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Federico Zambelli
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Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes
F Zambelli, G Pesole, G Pavesi
Nucleic acids research 37 (suppl_2), W247-W252, 2009
4242009
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update
Nucleic Acids Research 50 (W1), W345-W351, 2022
2982022
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities
M Chiara, AM D’Erchia, C Gissi, C Manzari, A Parisi, N Resta, F Zambelli, ...
Briefings in Bioinformatics 22 (2), 616-630, 2021
2182021
Motif discovery and transcription factor binding sites before and after the next-generation sequencing era
F Zambelli, G Pesole, G Pavesi
Briefings in bioinformatics 14 (2), 225-237, 2013
1972013
Tools and data services registry: a community effort to document bioinformatics resources
J Ison, K Rapacki, H Ménager, M Kalaš, E Rydza, P Chmura, C Anthon, ...
Nucleic acids research 44 (D1), D38-D47, 2016
1752016
Identification of pathways directly regulated by SHORT VEGETATIVE PHASE during vegetative and reproductive development in Arabidopsis
V Gregis, F Andrés, A Sessa, RF Guerra, S Simonini, JL Mateos, S Torti, ...
Genome biology 14, 1-26, 2013
1612013
DOME: recommendations for supervised machine learning validation in biology
I Walsh, D Fishman, D Garcia-Gasulla, T Titma, G Pollastri, J Harrow, ...
Nature methods 18 (10), 1122-1127, 2021
1572021
A perspective of promoter architecture from the CCAAT box
D Dolfini, F Zambelli, G Pavesi, R Mantovani
Cell cycle 8 (24), 4127-4137, 2009
1492009
SpliceAid-F: a database of human splicing factors and their RNA-binding sites
M Giulietti, F Piva, M D’Antonio, P D’Onorio De Meo, D Paoletti, ...
Nucleic acids research 41 (D1), D125-D131, 2013
1362013
miR-17-92 fine-tunes MYC expression and function to ensure optimal B cell lymphoma growth
M Mihailovich, M Bremang, V Spadotto, D Musiani, E Vitale, G Varano, ...
Nature communications 6 (1), 8725, 2015
1092015
MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes
G Pavesi, P Mereghetti, F Zambelli, M Stefani, G Mauri, G Pesole
Nucleic acids research 34 (suppl_2), W566-W570, 2006
942006
PscanChIP: finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments
F Zambelli, G Pesole, G Pavesi
Nucleic acids research 41 (W1), W535-W543, 2013
932013
Mapping the global chromatin connectivity network for Sox2 function in neural stem cell maintenance
JA Bertolini, R Favaro, Y Zhu, M Pagin, CY Ngan, CH Wong, H Tjong, ...
Cell stem cell 24 (3), 462-476. e6, 2019
842019
Epigenetic signatures of stress adaptation and flowering regulation in response to extended drought and recovery in Zea mays
C Forestan, S Farinati, F Zambelli, G Pavesi, V Rossi, S Varotto
Plant, cell & environment 43 (1), 55-75, 2020
662020
INDIGO-DataCloud: A platform to facilitate seamless access to e-infrastructures
D Salomoni, I Campos, L Gaido, JM de Lucas, P Solagna, J Gomes, ...
Journal of Grid Computing 16, 381-408, 2018
662018
WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences
G Pavesi, F Zambelli, G Pesole
BMC bioinformatics 8, 1-14, 2007
642007
Resetting cancer stem cell regulatory nodes upon MYC inhibition
S Galardi, M Savino, F Scagnoli, S Pellegatta, F Pisati, F Zambelli, B Illi, ...
EMBO reports 17 (12), 1872-1889, 2016
612016
The bio.tools registry of software tools and data resources for the life sciences
J Ison, H Ienasescu, P Chmura, E Rydza, H Ménager, M Kalaš, ...
Genome biology 20, 1-4, 2019
602019
Gain-of-function p53 mutants have widespread genomic locations partially overlapping with p63
E Martynova, S Pozzi, V Basile, D Dolfini, F Zambelli, C Imbriano, ...
Oncotarget 3 (2), 132, 2012
592012
Transcriptional network of p63 in human keratinocytes
S Pozzi, F Zambelli, D Merico, G Pavesi, A Robert, P Maltère, X Gidrol, ...
PloS one 4 (3), e5008, 2009
592009
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