Alessandra Carbone | Academic Influence

Why Is Alessandra Carbone Influential?

According to Wikipedia, Alessandra Carbone is an Italian mathematician and computer scientist. She is a professor in the computer science department of the Pierre and Marie Curie University. Since 2009 she has headed the laboratory of computational and quantitative biology. This laboratory studies the function and evolution of biological systems. She is a senior member of the Institut Universitaire de France and received the Irène Joliot-Curie Prize in 2010.

Alessandra Carbone's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Papers

Codon adaptation index as a measure of dominating codon bias (293)
MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data (152)
Codon bias signatures, organization of microorganisms in codon space, and lifestyle. (93)
SynChro: A Fast and Easy Tool to Reconstruct and Visualize Synteny Blocks along Eukaryotic Chromosomes (91)
New Highly Divergent rRNA Sequence among Biodiverse Genotypes of Enterocytozoon bieneusi Strains Isolated from Humans in Gabon and Cameroon (84)
Circuits and programmable self-assembling DNA structures (79)
Ethylene as promoter of wheat grain maturation and ear senescence (78)
Joint Evolutionary Trees: A Large-Scale Method To Predict Protein Interfaces Based on Sequence Sampling (75)
Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean[OPEN] (74)
Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus. (71)
Codon Bias is a Major Factor Explaining Phage Evolution in Translationally Biased Hosts (66)
Blind prediction of homo‐ and hetero‐protein complexes: The CASP13‐CAPRI experiment (62)
Pattern Formation In Biology, Vision And Dynamics (61)
Identification of protein interaction partners and protein-protein interaction sites. (56)
Large scale chromosomal mapping of human microRNA structural clusters (52)
Protein-Protein Interactions in a Crowded Environment: An Analysis via Cross-Docking Simulations and Evolutionary Information (46)
Senescence of Flag Leaves and Ears of Wheat Hastened by Methyl Jasmonate (45)
NCIPLOT4: fast, robust and quantitative analysis of noncovalent interactions. (39)
A multi-objective optimization approach accurately resolves protein domain architectures (38)
Local Geometry and Evolutionary Conservation of Protein Surfaces Reveal the Multiple Recognition Patches in Protein-Protein Interactions (36)
Mathematical slices of molecular biology (36)
A Graphic Apology for Symmetry and Implicitness (33)
Emission of water stress ethylene in wheat (Triticum aestivum L.) ears: effects of rewatering (31)
Chromosomal periodicity and positional networks of genes in Escherichia coli (30)
A global metagenomic map of urban microbiomes and antimicrobial resistance (30)
BIS2Analyzer: a server for co-evolution analysis of conserved protein families (29)
A Combinatorial Approach to Detect Coevolved Amino Acid Networks in Protein Families of Variable Divergence (27)
The diversity of small non-coding RNAs in the diatom Phaeodactylum tricornutum (27)
A multi-source domain annotation pipeline for quantitative metagenomic and metatranscriptomic functional profiling (26)
Improvement in Protein Domain Identification Is Reached by Breaking Consensus, with the Agreement of Many Profiles and Domain Co-occurrence (26)
Computational Prediction of Genomic Functional Cores Specific to Different Microbes (26)
Meet-U: Educating through research immersion (26)
Alkaline DNA fragmentation, DNA disentanglement evaluated viscosimetrically and sister chromatid exchanges, after treatment in vivo with nitrofurantoin. (24)
Protein Fragments: Functional and Structural Roles of Their Coevolution Networks (23)
DNA damage induced by auramine O in liver, kidney, and bone marrow of rats and mice, and in a human cell line (alkaline elution assay and SCE induction). (23)
Marine diatoms change their gene expression profile when exposed to microscale turbulence under nutrient replete conditions (23)
Duplication of Directed Graphs and Exponential Blow Up of Proofs (22)
Dissecting protein architecture with communication blocks and communicating segment pairs (22)
Making proofs without Modus Ponens: An introduction to the combinatorics and complexity of cut elimination (21)
Molecular Tiling and DNA Self-assembly (21)
Protein–protein interaction specificity is captured by contact preferences and interface composition (21)
Coevolution analysis of Hepatitis C virus genome to identify the structural and functional dependency network of viral proteins (21)
Coding and geometrical shapes in nanostructures: A fractal DNA-assembly (21)
CLAG: an unsupervised non hierarchical clustering algorithm handling biological data (20)
Cycles of relatively prime length and the road coloring problem (19)
Information Measure for Long-Range Correlated Sequences: the Case of the 24 Human Chromosomes (18)
Great interactions: How binding incorrect partners can teach us about protein recognition and function (18)
Insights on the Evolution of Metabolic Networks of Unicellular Translationally Biased Organisms from Transcriptomic Data and Sequence Analysis (16)
“Infostery” analysis of short molecular dynamics simulations identifies highly sensitive residues and predicts deleterious mutations (16)
3D Fractal DNA Assembly from Coding, Geometry and Protection (15)
Singlet oxygen mediated degradation of lignin--a kinetic study. (15)
Periodic distributions of hydrophobic amino acids allows the definition of fundamental building blocks to align distantly related proteins (15)
A route to fractal DNA-assembly (15)
A protein coevolution method uncovers critical features of the Hepatitis C Virus fusion mechanism (14)
Protein social behavior makes a stronger signal for partner identification than surface geometry (13)
Cycling in proofs and feasibility (13)
Interpolants, Cut Elimination and Flow Graphs for the Propositional Calculus (13)
Local Interaction Signal Analysis Predicts Protein-Protein Binding Affinity. (13)
The Craig Interpolation Theorem for Schematic Systems (12)
Combinatorics of chromosomal rearrangements based on synteny blocks and synteny packs (12)
A discriminative method for family-based protein remote homology detection that combines inductive logic programming and propositional models (12)
JET2 Viewer: a database of predicted multiple, possibly overlapping, protein–protein interaction sites for PDB structures (12)
Hidden partners: Using cross‐docking calculations to predict binding sites for proteins with multiple interactions (11)
The cost of a cycle is a square (11)
NCIPLOT and the analysis of noncovalent interactions using the reduced density gradient (11)
INTerface Builder: A Fast Protein-Protein Interface Reconstruction Tool. (10)
Decrypting protein surfaces by combining evolution, geometry, and molecular docking (10)
Asymptotic Cyclic Expansion and Bridge Groups of Formal Proofs (10)
A sense of life: computational and experimental investigations with models of biochemical and evolutionary processes. (9)
GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects (9)
Identification of Plasmodium falciparum nuclear proteins by mass spectrometry and proposed protein annotation (9)
Review: Samuel R. Buss, The Undecidability of $k$-Provability (9)
Some Combinatorics behind Proofs (9)
Co-evolution and information signals in biological sequences (8)
Streams and strings in formal proofs (7)
Looking From The Inside And From The Outside (7)
Much shorter proofs: A bimodal investigation (7)
A Sense of Life ∗ (7)
Multiple protein-DNA interfaces unravelled by evolutionary information, physico-chemical and geometrical properties (7)
Inconsistent Distances in Substitution Matrices can be Avoided by Properly Handling Hydrophobic Residues (7)
Functional labels and syntactic entropy on DNA strings and proteins (6)
Phylogenetic reconstruction based on synteny block and gene adjacencies (6)
A new mapping between combinatorial proofs and sequent calculus proofs read out from logical flow graphs (6)
Rosser Orderings in Bimodal Logics (5)
Folding and Self-Assembly of Biological Macromolecules (5)
GEMME: a simple and fast global epistatic model predicting mutational effects (5)
Phylogenetic Reconstruction Based on Synteny Block and Gene Adjacencies (5)
Turning Cycles into Spirals (5)
Plasmobase: a comparative database of predicted domain architectures for Plasmodium genomes (4)
Revisiting the codon adaptation index from a whole-genome perspective: gene expression, codon bias, and metabolic networks in the context of genomes comparison (4)
Decrypting protein surfaces by combining evolution, geometry and molecular docking (4)
DNA Computing, 11th International Workshop on DNA Computing, DNA11, London, ON, Canada, June 6-9, 2005. Revised Selected Papers (4)
Information Content of Sets of Biological Sequences Revisited (4)
NCIPLOT4: A New Step Towards a Fast Quantification of Noncovalent Interactions (4)
JET2 Viewer: a database of predicted multiple, possibly overlapping, protein–protein interaction sites for PDB structures (4)
Group Cancellation and Resolution (3)
SPoRE: a mathematical model to predict double strand breaks and axis protein sites in meiosis (3)
Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis (2)
Modelling macromolecular networks: two meetings in Paris, July, 2002. (2)
Provable Fixed Points in I Δ0 + Ω1 (2)
Predicted human structural clusters of miRNAs target cancer genes (2)
COVTree: Coevolution in OVerlapped sequences by Tree analysis server (2)
Multiple protein-DNA interfaces unravelled by evolutionary information, physico-chemical and geometrical properties (2)
Apricot breeding in Caserta: results and perspectives. (2)
A fusion peptide in preS1 and the human protein disulfide isomerase ERp57 are involved in hepatitis B virus membrane fusion process (2)
Logical structures and genus of proofs (2)
Hidden partners: Using cross-docking calculations to predict binding sites for proteins with multiple interactions (2)
Extracting Coevolving Characters from a Tree of Species (1)
Quantified Propositional Logic and the Number of Lines of Tree-Like Proofs (1)
Multiple probabilistic models extract features from protein sequence data and resolve functional diversity of very different protein families (1)
Pathways of deduction (1)
Coevolution analysis of amino-acids reveals diversified drug-resistance solutions in viral sequences: a case study of hepatitis B virus (1)
The complexity of protein interactions unravelled from structural disorder (1)
Provable fixed points in ${\rm I}\Delta_0+\Omega_1$. (1)
Co-evolution and Information Signals in Biological Sequences (1)
Targeted domain assembly for fast functional profiling of metagenomic datasets with S3A (1)
Identification of Protein Interaction Partners from Shape Complementarity Molecular Cross-Docking (1)
New low-vigour apricot rootstocks compared. (1)
Soft disorder modulates the assembly path of protein complexes (0)
Combining machine learning and evolution for the annotation of metagenomics data (0)
A Question of Time (0)
ProfileView: multiple probabilistic models resolve protein families functional diversity (0)
INCIDENCE OF LEAF REMOVAL ON THE REDISTRIBUTION OF ASSIMILATES IN TOMATO (LYCOPERSICON ESCULENTUM MILL) (0)
A protein coevolution method designed for conserved sequences uncovers critical features of the original HCV fusion mechanism and provides molecular basis for the design of effective antiviral strategies (0)
ProfileView: multiple probabilistic models resolve protein families functional diversity (0)
Crystal structure of chloroplast fructose-1,6-bisphosphate aldolase from the green alga Chlamydomonas reinhardtii (0)
Computability in Europe 2010 (0)
Conservation, Co‐evolution and Dynamics: From Sequence to Function (0)
Proceedings of the 11th international conference on DNA Computing (0)
Disorder and interfaces in proteins are two sides of the same coin (0)
Author index to Volume 13 (0)
From complete cross-docking to partners identification and binding sites predictions (0)
14th workshop on logic, language, information and computation (wollic 2007) (0)
MyCLADE: a multi-source domain annotation server for sequence functional exploration (0)
Threatening an Utopian world: the post-romantic aesthetics of the “melusine” in Zamyatin’s “We” (0)
Provable Fixed Points.Much Shorter Proofs.Rosser Orderings in Bimodal Logics.Much Shorter Proofs: A Bimodal Investigation (0)
NCIPLOT4: A New Step Towards a Fast Quantification of Noncovalent Interactions (0)
Environmental and Physiological Insights from Microbial Genome Sequences (0)
Dietary adaptation in Neandertal, Denisovan and Sapiens revealed by gene copy number variation (0)
Functional labels andsyntactic entropy on DNA strings andproteins (0)
Opera 2.0: Crowdsourcing the Stage (0)
Influence of ethephon on maturation of rice panicle and culinary quality of its grains (0)
NCIPLOT4: A New Step Towards a Fast Quantification of Noncovalent Interactions (0)
Predicting substitutions to modulate disorder and stability in coiled-coils (0)
LEVELNET: diving into the multiple layers of protein-protein physical interaction networks (0)
Atlas of Genetics and Cytogenetics in Oncology and Haematology (0)
Preface (0)
The kiwi market: trends and perspective. (0)
DLA-Ranker: Evaluating protein docking conformations with many locally oriented cubes (0)
2008 Reviewers List (0)
How binding incorrect partners can lead to the prediction of correct interfaces: Results from a massive cross-docking study on proteins (0)
STUDY OF THE DISTRIBUTION OF PHOTOASSIMILATES IN TOMATO (LYCOPERSICON ESCULENTUM MILL) (0)
Adaptation studied with the self-consistent codon index: genomic spaces, metabolic network comparison, minimal gene sets and viral classification (0)
META-CASH : a tool to identify domains and functional annotation of metatranscriptomic sequences (0)
Analysis of the pattern of distribution of photoassimilates in tomato as affected by defoliation treatment. (0)
Predicting substitutions to modulate disorder and stability in coiled-coils (0)
From complete cross-docking to partners identification and binding sites predictions (0)
Morpho-anatomical features of the leaves and stems of Baccharis notosergila (Asteraceae) and their relationship with the environment and chemical control (0)
Morphoanatomy, histochemistry and crystals of the underground system of Baccharis notosergila (Asteraceae) (0)
Morfoanatomía del órgano subterráneo de Baccharis notosergila (Asteraceae): maleza arbustiva de la estepa mesófita bonaerense (0)
Great Interactions: Binding Incorrect Partners to Learn about Protein Recognition and Function (0)
From pseudo-random numbers to stochastic growth models and texture images (0)
Author response: A fusion peptide in preS1 and the human protein disulfide isomerase ERp57 are involved in hepatitis B virus membrane fusion process (0)
Macromolecular Interplay and Traffic on DNA: Workshop, Evry, July 2002 (0)

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Computer Science