, cellular immunity,…

MED
Web

MED Mature Epitope Density

A computational strategy based on measuring the epitope's concentration in…

A computational strategy based on measuring the epitope's concentration in the mature protein. MED offers a practical and accurate method to identify potential vaccine and diagnosis candidates…

GeVaDSs
Web

GeVaDSs Genetic Vaccine Decision Support system

Provides a platform for handle experimental results. GeVADSs is composed of…

Provides a platform for handle experimental results. GeVADSs is composed of modules that can be separated into two groups: (i) vaccine related modules, to process the biological data such as B-cell…

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