M. Helmer-Citterich: search on Z-Library

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1

DBATE: database of alternative transcripts expression

Bianchi, V., Colantoni, A., Calderone, A., Ausiello, G., Ferre, F., Helmer-Citterich, M.

Journal:

Year:

2013

Language:

english

File:

PDF, 627 KB

english, 2013

2

Control of ColE1 plasmid replication by antisense RNA

G. Cesareni, M. Helmer-Citterich, L. Castagnoli

Journal:

Trends in Genetics

Year:

1991

Language:

english

File:

PDF, 537 KB

english, 1991

3

Structural motifs recurring in different folds recognize the same ligand fragments

Gabriele Ausiello, Federico Pier Gherardini, Elena Gatti, Ottaviano Incani, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 1.78 MB

english, 2009

4

WWP1 germline variants are associated with normocephalic autism spectrum disorder

Novelli, Giuseppe, Novelli, Antonio, Borgiani, Paola, Cocciadiferro, Dario, Biancolella, Michela, Agolini, Emanuele, Pietrosanto, Marco, Casalone, Rosario, Helmer-Citterich, Manuela, Giardina, Emilian

Journal:

Cell Death and Disease

Year:

2020

File:

PDF, 325 KB

2020

5

Escher: A new docking procedure applied to the reconstruction of protein tertiary structure

G. Ausiello, G. Cesareni, M. Helmer-Citterich

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1997

Language:

english

File:

PDF, 181 KB

english, 1997

6

iSPOT: a web tool for the analysis and recognition of protein domain specificity : A presentation for the ESF workshop ‘Proteomics: Focus on Protein Interactions’

Barbara Brannetti, Andreas Zanzoni, Luisa Montecchi-Palazzi, Gianni Cesareni, Manuela Helmer-Citterich

Journal:

Comparative and Functional Genomics

Year:

2001

Language:

english

File:

PDF, 221 KB

english, 2001

7

Development of computational tools for the inference of protein interaction specificity rules and functional annotation using structural information

Fabrizio Ferrè, Allegra Via, Gabriele Ausiello, Barbara Brannetti, Andreas Zanzoni, Manuela Helmer-Citterich

Journal:

Comparative and Functional Genomics

Year:

2003

Language:

english

File:

PDF, 76 KB

english, 2003

8

Adaptation of a 2D in-gel kinase assay to trace phosphotransferase activities in the human pathogen Leishmania donovani

Dirk Schmidt-Arras, Olivier Leclercq, Pier Federico Gherardini, Manuela Helmer-Citterich, Wolfgang Faigle, Damarys Loew, Gerald F. Späth

Journal:

Journal of Proteomics

Year:

2011

Language:

english

File:

PDF, 711 KB

english, 2011

9

Protein surface similarities: a survey of methods to describe and compare protein surfaces

A. Via, F. Ferrè, B. Brannetti, M. Helmer-Citterich *

Journal:

Cellular and Molecular Life Sciences

Year:

2001

Language:

english

File:

PDF, 375 KB

english, 2001

10

Design and properties of a Myc derivative that efficiently homodimerizes

Soucek, Laura, Helmer-Citterich, Manuela, Sacco, Alessandra, Jucker, Richard, Cesareni, Gianni, Nasi, Sergio

Journal:

Year:

1998

Language:

english

File:

PDF, 704 KB

english, 1998

11

Evolution of protein structure and function

Michael Sternberg, Syed Nabil Ali, Manuela Helmer-Citterich, Pier F. Gherardini, Keiran Fleming, Lawrence A. Kelley, Mark N. Wass

Journal:

Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology

Year:

2009

Language:

english

File:

PDF, 57 KB

english, 2009

12

A structure filter for the Eukaryotic Linear Motif Resource

Allegra Via, Cathryn M Gould, Christine Gemünd, Toby J Gibson, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 1.60 MB

english, 2009

13

A structural study for the optimisation of functional motifs encoded in protein sequences

Allegra Via, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2004

Language:

english

File:

PDF, 849 KB

english, 2004

14

Functional annotation by identification of local surface similarities: a novel tool for structural genomics

Fabrizio Ferrè, Gabriele Ausiello, Andreas Zanzoni, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 1.29 MB

english, 2005

15

Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society

Manuela Helmer-Citterich, Rita Casadio, Alessandro Guffanti, Giancarlo Mauri, Luciano Milanesi, Graziano Pesole, Giorgio Valle, Cecilia Saccone

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 191 KB

english, 2005

16

A neural strategy for the inference of SH3 domain-peptide interaction specificity

Enrico Ferraro, Allegra Via, Gabriele Ausiello, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 229 KB

english, 2005

17

Query3d: a new method for high-throughput analysis of functional residues in protein structures

Gabriele Ausiello, Allegra Via, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 225 KB

english, 2005

18

False occurrences of functional motifs in protein sequences highlight evolutionary constraints

Allegra Via, Federico Pier Gherardini, Enrico Ferraro, Gabriele Ausiello, Gianpaolo Scalia Tomba, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 429 KB

english, 2007

19

Bioinformatics in Italy: BITS2006, the third annual meeting of the Italian Society of Bioinformatics

Rita Casadio, Manuela Helmer-Citterich, Graziano Pesole

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 172 KB

english, 2007

20

Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites

Gabriele Ausiello, Daniele Peluso, Allegra Via, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 2.40 MB

english, 2007

21

FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures

Gabriele Ausiello, Pier Federico Gherardini, Paolo Marcatili, Anna Tramontano, Allegra Via, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 555 KB

english, 2008

22

Bioinformatics in Italy: BITS2007, the fourth annual meeting of the Italian Society of Bioinformatics

Graziano Pesole, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 187 KB

english, 2008

23

PhosTryp: a phosphorylation site predictor specific for parasitic protozoa of the family trypanosomatidae

Antonio Palmeri, Pier Federico Gherardini, Polina Tsigankov, Gabriele Ausiello, Gerald F Späth, Dan Zilberstein, Manuela Helmer-Citterich

Journal:

Year:

2011

Language:

english

File:

PDF, 309 KB

english, 2011

24

PUZZLE: A New Method for Automated Protein Docking Based on Surface Shape Complementarity

Manuela Helmer-Citterich, Anna Tramontano

Journal:

Journal of Molecular Biology

Year:

1994

File:

PDF, 600 KB

1994

25

Correlated mutations contain information about protein-protein interaction

Florencio Pazos, Manuela Helmer-Citterich, Gabriele Ausiello, Alfonso Valencia

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 475 KB

english, 1997

26

Three-dimensional view of the surface motif associated with the P-loop structure: cis and trans cases of convergent evolution

Allegra Via, Fabrizio Ferrè, Barbara Brannetti, Alfonso Valencia, Manuela Helmer-Citterich

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 649 KB

english, 2000

27

The SH3 domain of nebulin binds selectively to type II peptides: theoretical prediction and experimental validation

Anastasia S. Politou, Roberta Spadaccini, Catherine Joseph, Barbara Brannetti, Remo Guerrini, Manuela Helmer-Citterich, Severo Salvadori, Piero Andrea Temussi, Annalisa Pastore

Journal:

Journal of Molecular Biology

Year:

2002

Language:

english

File:

PDF, 321 KB

english, 2002

28

Convergent Evolution of Enzyme Active Sites Is not a Rare Phenomenon

Pier Federico Gherardini, Mark N. Wass, Manuela Helmer-Citterich, Michael J.E. Sternberg

Journal:

Journal of Molecular Biology

Year:

2007

Language:

english

File:

PDF, 1020 KB

english, 2007

29

MINT: a Molecular INTeraction database

Andreas Zanzoni, Luisa Montecchi-Palazzi, Michele Quondam, Gabriele Ausiello, Manuela Helmer-Citterich, Gianni Cesareni

Journal:

Year:

2002

Language:

english

File:

PDF, 410 KB

english, 2002

30

Three-dimensional profiles: a new tool to identify protein surface similarities

Manuel de Rinaldis, Gabriele Ausiello, Gianni Cesareni, Manuela Helmer-Citterich

Journal:

Journal of Molecular Biology

Year:

1998

Language:

english

File:

PDF, 429 KB

english, 1998

31

Exploring the diversity of SPRY/B30.2-mediated interactions

Perfetto, Livia, Gherardini, Pier Federico, Davey, Norman E., Diella, Francesca, Helmer-Citterich, Manuela, Cesareni, Gianni

Journal:

Trends in Biochemical Sciences

Year:

2013

Language:

english

File:

PDF, 850 KB

english, 2013

32

Identification of binding pockets in protein structures using a knowledge-based potential derived from local structural similarities

Valerio Bianchi, Pier Federico Gherardini, Manuela Helmer-Citterich, Gabriele Ausiello

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 598 KB

english, 2012

33

Modeling gene regulatory network motifs using statecharts

Fabio Fioravanti, Manuela Helmer-Citterich, Enrico Nardelli

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 934 KB

english, 2012

34

Phosphoproteomic Analysis of Differentiating Leishmania Parasites Reveals a Unique Stage-Specific Phosphorylation Motif

Tsigankov, Polina, Gherardini, Pier Federico, Helmer-Citterich, Manuela, Späth, Gerald F., Zilberstein, Dan

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.65 MB

english, 2013

35

Bioinformatics in Italy: BITS2011, the Eighth Annual Meeting of the Italian Society of Bioinformatics

Paolo Romano, Manuela Helmer-Citterich

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 112 KB

english, 2012

36

Experimental and computational methods for the analysis and modeling of signaling networks

Gherardini, Pier Federico, Helmer-Citterich, Manuela

Journal:

New Biotechnology

Year:

2013

Language:

english

File:

PDF, 189 KB

english, 2013

37

Enrichment of Leishmania donovani ATP-binding proteins using a staurosporine capture compound

Leclercq, Olivier, Bartho, Kathrin, Duelsner, Erik, von Kleist, Lisa, Gherardini, Pier Federico, Palmeri, Antonio, Helmer-Citterich, Manuela, Baumgart, Sabine, Späth, Gerald F.

Journal:

Journal of Proteomics

Year:

2013

Language:

english

File:

PDF, 800 KB

english, 2013

38

Comparative Analysis of Extract-based Skin Test and IgE detection, Singleplexed Molecule-based IgE Detection and a Molecule-based Microarray System

Mari, A., Palazzo, P., Pomponi, D., Helmer-Citterich, M., Zennaro, D., Giani, M., Scala, E.

Journal:

Journal of Allergy and Clinical Immunology

Year:

2007

Language:

english

File:

PDF, 53 KB

english, 2007

39

Regulation Dynamics of Leishmania Differentiation: Deconvoluting Signals and Identifying Phosphorylation Trends

Tsigankov, P., Gherardini, P. F., Helmer-Citterich, M., Spath, G. F., Myler, P. J., Zilberstein, D.

Journal:

Molecular & Cellular Proteomics

Year:

2014

Language:

english

File:

PDF, 1.33 MB

english, 2014

40

Modular architecture of nucleotide-binding pockets

Gherardini, P. F., Ausiello, G., Russell, R. B., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2010

Language:

english

File:

PDF, 4.44 MB

english, 2010

41

Deciphering a global network of functionally associated post-translational modifications

Minguez, Pablo, Parca, Luca, Diella, Francesca, Mende, Daniel R, Kumar, Runjun, Helmer-Citterich, Manuela, Gavin, Anne-Claude, van Noort, Vera, Bork, Peer

Journal:

Molecular Systems Biology

Year:

2012

Language:

english

File:

PDF, 560 KB

english, 2012

42

Mapping the human phosphatome on growth pathways

Sacco, Francesca, Gherardini, Pier Federico, Paoluzi, Serena, Saez-Rodriguez, Julio, Helmer-Citterich, Manuela, Ragnini-Wilson, Antonella, Castagnoli, Luisa, Cesareni, Gianni

Journal:

Molecular Systems Biology

Year:

2012

Language:

english

File:

PDF, 722 KB

english, 2012

43

Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites

Zanzoni, A., Carbajo, D., Diella, F., Gherardini, P. F., Tramontano, A., Helmer-Citterich, M., Via, A.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 2.49 MB

english, 2011

44

Phosfinder: a web server for the identification of phosphate-binding sites on protein structures

Parca, L., Mangone, I., Gherardini, P. F., Ausiello, G., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 3.16 MB

english, 2011

45

Structural studies on an inhibitory antibody against Thermus aquaticus DNA polymerase suggest mode of inhibition

Murali, R., Helmer-Citterich, M., Sharkey, D. J., Scalice, E. R., Daiss, J. L., Sullivan, M. A., Krishna Murthy, H. M.

Journal:

Protein Engineering Design and Selection

Year:

1998

Language:

english

File:

PDF, 584 KB

english, 1998

46

Nucleos: a web server for the identification of nucleotide-binding sites in protein structures

Parca, L., Ferre, F., Ausiello, G., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2013

Language:

english

File:

PDF, 3.19 MB

english, 2013

47

3dLOGO: a web server for the identification, analysis and use of conserved protein substructures

Via, A., Peluso, D., Gherardini, P. F., de Rinaldis, E., Colombo, T., Ausiello, G., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2007

Language:

english

File:

PDF, 3.78 MB

english, 2007

48

A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity

Ferraro, E., Via, A., Ausiello, G., Helmer-Citterich, M.

Journal:

Year:

2006

Language:

english

File:

PDF, 202 KB

english, 2006

49

A novel approach to represent and compare RNA secondary structures

Mattei, E., Ausiello, G., Ferre, F., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.02 MB

english, 2014

50

What has proteomics taught us about Leishmania development?

TSIGANKOV, POLINA, GHERARDINI, PIER FEDERICO, HELMER-CITTERICH, MANUELA, ZILBERSTEIN, DAN

Journal:

Year:

2012

Language:

english

File:

PDF, 539 KB

english, 2012