Rita Casadio

Rita Casadio's AcademicInfluence.com Rankings

Rita Casadio

Biology

#8235

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#11279

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Biochemistry

#1379

World Rank

#1503

Historical Rank

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Biology

Rita Casadio's Degrees

PhD Biochemistry University of Bologna

Why Is Rita Casadio Influential?

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According to Wikipedia, Rita Casadio is an Adjunct Professor of Biochemistry/Biophysics in the Department of Pharmacy and Biotechnology at the University of Bologna. Career She earned her degree in Physics at the University of Bologna, Italy. In 1987, she began her academic career as an Assistant Professor of Biophysics at the University of Bologna, later becoming a full professor of Biochemistry/Biophysics in 2001. Her research primarily focuses on membrane and protein biophysics, as well as computer modeling of biological processes, including protein folding, stability and interactions.

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Rita Casadio'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 Works

I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure (2005) (1453)
Transglutaminases: nature's biological glues. (2002) (974)
A large-scale evaluation of computational protein function prediction (2013) (784)
Predicting the insurgence of human genetic diseases associated to single point protein mutations with support vector machines and evolutionary information (2006) (746)
Transmembrane helices predicted at 95% accuracy (1995) (652)
Topology prediction for helical transmembrane proteins at 86% accuracy–Topology prediction at 86% accuracy (1996) (641)
Functional annotations improve the predictive score of human disease‐related mutations in proteins (2009) (576)
PredGPI: a GPI-anchor predictor (2008) (527)
Algorithms in Bioinformatics, 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings (2005) (500)
ConSeq: the identification of functionally and structurally important residues in protein sequences (2004) (475)
An expanded evaluation of protein function prediction methods shows an improvement in accuracy (2016) (316)
A three-state prediction of single point mutations on protein stability changes (2007) (293)
Prediction of protein--protein interaction sites in heterocomplexes with neural networks. (2002) (282)
BaCelLo: a balanced subcellular localization predictor (2006) (278)
Prediction of coordination number and relative solvent accessibility in proteins (2002) (263)
A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding. (2015) (230)
Prediction of contact maps with neural networks and correlated mutations. (2001) (230)
The implications of alternative splicing in the ENCODE protein complement (2007) (227)
WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation (2013) (225)
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens (2019) (219)
A sequence-profile-based HMM for predicting and discriminating beta barrel membrane proteins (2002) (212)
BUSCA: an integrative web server to predict subcellular localization of proteins (2018) (198)
A neural network based predictor of residue contacts in proteins. (1999) (179)
Predicting protein stability changes from sequences using support vector machines (2005) (173)
A neural-network-based method for predicting protein stability changes upon single point mutations (2004) (170)
Progress and challenges in predicting protein-protein interaction sites (2008) (167)
Role of evolutionary information in predicting the disulfide‐bonding state of cysteine in proteins (1999) (145)
SDHA loss-of-function mutations in KIT-PDGFRA wild-type gastrointestinal stromal tumors identified by massively parallel sequencing. (2011) (140)
An initial comparative map of copy number variations in the goat (Capra hircus) genome (2010) (123)
INPS-MD: a web server to predict stability of protein variants from sequence and structure (2016) (122)
Prediction of the transmembrane regions of β‐barrel membrane proteins with a neural network‐based predictor (2001) (122)
CBFA2T3-GLIS2 fusion transcript is a novel common feature in pediatric, cytogenetically normal AML, not restricted to FAB M7 subtype. (2013) (121)
Tools and data services registry: a community effort to document bioinformatics resources (2015) (120)
Prediction of disulfide connectivity in proteins (2001) (115)
The structural basis for the regulation of tissue transglutaminase by calcium ions. (1999) (115)
Progress in predicting inter‐residue contacts of proteins with neural networks and correlated mutations (2001) (113)
Reconstruction of 3D Structures From Protein Contact Maps (2007) (107)
A first comparative map of copy number variations in the sheep genome. (2011) (105)
Analysis of canine parvovirus sequences from wolves and dogs isolated in Italy. (2001) (103)
Thermodynamics and kinetics of photophosphorylation in bacterial chromatophores and their relation with the transmembrane electrochemical potential difference of protons. (1977) (102)
Preprotein translocase of the outer mitochondrial membrane: reconstituted Tom40 forms a characteristic TOM pore. (2005) (99)
INPS: predicting the impact of non-synonymous variations on protein stability from sequence (2015) (93)
Structure-based computational study of the catalytic and inhibition mechanisms of urease (2001) (93)
A 3D model of the voltage‐dependent anion channel (VDAC) (2002) (91)
An ENSEMBLE machine learning approach for the prediction of all-alpha membrane proteins (2003) (89)
Analysis of all subunits, SDHA, SDHB, SDHC, SDHD, of the succinate dehydrogenase complex in KIT/PDGFRA wild-type GIST (2013) (88)
The Ectodomain of Herpes Simplex Virus Glycoprotein H Contains a Membrane α-Helix with Attributes of an Internal Fusion Peptide, Positionally Conserved in the Herpesviridae Family (2005) (87)
Thinking the Impossible (2007) (87)
DeepSig: deep learning improves signal peptide detection in proteins (2017) (84)
A new decoding algorithm for hidden Markov models improves the prediction of the topology of all-beta membrane proteins (2005) (81)
A genome wide association study for backfat thickness in Italian Large White pigs highlights new regions affecting fat deposition including neuronal genes (2012) (79)
Molecular mechanism of thioredoxin regulation in photosynthetic A2B2-glyceraldehyde-3-phosphate dehydrogenase (2007) (78)
Systematic analysis of human kinase genes: a large number of genes and alternative splicing events result in functional and structural diversity (2005) (76)
Model of interaction of the IL‐1 receptor accessory protein IL‐1RAcP with the IL‐1β/IL‐1RI complex (2001) (76)
Correlating disease‐related mutations to their effect on protein stability: A large‐scale analysis of the human proteome (2011) (74)
On the determination of the transmembrane pH difference in bacterial chromatophores using 9-aminoacridine. (1974) (72)
SPEPlip: the detection of signal peptide and lipoprotein cleavage sites (2003) (70)
Identification and association analysis of several hundred single nucleotide polymorphisms within candidate genes for back fat thickness in Italian Large White pigs using a selective genotyping approach. (2012) (69)
eSLDB: eukaryotic subcellular localization database (2006) (67)
Refining Neural Network Predictions for Helical Transmembrane Proteins by Dynamic Programming (1996) (65)
New functions of an old protein: the eukaryotic porin or voltage dependent anion selective channel (VDAC). (2003) (64)
The prediction of protein subcellular localization from sequence: a shortcut to functional genome annotation. (2008) (64)
Blurring contact maps of thousands of proteins: what we can learn by reconstructing 3D structure (2011) (63)
Light-dark adaptation of bacteriorhodopsin in triton-treated purple membrane. (1980) (61)
Ligand-induced conformational changes in tissue transglutaminase: Monte Carlo analysis of small-angle scattering data. (2000) (61)
Prediction of the disulfide bonding state of cysteines in proteins with hidden neural networks. (2002) (60)
FT-COMAR: fault tolerant three-dimensional structure reconstruction from protein contact maps (2008) (60)
Improved prediction of the number of residue contacts in proteins by recurrent neural networks (2001) (60)
Sequence-based feature prediction and annotation of proteins (2009) (59)
BaCelLo: a Balanced subCellular Localization predictor. (2007) (55)
K-Fold: a tool for the prediction of the protein folding kinetic order and rate (2007) (55)
New Escherichia coli outer membrane proteins identified through prediction and experimental verification (2006) (53)
Fast overlapping of protein contact maps by alignment of eigenvectors (2010) (53)
Isothermal and non-isothermal bioreactors in the detoxification of waste waters polluted by aromatic compounds by means of immobilised laccase from Rhus vernicifera (2004) (49)
Predictions of protein segments with the same aminoacid sequence and different secondary structure: A benchmark for predictive methods (2000) (48)
Limited cooperativity in the coupling between electron flow and photosynthetic ATP synthesis A comparative study in chromatophores phosphorylating at very different rates (1978) (48)
Predicting protein thermostability changes from sequence upon multiple mutations (2008) (47)
DeepMito: accurate prediction of protein sub-mitochondrial localization using convolutional neural networks (2019) (47)
MemLoci: predicting subcellular localization of membrane proteins in eukaryotes (2011) (47)
eDGAR: a database of Disease-Gene Associations with annotated Relationships among genes (2017) (46)
Effect of protein-protein interaction on light adaptation of bacteriorhodopsin. (1980) (45)
BETAWARE: a machine-learning tool to detect and predict transmembrane beta-barrel proteins in prokaryotes (2013) (43)
PONGO: a web server for multiple predictions of all-alpha transmembrane proteins (2006) (43)
Prediction of the disulfide‐bonding state of cysteines in proteins at 88% accuracy (2002) (43)
A high diffusion coefficient for coenzyme Q10 might be related to a folded structure (1998) (42)
The effect of backbone on the small-world properties of protein contact maps (2008) (42)
Prediction of disulfide‐bonded cysteines in proteomes with a hidden neural network (2004) (41)
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing (2010) (41)
CCHMM_PROF: a HMM-based coiled-coil predictor with evolutionary information (2009) (41)
The WWWH of remote homolog detection: The state of the art (2006) (40)
Use of estimated evolutionary strength at the codon level improves the prediction of disease‐related protein mutations in humans (2008) (40)
Fishing new proteins in the twilight zone of genomes: The test case of outer membrane proteins in Escherichia coli K12, Escherichia coli O157:H7, and other Gram‐negative bacteria (2003) (40)
Influence of the immobilisation process on the activity of β-galactosidase bound to nylon membranes grafted with glycidyl methacrylate: Part 2. Non-isothermal behaviour (2001) (40)
Calibration of the response of 9-amino acridine fluorescence to transmembrane pH differences in bacterial chromatophores. (1985) (38)
The pros and cons of predicting protein contact maps. (2008) (38)
Modulating the thermostability of Endoglucanase I from Trichoderma reesei using computational approaches. (2015) (37)
Faculty Opinions recommendation of Structural basis for the recognition of SARS-CoV-2 by full-length human ACE2. (2020) (36)
Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges (2017) (36)
Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization (2011) (36)
TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs (2014) (36)
Plant and animal transglutaminases: do similar functions imply similar structures? (2009) (35)
Solvent Accessibility of Residues Undergoing Pathogenic Variations in Humans: From Protein Structures to Protein Sequences (2021) (35)
Electrochemical proton gradient and phosphate potential in bacterial chromatophores (1974) (35)
TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins (2015) (35)
Effect of molecular confinement on internal enzyme dynamics: frequency domain fluorometry and molecular dynamics simulation studies. (2002) (34)
Histone deacetylase 1: a target of 9-hydroxystearic acid in the inhibition of cell growth in human colon cancer Published, JLR Papers in Press, February 16, 2005. DOI 10.1194/jlr.M400424-JLR200 (2005) (34)
The effect of tryptophanyl substitution on folding and structure of myoglobin. (2000) (33)
Electron Transfer, Proton Translocation, and ATP Synthesis in Bacterial Chromatophores (1981) (33)
Characteristics of the somatic hypermutation in the Camelus dromedarius T cell receptor gamma (TRG) and delta (TRD) variable domains. (2014) (33)
Mutant MYO1F alters the mitochondrial network and induces tumor proliferation in thyroid cancer (2018) (33)
MaxSubSeq: an algorithm for segment-length optimization. The case study of the transmembrane spanning segments (2003) (33)
Searching for signatures of cold adaptations in modern and archaic humans: hints from the brown adipose tissue genes (2014) (31)
EX-HOM (EXome HOMozygosity): A Proof of Principle (2011) (30)
Prediction of the Number of Residue Contacts in Proteins (2000) (30)
Measurements of transmembrane pH differences of low extents in bacterial chromatophores (1991) (30)
Large scale analysis of protein stability in OMIM disease related human protein variants (2016) (29)
Functional Characterization of a Second Porin Isoform in Drosophila melanogaster (2004) (29)
MemPype: a pipeline for the annotation of eukaryotic membrane proteins (2011) (29)
The behavior of 9-aminoacridine as an indicator of transmembrane pH difference in liposomes of natural bacterial phospholipids (1977) (29)
The human "magnesome": detecting magnesium binding sites on human proteins (2012) (28)
BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences (2011) (27)
BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming (2013) (27)
Generation of diversity by somatic mutation in the Camelus dromedarius T‐cell receptor gamma variable domains (2012) (27)
Role of the C-terminus of Pleurotus eryngii Ery4 laccase in determining enzyme structure, catalytic properties and stability. (2013) (27)
Expression of IGF-1 receptor in KIT/PDGF receptor-α wild-type gastrointestinal stromal tumors with succinate dehydrogenase complex dysfunction. (2013) (26)
On the effect of protein conformation diversity in discriminating among neutral and disease related single amino acid substitutions (2012) (26)
AB INITIO STUDY OF THE MECHANISM OF THE BINDING OF TRIPLET O2 TO HEMOCYANIN (1996) (26)
HTP: a neural network-based method for predicting the topology of helical transmembrane domains in proteins (1996) (25)
On the biases in predictions of protein stability changes upon variations: the INPS test case (2018) (25)
Improving the detection of transmembrane β-barrel chains with N-to-1 extreme learning machines (2011) (24)
Phospholipid-enriched bacterial chromatophores. A system suited to investigate the ubiquinone-mediated interactions of protein complexes in photosynthetic oxidoreduction processes. (1984) (24)
ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model (2017) (24)
Genomic and expression analyses of Tursiops truncatus T cell receptor gamma (TRG) and alpha/delta (TRA/TRD) loci reveal a similar basic public γδ repertoire in dolphin and human (2016) (23)
LGANN: a parallel system combining a local genetic algorithm and neural networks for the prediction of secondary structure of proteins (1995) (23)
Exploring copy number variation in the rabbit (Oryctolagus cuniculus) genome by array comparative genome hybridization. (2012) (22)
Substitution in the Murine Nectin1 Receptor of a Single Conserved Amino Acid at a Position Distal from the Herpes Simplex Virus gD Binding Site Confers High-Affinity Binding to gD (2002) (22)
NET-GE: a novel NETwork-based Gene Enrichment for detecting biological processes associated to Mendelian diseases (2015) (22)
3D structure of Sulfolobus solfataricus carboxypeptidase developed by molecular modeling is confirmed by site-directed mutagenesis and small angle X-ray scattering. (2003) (21)
In silico prediction of the structure of membrane proteins: Is it feasible? (2003) (20)
Blind prediction of deleterious amino acid variations with SNPs&GO (2017) (20)
Substrate-induced conformational changes of the mitochondrial oxoglutarate carrier: a spectroscopic and molecular modelling study (2005) (20)
Predicting Free Energy Contribution to the Conformational Stability of Folded Proteins From the Residue Sequence with Radial Basis Function Networks (1995) (20)
Grammatical-Restrained Hidden Conditional Random Fields for Bioinformatics applications (2009) (20)
An entropy criterion to detect minimally frustrated intermediates in native proteins. (1998) (20)
Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations (2013) (20)
Hierarchical Mechanochemical Switches in Angiostatin (2006) (20)
Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants (2019) (19)
The Bologna Annotation Resource (BAR 3.0): improving protein functional annotation (2017) (19)
Characterisation of immunodominant protein encoded by the F1L gene of orf virus strains isolated in Italy (2002) (19)
A neural network approach to evaluate fold recognition results (2003) (19)
The bologna annotation resource: a non hierarchical method for the functional and structural annotation of protein sequences relying on a comparative large-scale genome analysis. (2009) (18)
High-throughput SNP discovery in the rabbit (Oryctolagus cuniculus) genome by next-generation semiconductor-based sequencing. (2014) (18)
The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields (2013) (18)
Biallelic variants in LIG3 cause a novel mitochondrial neurogastrointestinal encephalomyopathy. (2021) (17)
MIMO: an efficient tool for molecular interaction maps overlap (2013) (17)
A Shannon entropy‐based filter detects high‐ quality profile–profile alignments in searches for remote homologues (2003) (17)
RCNPRED: prediction of the residue co-ordination numbers in proteins (2001) (17)
Thermodynamics of binding of regulatory ligands to tissue transglutaminase (2010) (17)
A novel subfamily of mitochondrial dicarboxylate carriers from Drosophila melanogaster: biochemical and computational studies. (2011) (17)
Protein–Protein Interaction Methods and Protein Phase Separation (2020) (16)
A novel RGDS-analog inhibits angiogenesis in vitro and in vivo. (2004) (16)
Frataxin mRNA Isoforms in FRDA Patients and Normal Subjects: Effect of Tocotrienol Supplementation (2013) (15)
Evaluating the predictions of the protein stability change upon single amino acid substitutions for the FXN CAGI5 challenge (2019) (15)
Allergenicity of different apple cultivars assessed by means of skin prick test and sensitisation to recombinant allergens Mal d 1 and Mal d 3 in a group of Italian apple-allergic patients (2010) (15)
Benchmarking predictions of allostery in liver pyruvate kinase in CAGI4 (2017) (15)
Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models (2007) (14)
A neural network method to improve prediction of protein-protein interaction sites in heterocomplexes (2003) (14)
CaATP inhibition of the MgATP-dependent proton pump (H+-ATPase) in bacterial photosynthetic membranes with a mechanism of alternative substrate inhibition (1996) (14)
Predicting secondary structures of membrane proteins with neural networks (2004) (13)
Assessment of methods for predicting the effects of PTEN and TPMT protein variants (2019) (13)
Pressure and temperature as tools for investigating the role of individual non-covalent interactions in enzymatic reactions Sulfolobus solfataricus carboxypeptidase as a model enzyme. (2006) (13)
NET-GE: a web-server for NETwork-based human gene enrichment (2016) (13)
Kinetic characterization of the ATP-dependent proton pump in bacterial photosynthetic membranes : a study with the fluorescent probe 9-amino-6-chloro-2-methoxyacridine (1993) (13)
Assessing predictions of the impact of variants on splicing in CAGI5 (2019) (12)
An ab initio study of the dioxygen binding site of hemocyanin: A comparison between CASSCF, CASPT2, and DFT approaches (1996) (12)
Draft genomes and genomic divergence of two Lepidurus tadpole shrimp species (Crustacea, Branchiopoda, Notostraca) (2018) (12)
TRAMPLE: the transmembrane protein labelling environment (2005) (12)
Expression of different forms of transglutaminases by immature cells of Helianthus tuberosus sprout apices (2012) (12)
Conformational changes of neuromedin B and delta sleep-inducing peptide induced by their interaction with lipid membranes as revealed by spectroscopic techniques and molecular dynamics simulation. (1998) (11)
Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges (2019) (11)
Characterization of 9-aminoacridine interaction with chromatophore membranes and modelling of the probe response to artificially induced transmembrane delta pH values. (1995) (11)
How to inherit statistically validated annotation within BAR+ protein clusters (2013) (11)
Erratum to: Genomic and expression analyses of Tursiops truncatus T cell receptor gamma (TRG) and alpha/delta (TRA/TRD) loci reveal a similar basic public γδ repertoire in dolphin and human (2016) (11)
Is There an Optimal Substitution Matrix for Contact Prediction with Correlated Mutations? (2011) (10)
Assessing predictions on fitness effects of missense variants in calmodulin (2019) (10)
Oligomerization of Sulfolobus solfataricus signature amidase is promoted by acidic pH and high temperature. (2005) (10)
Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI (2017) (10)
A Graph Theoretic Approach to Protein Structure Selection (2007) (10)
SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments. (2016) (10)
CAGI SickKids challenges: Assessment of phenotype and variant predictions derived from clinical and genomic data of children with undiagnosed diseases (2019) (10)
A predictor of transmembrane alpha-helix domains of proteins based on neural networks. (1996) (9)
Machine learning solutions for predicting protein–protein interactions (2022) (9)
Cloning, functional identification and structural modelling of Vitis vinifera S-adenosylmethionine decarboxylase. (2007) (9)
SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments (2016) (9)
Functional and Structural Features of Disease-Related Protein Variants (2019) (9)
PhenPath: a tool for characterizing biological functions underlying different phenotypes (2019) (9)
Can functional regions of proteins be predicted from their coding sequences? The case study of G-protein coupled receptors. (1998) (9)
Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI‐5 (2019) (8)
Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer (2019) (8)
A predictor of transmembrane α-helix domains of proteins based on neural networks (2004) (8)
Fault Tolerance for Large Scale Protein 3D Reconstruction from Contact Maps (2007) (8)
Dynamics of the minimally frustrated helices determine the hierarchical folding of small helical proteins. (2004) (8)
BRCA1 p.His1673del is a pathogenic mutation associated with a predominant ovarian cancer phenotype (2017) (8)
The Prediction of Membrane Protein Structure and Genome Structural Annotation (2003) (8)
Neural Networks Predict Protein Folding and Structure: Artificial Intelligence Faces Biomolecular Complexity (2000) (7)
The prediction of protein secondary structure with a Cascade Correlation Learning Architecture of neural networks (1997) (7)
A combined approach of mass spectrometry, molecular modeling, and site‐directed mutagenesis highlights key structural features responsible for the thermostability of Sulfolobus solfataricus carboxypeptidase (2008) (7)
Evaluation of the electrical capacitance in biological membranes at different phospholipid to protein ratios (1988) (7)
Robust determinants of thermostability highlighted by a codon frequency index capable of discriminating thermophilic from mesophilic genomes. (2007) (7)
The prediction of protein-protein interacting sites in genome-wide protein interaction networks: the test case of the human cell cycle. (2010) (7)
BetAware-Deep: An Accurate Web Server for Discrimination and Topology Prediction of Prokaryotic Transmembrane β-barrel Proteins. (2020) (7)
Tryptophanyl fluorescence lifetime distribution of hyperthermophilic β‐glycosidase from molecular dynamics simulation: A comparison with the experimental data (2000) (7)
Phospholipid composition of photosynthetic membranes of Rhodopseudomonas capsulata. (1979) (7)
The effect of membranes on the conformation of neuromedin C. (1995) (7)
Assessing computational predictions of the phenotypic effect of cystathionine‐beta‐synthase variants (2019) (6)
On the critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation (2019) (6)
On the Reconstruction of Three-dimensional Protein Structures from Contact Maps (2009) (6)
Noise and randomlike behavior of perceptrons: Theory and applicationto protein structure prediction (1997) (6)
Haplotype of single nucleotide polymorphisms in exon 6 of the MZF-1 gene and Alzheimer's disease. (2013) (6)
Thinking the impossible: how to solve the protein folding problem with and without homologous structures and more. (2007) (6)
A low-resolution 3D model of the tetrameric alcohol dehydrogenase from Sulfolobus solfataricus. (2002) (6)
Are machine learning based methods suited to address complex biological problems? Lessons from CAGI‐5 challenges (2019) (6)
Reduction of Active Elastase Concentration by Means of Immobilized Inhibitors: A Novel Therapeutic Approach (2004) (6)
Ancient pathogen-driven adaptation triggers increased susceptibility to non-celiac wheat sensitivity in present-day European populations (2016) (6)
Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito (2020) (5)
Molecular modelling evaluation of exon 18 His845_Asn848delinsPro PDGFRα mutation in a metastatic GIST patient responding to imatinib (2019) (5)
SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation (2013) (5)
High Throughput Comparison of Prokaryotic Genomes (2007) (5)
Predicting cancer-associated germline variations in proteins (2012) (5)
Using community events to increase quality and adoption of standards: the case of Bioschemas (2018) (5)
Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm (2019) (5)
A computational approach for detecting peptidases and their specific inhibitors at the genome level (2007) (5)
Divide and Conquer Strategies for Protein Structure Prediction (2011) (5)
Assessment of predicted enzymatic activity of α‐N‐acetylglucosaminidase variants of unknown significance for CAGI 2016 (2019) (5)
Prediction of the Bonding State of Cysteine Residues in Proteins with Machine-Learning Methods (2010) (5)
AlignBucket: a tool to speed up 'all-against-all' protein sequence alignments optimizing length constraints (2015) (4)
The posterior-Viterbi: a new decoding algorithm for hidden Markov models (2005) (4)
Whole Genome Sequence Analysis of Brucella abortus Isolates from Various Regions of South Africa (2021) (4)
Protein structure prediction and biomolecular recognition: From protein sequence to peptidomimetic design with the human β 3 integrin (2002) (4)
Quantum mechanical analysis of oxygenated and deoxygenated states of hemocyanin: Theoretical clues for a plausible allosteric model of oxygen binding (1999) (4)
BENZ WS: the Bologna ENZyme Web Server for four-level EC number annotation (2021) (4)
Large scale analysis of protein stability in OMIM disease related human protein variants (2016) (4)
Bacterial photosynthetic phosphorylation under conditions of limited electron flow. (1977) (4)
The LIBI Grid Platform for Bioinformatics (2008) (4)
Computer-based prediction of mitochondria-targeting peptides. (2015) (4)
Mapping OMIM Disease–Related Variations on Protein Domains Reveals an Association Among Variation Type, Pfam Models, and Disease Classes (2021) (4)
Neural networks to study invariant features of protein folding (1999) (4)
Prediction of Protein-Protein Interacting Sites: How to Bridge Molecular Events to Large Scale Protein Interaction Networks (2009) (4)
I-Mutant: predicting protein stability upon mutation (2004) (4)
Comparative genomics of tadpole shrimps (Crustacea, Branchiopoda, Notostraca): Dynamic genome evolution against the backdrop of morphological stasis. (2021) (3)
Rotational mobility and domain flexibility of membrane-bound bacterial coupling factor as detected with the triplet probe eosin-isothiocyanate (1985) (3)
The evaluation of protein folding rate constant is improved by predicting the folding kinetic order with a SVM-based method (2006) (3)
Mapping and annotating obesity-related genes in pig and human genomes. (2013) (3)
Turning Failures into Applications: The Problem of Protein ΔΔG Prediction. (2022) (3)
Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters: The Case Study of the ABC Transporters (2013) (3)
DeepREx-WS: A web server for characterising protein–solvent interaction starting from sequence (2021) (3)
Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins (2011) (3)
Metals and Metalloids in Photosynthetic Bacteria: Interactions, Resistance and Putative Homeostasis Revealed by Genome Analysis (2009) (3)
Performance of in silico tools for the evaluation of p 16 INK 4 a ( CDKN 2 A ) variants in CAGI (2017) (3)
On the Upper Bound of the Prediction Accuracy of Residue Contacts in Proteins with Correlated Mutations: The Case Study of the Similarity Matrices (2009) (3)
Evaluation of the Surface Potential at the Membrane-Solution Interface of Photosynthetic Bacterial Systems (1992) (3)
From Protein Variations to Biological Processes and Pathways with NET-GE (2017) (2)
The state of the art of membrane protein structure prediction: from sequence to 3D structure (2008) (2)
Reconstruction of the protein structures from contact maps (2006) (2)
Improving Coiled-Coil Prediction with Evolutionary Information (2009) (2)
379 Transglutaminases : Nature ’ s biological glues (2)
E-SNPs&GO: embedding of protein sequence and function improves the annotation of human pathogenic variants (2022) (2)
Huntingtin: A Protein with a Peculiar Solvent Accessible Surface (2021) (2)
Computer-Aided Prediction of Protein Mitochondrial Localization. (2021) (2)
Cauliflower Mosaic Virus TAV, a Plant Virus Protein That Functions like Ribonuclease H1 and is Cytotoxic to Glioma Cells (2020) (2)
Predicting the Insurgence of Human Genetic Diseases Due to Single Point Protein Mutation using Machine Learning Approach. (2007) (2)
Fusion of bacteriorhodopsin with submitochondrial particles yields a new system with retention of energy coupling and acquisition of photophosphorylation activity (1985) (2)
Binding mode of the tyrosine kinase inhibitor bosutinib (SKI-606) to Abl kinase (2007) (2)
NETGE-PLUS: standard and network-based gene enrichment analysis in human and model organisms. (2020) (2)
SVMyr: A Web Server Detecting Co- and Post-translational Myristoylation in Proteins. (2022) (2)
A Data Base of Minimally Frustrated Alpha-Helical Segments Extracted from Proteins According to an Entropy Criterion (1999) (2)
Noise and randomlike behavior in perceptrons: theory and application to protein structure prediction (1996) (2)
Topology prediction of membrane proteins: how distantly related homologs come into play (2010) (2)
Ancient DNA SNP-panel data suggests stability in bluefin tuna genetic diversity despite centuries of fluctuating catches in the eastern Atlantic and Mediterranean (2021) (2)
Structural analysis of membranes from photosynthetic bacteria by SANS (1997) (1)
The oligomycin-sensitive Ca-ATPase of chromatophores from photosynthetic bacteria is not coupled to delta muH+ generation. (1988) (1)
Protein Functional Annotation (2019) (1)
a community effort to document bioinformatics resources (2015) (1)
MIMO: an efficient tool for molecular interaction maps overlap (2013) (1)
Highlighting Human Enzymes Active in Different Metabolic Pathways and Diseases: The Case Study of EC 1.2.3.1 and EC 2.3.1.9 (2020) (1)
Predicting cancer-associated germline variations in proteins (2012) (1)
A Glance into MTHFR Deficiency at a Molecular Level (2021) (1)
Disulfide Connectivity Prediction with Extreme Learning Machines (2011) (1)
High Throughput Protein Similarity Searches in the LIBI Grid Problem Solving Environment (2007) (1)
SDHA and SDHB mutations in KIT/PDGFRA WT gastrointestinal stromal tumors. (2012) (1)
Protein structure prediction and biomolecular recognition: from protein sequence to peptidomimetic design with the human beta3 integrin. (2002) (1)
The Physical Chemistry of Membranes. : M.E. Starzak. Academic Press, London, 1984, 334 pp., £38.00. (1986) (1)
The LIBI Grid Platform an International Laboratory for Bioinformatics (2008) (1)
$$\Delta \tilde \mu _{{\rm H}^ + } $$ determination in phospholipid vesicles reconstituted with aggregated and monomeric bacteriorhodopsindetermination in phospholipid vesicles reconstituted with aggregated and monomeric bacteriorhodopsin (1981) (1)
Identification of SDHA (subunit A of the succinate dehydrogenase) mutations in KIT/PDGFRA WT gastrointestinal stromal tumors (GISTs). (2011) (1)
Selective Genotyping Analysis of 677 SNPs to Identify Markers Associated with Back Fat Thickness in Italian Large White Pigs (2010) (1)
NETGE-PLUS: standard and network-based gene enrichment analysis in human and model organisms (2019) (1)
Structure prediction of globular proteins (2008) (1)
A pipeline for predicting the function of the AFP/CAFA 2014 targets atthe Bologna Biocomputing Group (2014) (1)
The side chain of glutamine 13 is the acyl-donor amino acid modified by type 2 transglutaminase in subunit T of the native rabbit skeletal muscle troponin complex (2011) (1)
Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations (2013) (1)
DCCD-sensitive proton permeability of bacterial photosynthetic membranes. Cross-reconstitution studies with purified bovine heart Fo subunits. (1996) (1)
Cover Picture: Hierarchical Mechanochemical Switches in Angiostatin (ChemBioChem 11/2006) (2006) (1)
Prediction of Signal Peptide in Proteins with Neural Networks (2003) (1)
Protein Sequence Annotation by means of Community Detection (2015) (1)
P3012 Deconstructing the pig genome-metabolome functional interactions. (2016) (1)
How many membrane proteins in the Human genome? MANHUNTER at work (2004) (1)
WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation (2013) (1)
A Protein Structure Prediction Service in the ProGenGrid System (2008) (1)
In Silico Evidence of the Relationship Between miRNAs and siRNAs (2007) (1)
A New Protein Representation Based on Fragment Contacts: Towards an Improvement of Contact Maps Predictions (2009) (1)
The human "magnesome": detecting magnesium binding sites on human proteins (2012) (1)
Machine learning and the prediction of protein structure: the state of the art (2006) (1)
Computational Resources for Molecular Biology 2022. (2022) (1)
A comparative analysis of copy number variation of the sheep and goat genomes (2010) (1)
Improving the prediction of helix-residue contacts in all-alpha proteins (2008) (1)
How to inherit statistically validated annotation within BAR+ protein clusters (2013) (1)
Community Detection within Clusters Helps Large Scale Protein Annotation - Preliminary Results of Modularity Maximization for the BAR+ Database (2013) (1)
Author Correction: DOME: recommendations for supervised machine learning validation in biology (2021) (1)
NET-GE: a novel NETwork-based Gene Enrichment for detecting biological processes associated to Mendelian diseases (2015) (1)
Functional and structural annotation of human protein variants originated from alternative splicing in human (2010) (0)
INFLUENCE OF CLIMATE CHANGES ON POLLEN TRANSGLUTAMINASE: POSSIBLE INVOLVEMENT ON CROSS ALLERGENICITIES (2009) (0)
Genome scale-annotation of membrane proteins and more.. (2007) (0)
On the effect of protein conformation diversity in discriminating among neutral and disease related single amino acid substitutions (2012) (0)
Faculty Opinions recommendation of Efflux Pumps Represent Possible Evolutionary Convergence onto the β-Barrel Fold. (2018) (0)
A machine learning approach for predicting kinetic order and rate constant of protein folding (2006) (0)
Faculty of 1000 evaluation for Structure of a prehandover mammalian ribosomal SRP•SRP receptor targeting complex. (2018) (0)
The human "magnesome": how to detect human proteins that can bind Mg ions (2011) (0)
Erratum to: Genomic and expression analyses of Tursiops truncatus T cell receptor gamma (TRG) and alpha/delta (TRA/TRD) loci reveal a similar basic public γδ repertoire in dolphin and human (2016) (0)
Protein-protein interaction with neural networks: detecting the interaction patches (2004) (0)
Thanks to our reviewers in 2014 (2015) (0)
Human Mutation (2019) (0)
Brief Report (2013) (0)
Reviewers acknowledgement (2008) (0)
2010 TCBB Reviewers List (2011) (0)
Prediction of the insurgence of human genetic diseases due to single point protein mutation (2005) (0)
The FAGenomicH project: towards a whole candidate gene approach to identify markers associated with fatness and production traits in pigs and investigate the pig as a model for human obesity (2009) (0)
From protein sequence to function and structure with BAR (2011) (0)
Transmembrane Domain Prediction (2019) (0)
CORNET: a server for the prediction of residue contacts in proteins (2004) (0)
BIOINFORMATICS FOR SYSTEMS & SYNTHETIC BIOLOGYNew approaches and algorithms to cope with the future of Biological ScienceBOLOGNA WINTER SCHOOL 2007 ( 18-23/02/2007) Bologna - Italy (2007) (0)
Ancient pathogen-driven adaptation triggers increased susceptibility to non-celiac wheat sensitivity in present-day European populations (2016) (0)
Analysis of copy number variations in the European rabbit (Oryctolagus cuniculus) genome (2011) (0)
Bioinformatics in Italy: BITS2006, the third annual meeting of the Italian Society of Bioinformatics (2007) (0)
Prediction of Residue Contacts in Proteins with Neural Networks Based on Single Sequence Information (2007) (0)
2012 Reviewers List (2013) (0)
The Identification of Locally Ordered Features an Completely unaligned Genomic Sequences by using an Unsupervised Neural Classifier (1996) (0)
Extended and robust protein sequence annotation over conservative non hierarchical clusters. The Bologna Annotation Resource v 2.0 (2010) (0)
A mathematical model relating diffusion of hydrophobic ions to their adsorption on biological membranes as detected with a microdialyzer (1993) (0)
SB4ER: an ELIXIR Service Bundle for Epidemic Response (2021) (0)
57 Modelling ND subunits of complex I: Leber’s hereditary optic neuropathy (LHON) pathogenic mutations and non-synonymous population variants in genotype–phenotype correlation (2010) (0)
Guest Editor's Introduction to the Special Issue on Computational Biology and Bioinformatics -- Part 1 (2006) (0)
Session details: Breaking frontiers of computational biology (2009) (0)
The melting pot of tools for function prediction (2004) (0)
Automatic learning tools applied to the problem of predicting protein protein interaction (2004) (0)
Predicting protein structure and function from sequence with BAR, the Bologna Annotation Resource. (2009) (0)
The side chain of glutamine 13 is the acyl-donor amino acid modified by type 2 transglutaminase in subunit T of the native rabbit skeletal muscle troponin complex (2011) (0)
Wood feeding and social living: Draft genome of the subterranean termite Reticulitermes lucifugus (Blattodea; Termitoidae) (2022) (0)
Frataxin mRNA abundance and their isoforms in Friedriech's VAtaxia patients and in normal subjects; effect of tocotrienol supplementation (2011) (0)
eDGAR and PhenPath resources join the Bioschemas Community (2020) (0)
The stateof the art ofmembraneprotein structure prediction : from sequence to 3 D structure (2009) (0)
Chapter 2 Divide and Conquer Strategies for Protein Structure Prediction (2017) (0)
Protein structure prediction: the state of the art (2004) (0)
Ismb/eccb 2019 Proceedings Papers Committee (2019) (0)
Self-Organizing Neural Maps of the Coding Sequences of G-protein-coupled Receptors Reveal Local Domains Associated with Potentially Functional Determinants in the Proteins (1997) (0)
International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008, June 29 - July 5, 2008, Bucharest, Romania (2008) (0)
Proof-of-concept implementation of human genomics variant calling pipeline using BioContainers and Galaxy (2019) (0)
Pseudodihedral Potential of Protein Residues and the Prediction of Folding (1997) (0)
Analysing the relations among genes and polygenic diseases with eDGAR (2017) (0)
An integrated bioinformatic platform to query the pig genome (2009) (0)
ISPRED-SEQ: Deep neural networks and embeddings for predicting interaction sites in protein sequences (2022) (0)
Prediction of protein stability upon single point mutations (2004) (0)
The Ectodomain of Herpes Simplex Virus Glycoprotein H Contains a Membrane α-Helix with Attributes of an Internal Fusion Peptide, Positionally Conserved in the Herpesviridae Family (2007) (0)
Electron Correlation in Quantum Molecular Biophysics: The Case Study of Hemocyanin (1998) (0)
Rare Disease Service Bundle – Assessing Molecular Pathogenicity for Rare Diseases (AMP4RD) (2020) (0)
Hot Topics in Structural Genomics. 2003 Bologna Winter School (2003) (0)
Genomic and expression analyses of Tursiops truncatus T cell receptor gamma (TRG) and alpha/delta (TRA/TRD) loci reveal a similar basic public γδ repertoire in dolphin and human (2016) (0)
Molecular modelling evaluation of exon 18 His845_Asn848delinsPro PDGFRα mutation in a metastatic GIST patient responding to imatinib (2019) (0)
The effect of mutations on protein stability changes: a three class pair residue discrimination study (2007) (0)
PhD-SNP, a web server for the prediction of human genetic diseases associated to single point protein mutation. (2006) (0)
The repertoire of gamma/delta TCR in dromedary is diversified by somatic mutation and CDR3 diversification (2011) (0)
Alternative Splicing in the ENCODE Protein complement (2008) (0)
A stochastic and computational method for estimating the folding rates of wild type and mutant proteins (2004) (0)
OP-CBIO181023 2525..2527 (2019) (0)
Merging crystallography, site-directed mutagenesis and molecular modelling to unravel the regulatory mechanism of photosynthetic GAPDH (2006) (0)
Bioinformatics and membrane proteins: is it feasible to predict the 3D structure of a membrane protein? (2005) (0)
Faculty Opinions recommendation of Opinion: Standardizing the definition of gene drive. (2020) (0)
Integrating ELIXIR Italy with ELIXIR Interoperability platform activities (2018) (0)
Bologna Winter School 2009- Machine Learning and Computational Biology:New paradigms for a new science - Bologna, February 2-6, 2009 (2009) (0)
A machine learning approach to predict cancer-related mutations (2008) (0)
Software systems for automatic annotation and discovery of pharmacologically-relevant proteins at the genome level. (2006) (0)
Faculty Opinions recommendation of Membrane shape and the regulation of biological processes. (2021) (0)
eDGAR: a database of Disease-Gene Associations with annotated Relationships among genes (2017) (0)
2008 Reviewers List (2009) (0)
Comparative analysis of pseudocowpoxvirus VEGF genes: evidence for interspecies recombination and different pattern of receptor activation (2010) (0)
Mapping human disease-associated enzymes into Reactome allows characterization of disease groups and their interactions (2022) (0)
A genome wide association study for backfat thickness in Italian Large White pigs highlights new regions affecting fat deposition including neuronal genes (2012) (0)
Identification of protein variants in gastrointestinal stromal tumor KIT/PDGFRA wild type (WT GISTs) with RNA massively parallel sequencing and computational analysis (2011) (0)
Prediction of the disulfide-bonding state of cysteines in proteins at 88% accuracy. (2003) (0)
Expression of different forms of transglutaminases by immature cells of Helianthus tuberosus sprout apices (2012) (0)
Algorithms in Bioinformatics: lecture notes in bioinformaticsProceedings of the 5th International Workshop on algorithms in bioinformatics (2005) (0)
Guest Editor's Introduction to the Special Section on Computational Biology and Bioinformatics (WABI) -- Part 2 (2007) (0)
An integrated bioinformatic platform for SNPs detection: the test case of the pig genome (2009) (0)
Function Prediction of Proteins from their Sequences with BAR 3.0 (2017) (0)
Bitter taste receptor genes in pigs: SNP identification by using next- generation semiconductor sequencing (2013) (0)
Blind-testing the entropy-filtered profile-profile alignment for fold recognition (2004) (0)
Combined genomics and metabolomics approaches to identify markers associated with production traits in pigs. (2013) (0)
ISMB 2010 Organization (2010) (0)
A Study of the Binding Mode and the In Vitro Activity of the Protein Tyrosine Kinase Inhibitor SKI-606 in the BCR-ABL Positive Cells. (2006) (0)
SCIENTIFIC PROGRAM May 28 , 2018 14 : 00 Participants Registration Session I · Protein Interactions and Dynamics Chairs : (2018) (0)
HOW COMPLEX IS FUNCTIONAL GENOMICS ?BOLOGNA WINTER SCHOOL 200513-19/02/2005Bologna - Italy (2005) (0)
On the zinc-dependent activation of the DNA methylphosphotriester repair domain of the Escherichia coli ADA (2000) (0)
Model of ligand/receptor complex formation by the IL-1-like cytokines IL-18 and IL-1F7 with IL-18RRα and with the accessory protein IL-18RRβ. (2007) (0)
Selective pressure at the codon level improves the prediction of disease related protein mutations in human (2008) (0)
Faculty Opinions recommendation of The unreasonable effectiveness of deep learning in artificial intelligence. (2020) (0)
Proceedings of the 5th International conference on Algorithms in Bioinformatics (2005) (0)
Possible involvement of transglutaminase in pollen/fruit allergenicity. (2008) (0)
Predicting protein stability changes from sequence with Support Vector Machines (2005) (0)
A new biotechnological approach to reduce the increase of the protease concentration during extracorporeal blood circulation in hemodyalisis or cardiopulmonary bypass operations (2004) (0)
ELIXIR-IT Industry engagement: overview of the work in progress (2019) (0)
The Determination of the Electrochemical Potential Difference of Protons in Bacterial Chromatophores (1985) (0)
BUILDING BY HOMOLOGY OF HUMAN TISSUE TRANSGLUTAMINASE (2000) (0)
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens (2019) (0)
781. Unravelling the genetic basis governing the porcine metabolism (2022) (0)
Computational Resources for Molecular Biology 2021. (2021) (0)
Trans-linking the protein-protein interactome at the cell level. (2010) (0)
Cover Picture (2018) (0)
Faculty Opinions recommendation of Enhancing gene set enrichment using networks. (2019) (0)
Identification of single nucleotide variants in gastrointestinal stromal tumor KIT/PDGFRA wild-type (WT GISTs) by massively parallel sequencing. (2011) (0)
Faculty Opinions recommendation of A framework for understanding the functions of biomolecular condensates across scales. (2021) (0)
DNCBLAST: a parallel BLAST for computer clusters (2003) (0)
Faculty Opinions recommendation of Profiling the dress codes of RNA-binding proteins. (2018) (0)
Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society (2005) (0)
Pathogenic variation types in human genes relate to diseases through Pfam and InterPro mapping (2022) (0)
Faculty Opinions recommendation of Network-based prediction of protein interactions. (2020) (0)
TRANSGLUTAMINASE OF POLLENS WITH DIFFERENT ALLERGENIC POTENTIAL IS DIFFERENTLY AFFECTED BY METEOROLOGICAL AND POLLUTANT CONDITIONS (2010) (0)
Is the Transmembrane Electrochemical Potential a Competent Intermediate in Membrane Associated ATP Synthesis (1984) (0)
Understanding Biology.: Burton S. Guttman and J.W. Hopkins. Harcourt Brace Jovanovich, London, 1983, 1024 pp., US$31.95. (1986) (0)
The 4th Bologna Winter School: Hot Topics in Structural Genomics (2003) (0)
Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm (2019) (0)
Large scale genome comparison in a GRID infrastructure (2007) (0)

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