Maria Kondratova

Maria Kondratova
Université de Lille

PhD

About

22
Publications
3,157
Reads
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839
Citations
Introduction
Maria Kondratova currently has bioinformatic post-doc position in University of Lille (CNRS UMR 9020 - Inserm UMR 1277 CANTHER, Team "Cell Plasticity & Cancer"
Additional affiliations
May 2014 - present
Institut Curie
Position
  • PostDoc Position
Description
  • The main project – formalization of scientific knowledge about signaling pathways in the tumor microenvironment. http://navicell.curie.fr/pages/maps_innateimmune.html
October 2007 - December 2008
French National Centre for Scientific Research
Position
  • PostDoc Position

Publications

Publications (22)
Article
Full-text available
Single‐nucleotide polymorphisms (SNPs) in over 180 loci have been associated with breast cancer (BC) through genome‐wide association studies involving mostly unselected population‐based case‐control series. Some of them modify BC risk of women carrying a BRCA1 or BRCA2 (BRCA1/2) mutation and may also explain BC risk variability in BC‐prone families...
Article
Full-text available
After the success of the new generation of immune therapies, immune checkpoint receptors have become one important center of attention of molecular oncologists. The initial success and hopes of anti-programmed cell death protein 1 (anti-PD1) and anti-cytotoxic T-lymphocyte-associated protein 4 (anti-CTLA4) therapies have shown some limitations sinc...
Chapter
ACSN (https://acsn.curie.fr) is a web-based resource of multi-scale biological maps depicting molecular processes in cancer cell and tumor microenvironment. The core of the Atlas is a set of interconnected cancer-related signaling and metabolic network maps. Molecular mechanisms are depicted on the maps at the level of biochemical interactions, for...
Article
Full-text available
The lack of integrated resources depicting the complexity of the innate immune response in cancer represents a bottleneck for high-throughput data interpretation. To address this challenge, we perform a systematic manual literature mining of molecular mechanisms governing the innate immune response in cancer and represent it as a signalling network...
Article
PRL-3 belongs to the PRL phosphatase family. Its physiological role remains unclear, but many studies have identified that PRL-3 is a marker of cancer progression and shown it to be associated with metastasis. Evidence implicating PRL-3 in various elements of the metastatic process, such as the cell cycle, survival, angiogenesis, adhesion, cytoskel...
Article
Cancer initiation and progression are associated with multiple molecular mechanisms. The knowledge of these mechanisms is expanding and should be converted into guidelines for tackling the disease. Here, we discuss the formalization of biological knowledge into a comprehensive resource: the Atlas of Cancer Signalling Network (ACSN) and the Google M...
Article
Full-text available
Generation and usage of high-quality molecular signalling network maps can be augmented by standardizing notations, establishing curation workflows and application of computational biology methods to exploit the knowledge contained in the maps. In this manuscript, we summarize the major aims and challenges of assembling information in the form of c...
Preprint
Full-text available
Generation and usage of high-quality molecular signalling network maps can be augmented by standardising notations, establishing curation workflows and application of computational biology methods to exploit the knowledge contained in the maps. In this manuscript, we summarize the major aims and challenges of assembling information in the form of c...
Article
Carcinoma-associated fibroblasts (CAF) are key players in the tumor microenvironment. Here, we characterize four CAF subsets in breast cancer with distinct properties and levels of activation. Two myofibroblastic subsets (CAF-S1, CAF-S4) accumulate differentially in triple-negative breast cancers (TNBC). CAF-S1 fibroblasts promote an immunosuppress...
Preprint
Initiation and progression of cancer involve multiple molecular mechanisms. The knowledge on these mechanisms is expanding and should be converted into guidelines for tackling the disease. We discuss here formalization of biological knowledge into a comprehensive resource Atlas of Cancer Signalling Network (ACSN) and Google Maps-based tool NaviCell...
Chapter
Full-text available
Graphical representation of biological knowledge in the form of interactive diagrams became widely used in molecular and computational biology. It enables the scientific community to exchange and discuss information on cellular processes described in numerous scientific publications and to interpret high-throughput data. Constructing a signaling ne...
Article
Full-text available
Cancerogenesis is driven by mutations leading to aberrant functioning of a complex network of molecular interactions and simultaneously affecting multiple cellular functions. Therefore, the successful application of bioinformatics and systems biology methods for analysis of high-throughput data in cancer research heavily depends on availability of...
Article
Attachment to host tissues is a critical step in the pathogenesis of most bacterial infections. Enterotoxigenic Escherichia coli (ETEC) remains one of the principal causes of infectious diarrhea in humans. The recent identification of additional ETEC surface molecules suggests that new targets may be exploited in vaccine development. The EtpA prote...
Article
Full-text available
A database of 528 β-proteins and β-domains containing abcd units, including 244 nonhomologous ones, was compiled from the Protein Data Bank (total 1511 PDB entries). A novel structural tree of this class of proteins was constructed to include 153 possible polypeptide chain folds. A structural classification of β-proteins containing abcd units was p...
Article
A crucial event of protein folding is the formation of a folding nucleus. We demonstrate the presence of a considerable coincidence between the location of folding nuclei and the location of so-called "root structural motifs", which have unique overall folds and handedness. In the case of proteins with a single root structural motif, the involvemen...
Article
Full-text available
One hundred twenty globular proteins and forty five "leucine zippers" representing all types of packing of long alpha-helices were studied in terms of revealing and comparing their interhelical hydrogen and salt bonds. Many previous studies of "leucine zippers" and their analogs showed that interhelical interactions between polar groups could impar...
Article
Full-text available
Examination of 80 alpha-helical proteins and domains demonstrates that they contain from 1 to more than 20 completely buried (water-inaccessible) polar side chains. As a rule the latter have partners for H-bonding but the resulting H-bond system is often not exhaustive. Basing on statistical analysis, we determined the optimal number of H-bonds for...
Article
The group combines research and development in computa- tional biology with an in-house sequence analysis service and maintenance of several computational facilities, particularly SRS, Gene2EST and our Bioccelerator hardware. We take the view that the best teaching will be done by active researchers, hence we aim for a mix of service and research a...

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Projects

Projects (2)
Project
Formalization of biological knowledge about Tumor cells and Tumor Microenvironment signaling pathways.