Sofia Kossida

ORCID: 0000-0003-2482-0022
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About
Contact & Profiles
Research Areas
  • Monoclonal and Polyclonal Antibodies Research
  • T-cell and B-cell Immunology
  • Immunodeficiency and Autoimmune Disorders
  • Immune Cell Function and Interaction
  • vaccines and immunoinformatics approaches
  • Chronic Lymphocytic Leukemia Research
  • Bioinformatics and Genomic Networks
  • Aquaculture disease management and microbiota
  • Lymphoma Diagnosis and Treatment
  • Immunotherapy and Immune Responses
  • Advanced Proteomics Techniques and Applications
  • HIV Research and Treatment
  • Single-cell and spatial transcriptomics
  • Protein Structure and Dynamics
  • Corporate Governance and Management
  • Viral Infections and Vectors
  • Microbial infections and disease research
  • Digital Innovation in Industries
  • Blood groups and transfusion
  • Genetics, Bioinformatics, and Biomedical Research
  • Genomics and Phylogenetic Studies
  • Computational Drug Discovery Methods
  • Machine Learning in Bioinformatics
  • Myasthenia Gravis and Thymoma
  • RNA and protein synthesis mechanisms

Institut Universitaire de France
2024-2025

Institut de Génétique Humaine
2016-2025

Centre National de la Recherche Scientifique
2014-2025

Université de Montpellier
2015-2025

Institut de Génétique Moléculaire de Montpellier
2015-2024

National Council for Scientific Research
2024

Centre National pour la Recherche Scientifique et Technique (CNRST)
2021-2022

Laboratoire d'Informatique Gaspard-Monge
2014-2021

International Game Technology (Canada)
2016

Immungenetics (Germany)
2016

IMGT®, the international ImMunoGeneTics information system®(http://www.imgt.org) is global reference in immunogenetics and immunoinformatics. By its creation 1989 by Marie-Paule Lefranc (Université de Montpellier CNRS), IMGT® marked advent of immunoinformatics, which emerged at interface between bioinformatics. specialized immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility (MH) proteins IgSF MhSF superfamilies. built on IMGT-ONTOLOGY axioms concepts, bridged...

10.1093/nar/gku1056 article EN cc-by Nucleic Acids Research 2014-11-05
Andreas Agathangelidis Anastasia Chatzidimitriou Katerina Gemenetzi Véronique Giudicelli Maria Karypidou and 78 more Karla Plevová Zadie Davis Xiao‐Jie Yan Sabine Jeromin Christof Schneider Lone Bredo Pedersen Renee C. Tschumper Lesley‐Ann Sutton Panagiotis Baliakas Lydia Scarfò Ellen J. van Gastel Marine Armand Eugen Tausch Bella Biderman Constance Baer Davide Bagnara Alba Navarro Anne Langlois de Septenville Valentina Guido Gerlinde Mitterbauer‐Hohendanner Aleksandar Dimovski Christian Brieghel Sarah Lawless Manja Meggendorfer Kamila Brázdilová Matthias Ritgen Monica Facco Cristina Tresoldi Andrea Visentin Andrea Patriarca Mark Catherwood Lisa Bonello Andrey Sudarikov Katrina Vanura Maria Roumelioti Hana Skuhrová Francová Theodoros Moysiadis Silvio Veronese Krzysztof Giannopoulos Larry Mansouri Teodora Karan-Djurašević Raphael Sandaltzopoulos Csaba Bödör Franco Fais Arnon P. Kater Irina Panovska Davide Rossi Salem Alshemmari Panagiotis Panagiotidis Paul Costeas Blanca Espinet Darko Antić Letizia Foroni Marco Montillo Livio Trentin Niki Stavroyianni Gianluca Gaïdano Paola Francia di Celle Carsten Utoft Niemann Elı́as Campo Αchilles Anagnostopoulos Christiane Pott Kirsten Fischer Michael Hallek David Oscier Stephan Stilgenbauer Claudia Haferlach Diane F. Jelinek Nicholas Chiorazzi Šárka Pospı́šilová Marie‐Paule Lefranc Sofia Kossida Anton W. Langerak Chrysoula Belessi Frédéric Davi Richard Rosenquist Paolo Ghia Κώστας Σταματόπουλος

10.1182/blood.2020007039 article EN Blood 2020-09-29

Abstract IMGT®, the international ImMunoGeneTics information system®, http://www.imgt.org/, is at forefront of immunogenetics and immunoinformatics fields with more than 30 years experience. IMGT® makes available databases tools to scientific community pertaining adaptive immune response, based on IMGT-ONTOLOGY. We focus recent features databases, tools, reference directories web resources, within three main axes research development. Axis I consists in understanding by deciphering...

10.1093/nar/gkab1136 article EN cc-by-nc Nucleic Acids Research 2021-11-28

Background Cancer cells activate different immune checkpoint (IC) pathways in order to evade immunosurveillance. Immunotherapies involving ICs either block or stimulate these and enhance the efficiency of system recognize attack cancer cells. In this way, development monoclonal antibodies (mAbs) targeting has significant success treatment. Recently, a systematic description mechanisms action (MOA) mAbs been introduced IMGT/mAb-DB, IMGT® database dedicated for therapeutic applications. The...

10.3389/fimmu.2023.1129323 article EN cc-by Frontiers in Immunology 2023-05-05

The rate of<italic>Flaviviridae</italic>family virus infections worldwide has increased dramatically in the last few years.

10.1039/c5mb00706b article EN Molecular BioSystems 2016-01-01

Abstract The naked mole-rat ( Heterocephalus glaber ) is a long-lived rodent species showing resistance to the development of cancer. Although mole-rats have been reported lack natural killer (NK) cells, γδ T cell-based immunity has suggested in this species, which could represent an important arm immune system for antitumor responses. Here, we investigate biology these unconventional cells peripheral tissues (blood, spleen) and thymus at different ages by TCR repertoire profiling...

10.1038/s41467-024-48652-z article EN cc-by Nature Communications 2024-05-18

The adaptive immune responses of humans and other jawed vertebrate species (gnasthostomata) are characterized by the B T cells their specific antigen receptors, immunoglobulins (IG) or antibodies cell receptors (TR) (up to 2.1012 different IG TR per individual). IMGT, international ImMunoGeneTics information system (http://www.imgt.org), was created in 1989 Marie-Paule Lefranc (Montpellier University CNRS) manage huge complex diversity these receptors. IMGT built on IMGT-ONTOLOGY concepts...

10.1371/journal.pone.0142353 article EN cc-by PLoS ONE 2015-11-05

There is a huge need for standardized analysis and statistical procedures in order to compare the complex immune repertoires of antigen receptors immunoglobulins (IG) T cell (TR) obtained by next generation sequencing (NGS). NGS technologies generate millions nucleotide sequences have led development new tools. The IMGT/HighV-QUEST, available since 2010, first global web portal IG TR high throughput sequences. IMGT/HighV-QUEST provides outputs characterization 'IMGT clonotype (AA)' (AA amino...

10.3389/fimmu.2016.00339 article EN cc-by Frontiers in Immunology 2016-09-09

Domestic ferrets (Mustela putorius furo) are important for modeling human respiratory diseases. However, ferret B and T cell receptors have not been completely identified or annotated, limiting immune repertoire studies. Here we performed long read transcriptome sequencing of splenocyte lymph node samples to obtain over 120,000 high-quality full-length immunoglobin (Ig) receptor (TCR) transcripts. We constructed a complete reference set the constant regions Ig TCR isotypes chain types. also...

10.1101/2025.02.05.636682 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2025-02-10

ABSTRACT Domestic ferrets ( Mustela putorius furo ) are important for modeling human respiratory diseases. However, ferret B and T cell receptors have not been completely identified or annotated, limiting immune repertoire studies. Here, we performed long-read transcriptome sequencing of splenocyte lymph node samples to obtain over 120,000 high-quality full-length immunoglobin (Ig) receptor (TCR) transcripts. We constructed a complete reference set the constant regions Ig TCR isotypes chain...

10.1128/jvi.00181-25 article EN cc-by Journal of Virology 2025-03-21

IMGT®, the international ImMunoGeneTics information system® is global reference in immunogenetics and immunoinformatics. By its creation 1989 by Marie-Paule Lefranc (Université de Montpellier CNRS), IMGT® marked advent of immunoinformatics, which emerged at interface between bioinformatics. specialized immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility (MH), proteins IgSF MhSF superfamilies. are divided into two groups, αβ γδ TR, express distinct TR...

10.3389/fimmu.2020.00821 article EN cc-by Frontiers in Immunology 2020-05-05

IMGT®, the international ImMunoGeneTics information system® ( http://www.imgt.org ), was created in 1989 Montpellier, France (CNRS and Montpellier University) to manage huge complex diversity of antigen receptors, is at origin immunoinformatics, a science interface between immunogenetics bioinformatics. Immunoglobulins (IG) or antibodies T cell receptors (TR) are managed described IMGT® databases tools level receptor, chain domain. The analysis IG TR variable (V) domain rearranged nucleotide...

10.1186/s12865-017-0218-8 article EN cc-by BMC Immunology 2017-06-26

Phage-display selection of immunoglobulin (IG) or antibody single chain Fragment variable (scFv) from combinatorial libraries is widely used for identifying new antibodies novel targets. Next generation sequencing (NGS) has recently emerged as a method the high throughput characterization IG and T cell receptor (TR) immune repertoires both in vivo vitro. However, challenges remain NGS scFv owing to length (> 800 bp) presence two domains (VH VL IG) associated by peptide linker chain. Here we...

10.3389/fimmu.2017.01796 article EN cc-by Frontiers in Immunology 2017-12-20

Notch family proteins play a key role in variety of developmental processes by controlling cell fate decisions and operating great number biological several organ systems, such as hematopoiesis, somatogenesis, vasculogenesis, neurogenesis homeostasis. The signaling pathway is crucial for the majority programs regulates multiple pathogenic processes. receptors’ activation has been largely related to its effects sustaining oncogenesis. constitutes an ancient conserved mechanism communication....

10.7717/peerj.10334 article EN cc-by PeerJ 2020-11-05

Abstract Dynamic changes in protein glycosylation impact human health and disease progression. However, current resources that capture phenotype information focus primarily on the macromolecules within central dogma of molecular biology (DNA, RNA, proteins). To gain a better understanding organisms, there is need to functional glycans biological processes. A workshop titled “Functional their curation” was held conjunction with 16th Annual International Biocuration Conference discuss ongoing...

10.1093/database/baae073 article EN cc-by Database 2024-01-01

Lipid Droplets (LD) are dynamic organelles that originate in the Endoplasmic Reticulum and mostly bud off toward cytoplasm, where they store neutral lipids for energy protection purposes. LD also have diverse proteins on their surface, many of which necessary correct homeostasis. However, these act as reservoirs can be made available elsewhere cell. In this sense, sinks titrate key regulators cellular processes. Among specialized factors reside cytoplasmic destined functions nucleus, but...

10.3390/cells10020472 article EN cc-by Cells 2021-02-22

The DNA damage response (DDR) ensures cellular adaptation to genotoxic insults. In the crowded environment of nucleus, assembly productive DDR complexes requires multiple protein modifications. How apical E1 ubiquitin activation enzyme UBA1 integrates spatially and temporally in remains elusive. Using a human cell-free system, we show that poly(ADP-ribose) polymerase 1 promotes recruitment DNA. We find association with poly(ADP-ribosyl)ated protein–DNA is necessary for phosphorylation...

10.26508/lsa.201800096 article EN cc-by Life Science Alliance 2018-06-01

The adaptive immune system, along with the innate are two main biological processes that protect an organism from pathogens. system is characterized by specificity and extreme diversity of its antigen receptors. These receptors immunoglobulins (IG) or antibodies B cells T cell (TR) cells. IG proteins have a dual role in immunity: they recognize antigens trigger elimination mechanisms, to rid body foreign synthesis immunoglobulin heavy light chains requires gene rearrangements at DNA level...

10.3390/vaccines10030394 article EN cc-by Vaccines 2022-03-03

The SIV/macaque model of HIV/AIDS pathogenesis is great importance for understanding the role antibody responses in prevention HIV infection, especially that greater macaque immunoglobulin (IG) gene databases are being developed. We have previously reported construction a phage display library from SIV-infected rhesus (Macaca mulatta) using oligonucleotides primers based on human IG sequences. Our previous screening which relied Sanger sequencing was inefficient and generated only few dozen...

10.3389/fimmu.2018.00329 article EN cc-by Frontiers in Immunology 2018-03-01

The adaptive immune response provides the vertebrate system with ability to recognize and remember specific pathogens generate immunity, mount stronger attacks each time pathogen is encountered. T cell receptors are antigen of expressed by cells, which specifically processed antigens, presented as peptides highly polymorphic major histocompatibility (MH) proteins. (TR) divided into two groups, αβ γδ, express distinct TR containing either α β, or γ δ chains, respectively. TRα locus (TRA) TRδ...

10.3390/genes12010030 article EN Genes 2020-12-28

The evolutionary conserved Notch signaling pathway functions as a mediator of direct cell-cell communication between neighboring cells during development. plays crucial role in various fundamental biological processes wide range tissues. Accordingly, the aberrant this underlies multiple genetic pathologies such developmental syndromes, congenital disorders, neurodegenerative diseases, and cancer. Over last two decades, significant data have shown that displays function mature brains...

10.3390/genes15050529 article EN Genes 2024-04-23
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