vai alle Pubblicazioni
Publications prior to 2004
1
E1
Emanuela Occhipinti, B Gambirasio, Pier Luigi
Martelli, Francesco Spinozzi, Paolo Mariani, Rita Casadio
"3D Structure Of Sulfolobus solfataricus Carboxypeptidase
developed by Molecular Modeling"
The 4th International Congress on Extremophiles (Napoli,
22-23/9/2002) a cura di Rossi M, et al.
pp. 25-25, SIB, Napoli, 2002
2
A0
Emanuela Occhipinti, Pier Luigi Martelli,
Francesco Spinozzi, Federica Corsi, Cristina Fomantici, Laura
Molteni, Heintz Amenitsch, Rita Casadio
"3D structure of Sulfolobus solfataricus carboxypeptidase
developed by molecular modeling is confirmed by site-directed
mutagenesis and small angle X-ray scattering"
BIOPHYS J,
85, pp. 1165-1175 (2003)
[ISI: 20; IF: 4.643]
3
E1
Gianluca Tasco, Pier Luigi Martelli, Maria Luisa
Agostoni Carbone, Rita Casadio
"A critical assessment of model building by homology: the test
case of human GTP cyclohydrolase"
Scuola Nazionale di Biofisica, X ciclo (Bressanone (BZ),
10-13/9/2002) a cura di Rigo A, et al.
pp. 54-54, Universita' di Padova, Bressanone (BZ), 2002
4
E2
Gianluca Tasco, Pier Luigi Martelli, Maria Luisa
Agostoni Carbone, Rita Casadio
"A critical assessment of model building by homology: the test
case of GTP cyclohydrolase I"
Gruppo di Cooperazione "Bioinformatica" (Pontignano (SI), 17-18
/2/2001) a cura di M. Helmer-Citterich, G. Valle
pp. 12-12, Universita' Roma Tor Vergata, Roma, 2001 [cod.
1094053/01]
5
C4
Rita Casadio, Mario Compiani, Piero Fariselli,
Pier Luigi Martelli
"A data base of minimally frustrated alpha helical segments
extracted from proteins according to an entropy
criterion"
7th International Conference on Intelligent Systems in Molecular
Biology (ISMB 99) (Heidelberg DE, 6-10 agosto 1999) a cura di
LENGAUER et al.
pp. 68-76, AAAI Press, Menlo Park, California, 1999 [cod.
1094003/99]
6
E2
Rita Casadio, Mario Compiani, Piero Fariselli,
Pier Luigi Martelli
"A data base of minimally frustrated alpha helical segments
extracted from proteins according to an entropy
criterion"
Structural characterization of proteins by NMR, X-ray diffraction
and computational methods (Verona, 17-20/2) a cura di SCI
pp. 14-14, Universita' di Verona, Verona, 1999 [cod.
1094008/99]
7
E2
Pier Luigi Martelli, Carlo Raia, Antonella
Giordano, Mose Rossi, Rita Casadio
"A homology based 3D model of the tetrameric alcohol
dehydrogenase from Sulfolobus solfataricus"
THIRD EUROPEAN SYMPOSIUM (GARMISCH, 19-22/9) a cura di Protein
Society
pp. 44-44, University Press, Cambridge, 1999 [cod.
1094005/99]
8
A0
Rita Casadio, Pier Luigi Martelli, Antonella
Giordano, Mose Rossi, Carlo Raia
"A low-resolution 3D model of the tetrameric alcohol
dehydrogenase from Sulfolobus solfataricus"
PROTEIN ENG,
15, pp. 215-223 (2002)
[ISI: 21; IF: 2.718]
9
C4
Piero Fariselli, Pier Luigi Martelli, Rita
Casadio
"A neural network based method for predicting the disulfide
connectivity in proteins"
Knowledge based intelligent information engineering systems and
allied technologies (KES 2002) (Ombriano, Settembre 2002) a cura di
Damiani E et al
pp. 464-468, IOS Press, Amsterdam, 2002
10
C4
Piero Fariselli, Andrea Zauli, Ivan Rossi,
Michele Finelli, Pier Luigi Martelli, Rita Casadio
"A neural network method to improve prediction of
protein-protein interaction sites in heterocomplexes"
2003 IEEE 13th Workshop on Neural Networks for Signal Processing,
NNSP'03. (Toulouse (FR), 17-19/9/2003) a cura di Ferran E et
al
pp. 33-41, IEEE, Toulouse (FRANCIA), 2003
11
A0
Pier Luigi Martelli, Piero Fariselli, Anders
Krogh, Rita Casadio
"A sequence-profile-based HMM for predicting and discriminating
beta barrel membrane proteins"
BIOINFORMATICS,
18, pp. S46-S53 (2002)
[ISI: 19; IF: 3.421]
12
E2
Pier Luigi Martelli, Piero Fariselli, Rita
Casadio
"An ENSEMBLE machine learning approach for the prediction of all
alpha membrane proteins"
Gruppo di cooperazione "Bioinformatica" (Frascati (Roma),
28-29/3/2003) a cura di Helmer-Citterich M., Valle G
pp. 16-16, Universita' Roma Tor Vergata, Roma, 2003
13
A0
Pier Luigi Martelli, Piero Fariselli, Rita
Casadio
"An ENSEMBLE machine learning approach for the prediction of
all-alpha membrane proteins"
BIOINFORMATICS,
19, pp. I205-I211 (2003)
[ISI: 21; IF: 4.615]
14
E2
Martelli P.L., Fariselli P., Compiani M.,
Casadio R.
"An entropy criterion to design stable alpha-helical
structures"
Scuola Nazionale di Biofisica: III Workshop della Societa'
Nazionale di Biofisica (Bressanone, 5-8 ottobre 1998) a cura di
Rigo A.
pp. 29-30, Uni Padova, Padova, 1998 [cod. 1094093/98]
15
A0
Compiani M., Fariselli P., Martelli P., Casadio
R.
"An entropy criterion to detect minimally frustrated
intermediates in native proteins."
P NATL ACAD SCI USA,
95, pp. 9290-9294 (1998)
[ISI: ; IF: 9.04] [cod. 4094122/98]
16
E2
Anna De Maio, Marianna Portaccio, Sergio Di
Martino, Pier Luigi Martelli, Rita Casadio, Valentina Diano, Sergio
Rossi, Umberto Bencivenga, Damiano Gustavo Mita
"Attivita', in condizioni isoterme e non-isoterme, della
beta-galattosidasi immobilizzata su membrane di nylon trattate con
glicidil metacrilato: dipendenza dal tipo di amminoacidi coinvolti
nella immobilizzazione"
Scuola Nazionale di Biofisica, X ciclo (Bressanone (BZ), 10-13/9/
2002) a cura di Rigo A, et al
pp. 33-33, Universita' Padova, Bressanone (BZ), 2002
17
E1
Anna De Maio, Marianna Portaccio, Sergio Di
Martino, Pier Luigi Martelli, Rita Casadio, Valentina Diano, Sergio
Rossi, Umberto Bencivenga, Damiano Gustavo Mita
"Attivita', in condizioni isoterme e non-isoterme, della
beta-galattosidasi immobilizzata su membrane di nylon trattate con
glicidil metacrilato: dipendenza dal tipo di amminoacidi coinvolti
nella immobilizzazione"
V Convegno Nazionale INBB (Catania, 3-5/10/2002) a cura di Mita DG,
et al.
pp. 80-80, INBB, Roma, 2002
18
C4
Martelli P.L.; Fariselli P.; Casadio
R.
"De novo design of proteins: the alpha-helix
engineer."
Italian Biochemical Society Transactions IBST vol.8 (Ferrara,
Giugno 1997) a cura di SIB
pp. 38-39, Italian Biochemical Society, Ferrara, 1997 [cod.
1094024/97]
19
E2
Mario Compiani, Rita Casadio, Piero Fariselli,
Pier Luigi Martelli
"Detecting the folding initiation sites of globular proteins:
implications for helix design and the mechanism of protein
folding"
International Scientific Congress of the Belgian Biophysical
Society (Gembloux, Belgium, 14-17/6) a cura di Begian Biophysical
Society
pp. 24-24, Belgian Biophysical Soc, Gembloux, Belgium, 1999 [cod.
1094006/99]
20
B0
Ettore Bismuto, Pier Luigi Martelli, Anna De
Maio, Damiano Gustavo Mita, Gaetano Irace, Rita Casadio
"Effect of molecular confinement on internal enzyme dynamics:
Frequency domain fluorometry and molecular dynamics simulation
studies"
BIOPOLYMERS,
67, pp. 85-95 (2002)
[ISI: 20; IF: 1.845]
21
E2
Antonella Giordano, Pier Luigi Martelli, Mose
Rossi, Rita Casadio, Carlo Raia
"Experimental approaches for validation of a homology-based 3D
model of tetrameric alcohol dehydrogenase from Sulfolobus
solfataricus"
SIB 2000 (NAPOLI, 20-23/9/2000) a cura di D'Alessio G et al.
pp. 110-110, Biomedia, MILANO, 2000
22
E2
Pier Luigi Martelli, Piero Fariselli, Gianluca
Tasco, Emidio Capriotti, Rita Casadio
"Fishing new outer membrane proteins with neural
networks"
Gruppo di Cooperazione "Bioinformatica" 2002 (Certosa di Pontignano
(SI), 15-16/3/2002) a cura di Helmer-Citterich M., et al.
pp. 13-13, Gruppo di cooperazione Bioinformatica, Roma, 2002
23
B0
Rita Casadio, Piero Fariselli, Finocchiaro
Giacomo, Pier Luigi Martelli
"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"
PROTEIN SCI,
11, pp. 1158-1168 (2003)
[ISI: 16; IF: 3.546]
24
C0
Ettore Bismuto, Pier Luigi Martelli, Rita
Casadio, Gaetano Irace
"Fluorescence emission properties of hyperthermophilic
beta-glycosidase from molecular dynamics simulation"
ITAL J BIOCHEM,
49/1, pp. 20-20 (2000)
[ISI: 14; IF: 0,185]
25
E2
Sirangelo I., Tavassi S., Martelli P.L., Casadio
R., Irace G.
"Folding and stability of tryptophanyl substituted apomyoglobins
investigated by molecular dynamics simulation and denaturation
experiments"
Scuola Nazionale di Biofisica: III Workshop della Societa' Italiana
di Biofisica (Bressanone, 5-8 ottobre 1998) a cura di Rigo A.
pp. 43-44, Uni Padova, Padova, 1998 [cod. 1094095/98]
26
E2
Pier Luigi Martelli, Rita Casadio
"Hidden Markov Models in cascade with neural networks generate a
better predictor of segments of protein secondary
structures"
Gruppo di Cooperazione "Bioinformatica" (Certosa di Pontignano SI,
3-4 /3/2000) a cura di Helmer-Citterich M et al.
pp. 34-34, UNI Roma Tor Vergata, Roma, 2000
27
A1
Rita Casadio, Piero Fariselli, Pier Luigi
Martelli
"In silico prediction of the structure of membrane proteins: Is
it feasible?"
Briefings in Bioinformatics,
4, n. , pp. 341-348
(2003)
28
B0
M.M. El Masry, Anna De Maio, Pier Luigi
Martelli, Rita Casadio, A.B. Moustafa, Sergio Rossi, Damiano
Gustavo Mita
"Influence of the immobilization process on the activity of beta
galactosidase bound to nylon membranes grafted with glycidyl
methacrylate. Part 1. Isothermal behavior"
J MOL CATAL B-ENZYM,
16, pp. 175-189 (2001)
[ISI: 30; IF: 1.448] [cod. 4094084/01]
29
A0
Piero Fariselli, Michele Finelli, Davide
Marchignoli, Pier Luigi Martelli, Ivan Rossi, Rita
Casadio
"MaxSubSeq: an algorithm for segment-length optimization. The
case study of the transmembrane spanning segments"
BIOINFORMATICS,
19, pp. 500-505 (2003)
[ISI: 21; IF: 4.615]
30
E2
Pier Luigi Martelli, Carlo Raia, Antonella
Giordano, Mose Rossi, Rita Casadio
"Modelling della struttura 3D del tetramero di alcool
deidrogenasi da Sulfolobus solfataricus"
Scuola Nazionale di Biofisica, VIII Ciclo (Bressanone (BZ),
12-15/9/2000) a cura di Rigo A et al.
pp. 39-40, Uni PADOVA, PADOVA, 2000
31
E2
Rita Casadio, Mario Compiani, Piero Fariselli,
Irene Jacoboni, Pier Luigi Martelli, Ivan Rossi
"Molecular modelling of free and immobilized enzymes with
different computational approaches"
Progetto Finalizzato Biotecnologie (Genova, 28-30/10/2001) a cura
di M. Brunori et al.
pp. 223-223, Litoprint, Genova, 2001 [cod. 1094051/01]
32
A1
Rita Casadio, Mario Compiani, Piero Fariselli,
Irene Jacoboni, Pier Luigi Martelli
"Neural Networks predict protein folding and structure:
artificial intelligence faces biomolecular complexity"
SAR and QSAR in environmental research,
11, n. , pp.
149-182 (2000)
33
A0
Mario Compiani, Piero Fariselli, Pier Luigi
Martelli, Rita Casadio
"Neural Networks to study invariant features of protein
folding"
THEOR CHEM ACC,
101, pp. 21-26 (1999)
[ISI: 29; IF: 2.431] [cod. 4094018/99]
34
E2
Compiani M., Fariselli P., Martelli P.,
Casadio
"Neural networks to model early events of protein folding-
Invited Seminar -"
194 WE Haereus Seminar:Scientific Applications of Neural Nets (Bad
Honnef,Germania, 11-13 May 1998) a cura di Ristig ML, Clark
JW
pp. 14-14, WE Haereus Stiftung, Bad Honnef,Germania, 1998 [cod.
1094075/98]
35
E2
Piero Fariselli, Pier Luigi Martelli, Ivan
Rossi, Rita Casadio
"Optimizing the location and the number of the maximal scoring
subsequences with constrained segment lengths with
MaxSubSeq"
Intelligent Systems for Molecular Biology 2003 (Brisbane
(AUSTRALIA), 29/6-3/7/2003) a cura di Myers G et al
pp. 126-126, ISCB, Brisbane (Queensland, Australia), 2003
36
E2
Irene Jacoboni, Pier Luigi Martelli, Piero
Fariselli, Rita Casadio
"Predicting the structure of membrane porins"
8th International Conference on Intelligent Systems for Molecular
Biology (ISMB 2000) (La Jolla, California, USA, 19-23/8/2000) a
cura di Bourne P et al.
pp. 89-89, AAAI Press, Menlo Park, California, USA, 2000
37
E2
Irene Jacoboni, Pier Luigi Martelli, Piero
Fariselli, Rita Casadio
"Predicting the structure of membrane porins"
4th Meeting on the Critical Assessment of Techniques for Protein
Structure Prediction (CASP 4) (Asilomar, California, USA,
3-7/12/2000) a cura di Moult J et al.
pp. 152-152, Lawrence Livermore National Laboratory, Livermore,
California, USA, 2000
38
A0
Pier Luigi Martelli, Piero Fariselli, Luca
Malaguti, Rita Casadio
"Prediction of the disulfide bonding state of cysteines in
proteins with hidden neural networks"
PROTEIN ENG,
15, pp. 951-953 (2002)
[ISI: 21; IF: 2.718]
39
A0
Pier Luigi Martelli, Piero Fariselli, Luca
Malaguti, Rita Casadio
"Prediction of the disulfide-bonding state of cysteines in
proteins at 88% accuracy"
PROTEIN SCI,
11, pp. 2735-2739 (2002)
[ISI: 16; IF: 3.472]
40
A0
Irene Jacoboni, Pier Luigi Martelli, Piero
Fariselli, Vito De Pinto, Rita Casadio
"Prediction of the transmembrane regions of beta barrel membrane
proteins with a neural network based predictor"
PROTEIN SCI,
10, pp. 779-787 (2001)
[ISI: 16; IF: 3.869] [cod. 4094076/01]
41
E2
Pier Luigi Martelli, Irene Jacoboni, Piero
Fariselli, Rita Casadio
"Prediction of the transmembrane regions of beta barrel membrane
proteins with a neural network based predictor"
Gruppo di Cooperazione "Bioinformatica" (Pontignano (SI),
17-18/2/2001) a cura di M. Helmer-Citterich, G. Valle
pp. 8-8, Universita' Roma Tor Vergata, Roma, 2001 [cod.
1094052/01]
42
E1
Pier Luigi Martelli, Piero Fariselli, Anders
Krogh, Rita Casadio
"Prediction of the transmembrane regions of beta barrel membrane
proteins with a predictor based on HMM and neural
networks"
V Convegno Nazionale INBB (Catania, 3-5/10/2002) a cura di Mita DG,
et al.
pp. 49-49, INBB, Roma, 2002
43
E2
Irene Jacoboni, Pier Luigi Martelli, Piero
Fariselli, Vito De Pinto, Rita Casadio
"Prediction of the transmembrane regions of beta-barrel membrane
proteins with a neural network-based predictor"
3rd International workshop on " Structural characterization of
proteins by NMR, X-ray diffraction and computational methods (San
Vito di Cadore (BL), 27-30/9/2001) a cura di E. Peggion, S. Mammi,
H. Molinari, P. Spadon
pp. 18-18, Universita' di Padova, Padova, 2001 [cod.
1094048/01]
44
E2
Pier Luigi Martelli, Anders Krogh, Rita
Casadio
"Prediction of the transmembrane regions of beta-barrel membrane
proteins with a predictor based on HMM and neural
networks"
The 3rd Georgia Tech-Emory International Conference on
Bioinformatics: "Bioinformatics after the human genome" (Atlanta,
Georgia (USA), 15-18/11/2001) a cura di M. Borodovski et al.
pp. 69-70, Georgia Tech, Atlanta, Georgia (USA), 2001 [cod.
1094049/01]
45
E2
Pier Luigi Martelli, Irene Jacoboni, Piero
Fariselli, Rita Casadio
"Prediction of the transmembrane regions of beta-barrel membrane
proteins with a predictor based on HMMs and neural
networks"
Meeting Istituto Nazionale di Fisica della Materia (Roma,
18-22/6/2001) a cura di Luciano Pietronero
pp. 280-280, INFM, ROMA, 2001 [cod. 1094040/01]
46
A0
Irene Jacoboni, Pier Luigi Martelli, Piero
Fariselli, Mario Compiani, Rita Casadio
"Predictions of protein segments with the same amino acid
sequence and different secondary structure: a benchmark for
predictive methods"
PROTEINS,
41, pp. 535-544 (2000)
[ISI: 72; IF: 3,58]
47
E2
Gianluca Tasco, Ludovica Montanucci, Piero
Fariselli, Pier Luigi Martelli, Rita Casadio
"Protein structure and thermostability"
Scuola Nazionale di Biofisica, XI ciclo (Bressanone (BZ),
8-10/9/2003) a cura di Rigo A et al
pp. 49-49, Universita' di Padova, Bressanone (BZ), 2003
48
A0
Rita Casadio, Mario Compiani, Antonio Facchiano,
Piero Fariselli, Irene Jacoboni, Pier Luigi Martelli, Ivan
Rossi
"Protein structure prediction and biomolecular recognition: from
protein sequence to peptidomimetic design with the human beta 3
integrin"
SAR QSAR ENVIRON RES,
13, pp. 473-486 (2002)
[ISI: 28; IF: 2.044]
49
E2
Compiani M., Fariselli P., Martelli P., Casadio
R.
"Reconstructing early events of protein folding with neural
networks"
Eur Conf on Computational Chemistry and the living world: from
sequence to function (Chambery, 20-24 aprile 1998) a cura di Smith
JC, et al.
pp. 18-18, French Chemical Society, Division of Physical
Chemistry, Chambery, 1998 [cod. 1094088/98]
50
A0
Ivana Sirangelo, Simona Tavassi, Pier Luigi
Martelli, Rita Casadio, Gaetano Irace
"The effect of tryptophanyl substitution on folding and
structure of myoglobin"
EUR J BIOCHEM,
267, pp. 3937-3945 (2000)
[ISI: 14; IF: 3,307]
51
A1
Pier Luigi Martelli, Piero Fariselli, Gianluca
Tasco, Rita Casadio
"The prediction of membrane protein structure and genome
structural annotation"
Comparative and Functional Genomics,
4, n. , pp.
406-409 (2003)
52
E2
Pier Luigi Martelli, Antonella Giordano, Mose
Rossi, Carlo Raia, Rita Casadio
"Tryptophan fluorescence as a probe for qualitative validation
of a homology-based 3D model of alcohol dehydrogenase from
Sulfolobus solfataricus"
SIB 2000 (NAPOLI, 20-23/9/2000) a cura di D'Alessio G et al.
pp. 111-111, Biomedia, MILANO, 2000
53
A0
Ettore Bismuto, Pier Luigi Martelli, Rita
Casadio, Gaetano Irace
"Tryptophanil fluorescence lifetime distribution of
hypertermophilic beta-glycosidase from molecular dynamics
simulation: a comparison with the experimental data"
PROTEIN SCI,
9, pp. 1730-1742 (2000)
[ISI: 14; IF: 4,457]
54
E2
Sirangelo I., Tavassi S., Martelli P.L., Casadio
R., Irace G.
"Tryptophanyl replacements affect folding and stability of
myoglobin"
III Convegno Nazionale INBB: Nuove prospettive in Biostrutture e
Biosistemi (Venezia, 26-28 novembre 1998) a cura di Rigo A.
pp. 50-50, Uni Venezia, Venezia, 1998 [cod. 1094098/98]
55
E2
H El-Sherif, Pier Luigi Martelli, Rita Casadio,
Damiano Gustavo Mita
"Urease immobilization on chemical graft nylon
membrane"
Scuola Nazionale di Biofisica, VIII ciclo (Bressanone (BZ),
12-15/9/2000) a cura di Rigo A et al.
pp. 33-33, Universita' di Padova, Padova, 2000
56
B0
H El-Sherif, Pier Luigi Martelli, Rita Casadio,
Marianna Portaccio, Umberto Bencivenga, Damiano Gustavo
Mita
"Urease immobilization on chemically grafted nylon membranes.
Part 1: Isothermal characterization"
J MOL CATAL B-ENZYM,
606, pp. 1-15 (2000)
[ISI: 29; IF: 1,126]
