Publications, Books,
Book chapters, others...
- Appierdo R , Pepe G, Helmer-Citteric M, Sirota M, Vallania F, Gherardini PF.
The Integrated Cellular and Molecular Landscape of Autoimmunity, submitted
- Russo M, Valentini
E, Linkous A, Montaldo C, Soddu S, Besson JM, Lopez M, Helmer Citterich M, Michienzi A, Tripodi M,; Ciafrè SA, Galardi S. Mesenchyme Homeobox 2
Contributes to DNA Damage Response and Therapeutic Resistance in Glioblastoma
Stem Cells, submitted
- Menato , Pepe G, Cangialosi G, Jodice C, Gulì M, Cruciani F, Trombetta B, Helmer-Citterich
M, Semino O, D’Atanasio E, Novelletto A, Specchia V
(2025). Rare Uniparental Lineages Reveal External Ancestries
In The Gene Pool Of The Italian Linguistic Enclave Of Grecìa
Salentina. Scientific Reports in press
- Murdocca M, Romeo I, Maccaroni S, Curcio A, Pepe G, Helmer-Citterich M, Alcaro S, Novelli G; Sangiuolo F. (2025).
Structural and Functional Impact of the POLD1 Ser605del Variant in MDPL
Syndrome: Insights from Protein–Protein Interactions and DNA Repair Mechanisms, Human Genomics,19(1):131. (free
full-text)
- Murdocca
M, Pepe G, Maccaroni S, Spitalieri
P, Helmer Citterich M, Novelli
G, Sangiuolo F (2025). Transcriptome profiling of
human dermal MDPL fibroblasts reveals a characteristic molecular signature
providing insights into pathogenic mechanisms. J. Mol. Medicine, doi: 10.1007/s00109-025-02597-y. Epub
ahead of print. PMID: 41083899.
- Appierdo R, Pham G, Yin O, Tang AS,
Shao T, Severance AL, Yilmaz B Einhaus J, Wong RJ, Vallania F,
Gherardini PF, Helmer-Citterich M, Gaudillière B, Oskotsky TT, Stevenson DK, Way SS, Sirota M. (2025). Integrative Transcriptomic Analysis and Preclinical Validation Identify
Lansoprazole as a Therapeutic Candidate for Preeclampsia. NPJ Women’s Health,
in press
- Carrino C,
Pepe G, Parca L, Helmer Citterich
M, Gherardini PF. (2025). Integrating gene
expression, genomic and phosphoproteomic data to
infer transcription factor activity in lung cancer. NAR Genom Bioinform., 7(2):lqaf068. (free
full-text).
- Candi , Barnaba D,
Franzese Canonico M, Helmer-Citterich
M, Gandellini P, Melino G,
and Smirnov A. (2025) LEADR, a p63 target, dampens interferon signalling in bladder cancer. Cell Death Discovery,
11(1):264. (free
full-text).
- Pepe G, Notturno Granieri
C, Appierdo R, Ausiello G,
Helmer-Citterich M, Gherardini
PF. (2025). PANDA: PAN cancer Data Analysis web tool. J.Mol.Biol.,
437(15):169158. (free
full-text).
- Ballesio F, Teofani A, Carrino C, Catalano M,
Nicolaeasa ML, Ausiello G,
Helmer-Citterich M, Gherardini
PF (2025) Beagle 2.0: a web server for RNA secondary structure similarity
detection leveraging SHAPE-directed RNA structure determination. J. Mol. Biol.
437(15):169154. (free
full-text).
- Ballesio F,
Pepe G, Ausiello G, Novelletto
A, Helmer-Citterich M, Gherardini
PF (2024). Human lncRNAs harbor conserved modules embedded
in different sequence contexts. Noncoding RNA Res., 9:1257-1270. (free-full-text).
- Pepe G, Appierdo
R, Ausiello G, Helmer-Citterich
M, Gherardini PF (2024). A meta-analysis approach to
gene regulatory network inference identifies key regulators of cardiovascular
diseases. International Journal of Molecular Sciences, 25(8):4224. (free full-text)
- Latini S, Venafra V, Massacci G, Bica V, Graziosi S, Pugliese GM, Iannuccelli M, Frioni F, Minella J, Marra J, Chiusolo P, Pepe G, Helmer-Citterich
M, Fischer T, Perfetto L, Sacco F. (2024) Unveiling the signaling network
rewiring of FLT3-ITD AML improves drug sensitivity prediction. Elife, 12:RP90532. (free full-text)
- Latini A, Borgiani A, De Benedittis G, Ciccacci C, Novelli L, Pepe G,
Helmer-Citterich M, Capulli
M, Perricone C, Ceccarelli
F, Conti F, Ianniciello G, Caceres J, Ottalevi R, Baldini I, Novelli G (2024). Large-scale DNA sequencing identifies
rare variants associated with Systemic Lupus Erythematosus susceptibility in
known risk genes. Gene, 13:148279.
- Candi E, Smirnov A, Lena AM, Tosetti G,
Yang X, Cappello A, Helmer Citterich M, and Melino G.
(2023). Epigenetic priming of an epithelial
enhancer by p63 and CTCF controls expression of a skin-restricted gene XP33.
Cell Death Discovery, 9:446.
- Marchionni E, D’Apice
MR, Lupo V, Lattanzi G,
Mattioli E, Lisignoli G, Gabusi
E, Pepe G, Helmer Citterich M, Campione E, Nardone
AM, Spitalieri P, Pucci N, Picchi
E, Garaci F, Novelli A, Novelli G. (2023). Clinical and functional characterization
of COL2A1 p.Gly444Ser variant: from a fetal phenotype to a previously
undisclosed postnatal phenotype. Bone Rep.19:101728. (free full-text).
- Pericoli G, Galardi A, Paolini A, Petrilli LL, Pepe G, Palma A, Colletti
M, Ferretti M, Giorda E, Levi Mortera
S, Marzano V, Burford A, Carai A, Mastronuzzi
A, Mackay A, Putignani L, Jones C, Pascucci L, Peinado H, Helmer-Citterich M, de Billy E, Masotti
A, Locatelli F, Di Giannatale A, Vinci M. (2023).
Inhibition of exosome biogenesis affects cell motility in heterogeneous
sub-populations of paediatric-type diffuse high-grade
gliomas. Cell & Biosciences, 13:207. (free-full-text)
- Cirotti C, Taddei I, Contadini C, Di
Girolamo C, Pepe G, De Bardi M, Borsellino G, Helmer-Citterich M, and Barila M.
(2023). NRF2 connects Src
tyrosine kinase to ferroptosis resistance in glioblastoma". Life Science Alliance. 7(1):e202302205. (free
full-text)
- Ballarino M, Pepe G, Helmer-Citterich M, Palma A. (2023). Exploring the Landscape of
Tools and Resources for the Analysis of Long Non-Coding RNAs. Computational and
Structural Biotechnology Journal, 21:4706-4716. (free-full-text)
- Olmi L, Pepe
G, Helmer-Citterich M, Canini
A, Gismondi A. (2023). Looking for Plant microRNAs in
Human Blood Samples: Bioinformatics Evidence and Perspectives. Plant Foods for
Human Nutrition, 78(2):399-496. (free-full-text)
- Pepe G, Appierdo R, Carrino C, Ballesio F, Helmer-Citterich M, Gherardini PF. (2022). Artificial intelligence methods enhance the discovery
of RNA interactions. Frontiers in Molecular Biosciences, 9:1000205. (free
full-text)
- Musella M, Guarracino A, Manduca N, Galassi
C, Ruggiero E, Potenza A, Maccafeo E, Manic G, Mattiello L, Soliman Abdel Rehim
S, Signore M, Pietrosanto M, Helmer-Citterich M, Pallocca M,
Fanciulli M, Bruno T, De Nicola F, Corleone G, Di Benedetto A, Ercolani C, Pescarmona E, Pizzuti L, Guidi F, Sperati F, Vitale S, Schiavoni, Mattei F, De Ninno A, Businaro L, Lucarini L, Bracci L,
Aricò E, Ziccheddu G, Facchiano F, Rossi S, Sanchez M, Boe
A, Biffoni M, De Maria R, Vitale I and Sistigu A (2022) Type I IFNs promote cancer cell stemness
by triggering the epigenetic regulator KDM1B. Nature Immunology,
23(9):1379-1392.
- Pepe G, Carrino C, Parca L, and Helmer-Citterich
M. (2022). Dissecting the genome for drug response prediction. Methods Mol Biol.
2022;2449:187-196.
- Pepe G, Parca
L, Viviani L, Ausiello G, Helmer-Citterich
M. (2022). Variation in the co-expression profile highlights a loss of
miRNA-mRNA regulation in multiple cancer types. Noncoding RNA Res., 7(2), pp.
98–105. (free-full-text)
- Di Fraia D, Anitei M, Mackmull MT, Parca L, Behrendt L, Andres-Pons A, Gilmour D, Helmer-Citterich M, Kaether C, Beck M,
Ori A. (2022). Conserved exchange of paralog proteins during neuronal
differentiation. Life Science Alliance 5(6):e202201397. (free-full-text)
- Pepe G, Guarracino A, Ballesio F, Parca L, Ausiello G, Helmer-Citterich M. (2022). Evaluation of potential sponge effects
of SARS genomes in human. Noncoding RNA Res. 7(1):48-53.(free-full text)
-
PDBe-KB consortium: Varadi
M, Anyango S, Armstrong D, Berrisford
J, Choudhary P, Deshpande M, Nadzirin N, Nair SS, Pravda
L, Tanweer A, Al-Lazikani
B, Andreini C, Barton GJ, Bednar D, Berka K, Blundell T, Brock KP, Carazo JM, Damborsky J, David, Dey AS, Dunbrack
R, Recio JF, Fraternali F,
Gibson T, Helmer-Citterich M, Hoksza
D, Hopf T, Jakubec D,
Kannan N, Krivak R, Kumar M, Levy ED, London N,
Macias JR, Srivatsan MM, Marks DS, Martens L, McGowan
SA, McGreig JE, Modi V, Parra RG, Pepe G, Piovesan D, Prilusky J, Putignano V, Radusky LG, Ramasamy
P, Rausch AO, Reuter N, Rodriguez LA, Rollins NJ, Rosato
A, Rubach P, Serrano L, Singh G, Skoda P, Sorzano COS, Stourac J, Sulkowska JI, Svobodova R, Tichshenko N, Tosatto SCE, Vranken W, Wass MN, Xue D, Zaidman D, Thornton J, Sternberg M, Orengo
C, Velankar S (2022). PDBe-KB:
collaboratively defining the biological context of structural data. Nucl. Acids Res 50(D1):D534-D542. (free-full text)
- Lo Iacono L, Mancini, Babicola , Pietrosanto M, Di Segni M, Lica D’Addario
S, Ielpo D, Pascucci T, Cabib S, D'Amato FR, Andolina D,
Helmer-Citterich M, Cifani
C, Ventura R.
(2021) Early life adversity affecting the
attachment bond alters ventral tegmental area transcriptomic patterning and
behavior almost exclusively in female mice.. Neurobiology of Stress, 15:100406.
(free-full text).
- Galfrè SG, Morandin F, Pietrosanto M, Cremisi F, Helmer-Citterich M.
(2021) COTAN: Co-expression Table Analysis for scRNA-seq
data. NAR Genom
Bioinform. 3(3):lqab072.(free-full
text)
- Ferradini V, Parca L, Martino A, Lanzillo C, Silvetti E, Calò L, Caselli S, Novelli G, Helmer-Citterich M, Sangiuolo FC and Mango R (2021). Variants in MHY7 gene
cause Arrhythmogenic Cardiomyopathy. Genes, 12(6):793. (free-full text).
- Guarracino A, Pepe G, Ballesio
F, Adinolfi M, Pietrosanto M, Sangiovanni E, Vitale I, Ausiello G, Helmer-Citterich M.(2021). BRIO: a web server for RNA sequence and structure
motif scan. Nucleic Acids Res., 49(W1):W67-W71. (free-full text).
- Martins M, Galfrè
SG, Terrigno M, Pandolfini
L, Appolloni I, Dunville K,
Marranci A, Rizzo M, Mercatanti
A, Poliseno L, Morandin F, Pietrosanto M, Helmer Citterich
M, Malatesta P, Vignali R, Cremisi FA (2021) Eutherian-specific microRNA controls
the translation of Satb2 in a model of cortical differentiation. Stem Cell
Reports, S2213-6711(21)00215-0. (free-full
text).
- Pietrosanto M, Ausiello
G, Helmer-Citterich M. (2021). Motif Discovery from
CLIP Experiments. Methods Mol Biol.2284:43-50.
- Pietrosanto M,
Adinolfi M, Guarracino A, Ferrè F, Ausiello G, Vitale I,
Helmer-Citterich M (2021). Relative Information Gain: Shannon entropy-based
measure of the relative structural conservation in RNA alignments. Nucl. Acids Res. Genomics and Bioinformatics, NAR Genom
Bioinform. 3(1):lqab007. (free-full text)
- Latini A, Agolini
E, Novelli A, Borgiani P,
Giannini R, Gravina P, Smarrazzo A, Dauri M, Andreoni M, Rogliani P, Bernardini S, Helmer-Citterich M, Biancolella M, Novelli G. (2020).
COVID-19 and Genetic Variants of Protein Involved in the SARS-CoV-2
Entry into the Host Cells. Genes (Basel). 11(9):E1010 (free full-text)
-
Helmer-Citterich M. (2020) A time for cooperation.
Commentary about the role of algorithmics and computational biology in
responding to the COVID-19 pandemic, Cell Systems 10(5):379 (free
full-text)
- Novelli G, Novelli A, Borgiani P, Cocciadiferro D, Biancolella M, Agolini E, Pietrosanto M, Casalone R, Helmer-Citterich M, Giardina E, Jain S, Wei W, Eng C,
Pandolfi PP. (2020). WWP1 Germline Variants are
Associated with Normocephalic Autism Spectrum Disorder. Cell Death &
Disease, 11(7):529 (free full text)
- Babicola
L, Pietrosanto M, Ielpo D, D'Addario SL, Cabib S, Ventura R,
Ferlazzo F, Helmer-Citterich
M, Andolina D, Lo Iacono L.
(2020). RISC RNA sequencing in the Dorsal Raphè
reveals microRNAs regulatory activities associated with behavioral and
functional adaptations to chronic stress. Brain Research, 1736:146763.
-
Orengo C, Velankar S, Wodak S, Zoete V, Bonvin AMJJ, Elofsson A, Feenstra KA, Gerloff DL, Hamelryck T, Hancock JM, Helmer-Citterich
M, Hospital A, Orozco M, Perrakis A, Rarey M, Soares C, Sussman JL, Thornton JM, Tuffery P, Tusnady G, Wierenga R, Salminen T, Schneider
B. 2020. A Community Proposal to Integrate Structural Bioinformatics Activities
in ELIXIR (3D-Bioinfo Community). F1000Res. 2020;9:ELIXIR-278 (free full text).
- PDBe-kb
Consortium (Varadi M, Berrisford
J, Deshpande M, Nair SS, Gutmanas
A, Armstrong D, Pravda L, Al-Lazikani
B, Anyango S, Barton GJ, Berka K, Blundell T, Borkakoti N, Dana J, Das S,
Dey S, Di Micco P, Fraternali F, Gibson T, Helmer-Citterich M, Hoksza
D, Huang LC, Jain R, Jubb
H, Kannas C, Kannan N, Koca J, Krivak R,
Kumar M, Levy ED, Madeira F, Madhusudhan MS, Martell HJ, MacGowan S, McGreig
JE, Mir S, Mukhopadhyay A, Parca
P, Paysan-Lafosse T, Radusky L, Ribeiro A, Serrano L,
Sillitoe I, Singh G, Skoda P, Svobodova R, Tyzack
J, Valencia A, Villasclaras
Fernandez E, Vranken W, Wass
M, Thornton J, Sternberg M, Orengo
C, Velankar S (2020). PDBe-KB:
a community-driven resource for structural and functional annotations. Nucleic
Acids Res. 2020 Jan 8;48(D1):D344-D353 (free full-text)
- Parca L, Pepe
G, Pietrosanto M, Galvan G, Galli Leonardo, Palmeri A, Sciandrone M, Ferrè F, Ausiello G, Helmer-Citterich M. (2019) .Modeling cancer drug response through
drug-specific informative genes. Sci. Rep 9(1):15222 (free full-text)
- Adinolfi M, Pietrosanto M, Parca L, Ausiello G, Ferrè F, Helmer-Citterich M. (2019). Discovering sequence and structure landscapes
in RNA interaction motifs. Nucleic Acids Res. 47(10):4958-4969 (free full-text)
- Menden MP, Wang D,
Mason MJ, Szalai
B, Bulusu
KC, Guan Y, Yu T,
Kang J, Jeon M, Wolfinger R, Nguyen T,
Zaslavskiy M,
Abante J,
Abecassis BS,
Aben N,
Aghamirzaie D,
Aittokallio T,
Akhtari FS,
Al-lazikani B,
Alam T,
Allam A, Allen C, de Almeida MP, Altarawy D, Alves V,
Amadoz A,
Anchang B,
Antolin AA, Ash JR, Aznar VR,
Ba-alawi W,
Bagheri M, Bajic
V, Ball G, Ballester PJ, Baptista D,
Bare C, Bateson M, Bender A,
Bertrand D, Wijayawardena
B, Boroevich
KA, Bosdriesz
E, Bougouffa
S, Bounova
G, Brouwer T, Bryant B,
Calaza M,
Calderone A, Calza
S, Capuzzi, S, Carbonell-Caballero
J, Carlin D, Carter H,
Castagnoli L, Celebi
R, Cesareni
G, Chang H, Chen G,
Chen H, Chen H, Cheng L,
Chernomoretz A, Chicco D,
Cho K-H, Cho S, Choi D,
Choi J, Choi K, Choi M,
Cock MD, Coker E, Cortes-Ciriano
I, Cserzö
M, Cubuk
C, Curtis C, Daele DV, Dang CC,
Dijkstra T, Dopazo
J, Draghici
S, Drosou
A, Dumontier, M, Ehrhart F,
Eid FE, ElHefnawi
M, Elmarakeby
H, van Engelen
B, Engin
HB, de Esch
I, Evelo
C, Falcao AO, Farag S,
Fernandez-Lozano C, Fisch K, Flobak A, Fornari C, Foroushani
ABK, Fotso
DC, Fourches
D, Friend S, Frigessi A, Gao F,
Gao X, Gerold
JM, Gestraud
P, Ghosh S, Gillberg J, Godoy-Lorite
A, Godynyuk
L, Godzik
A, Goldenberg A, Gomez-Cabrero
D, Gonen
M, de Graaf C, Gray H,
Grechkin M,
Guimera R,
Guney E,
Haibe-Kains B,
Han Y, Hase
T, He D,
He L, Heath LS, Hellton KH, Helmer-Citterich M,
Hidalgo MR, Hidru
D, Hill SM, Hochreiter S, Hong S,
Hovig E,
Hsueh YC, Hu Z, Huang JK,
Huang RS, Hunyady
L, Hwang J, Hwang TH,
Hwang W, Hwang Y, Isayev O, Don’t Walk OB, Jack J,
Jahandideh S,
Ji J, Jo Y, Kamola PJ, Kanev GK, Karacosta L, Karimi M,
Kaski S,
Kazanov M,
Khamis AM, Khan SA, Kiani NA, Kim A,
Kim J, Kim J, Kim K, Kim K,
Kim S, Kim Y, Kim Y,
Kirk PDW, Kitano H, Klambauer G, Knowles D, Ko M, Kohn-Luque A, Kooistra AJ, Kuenemann MA, Kuiper M,
Kurz C, Kwon M, van Laarhoven
T, Laegreid
A, Lederer S, Lee H,
Lee J, Lee YW, Lepp_aho E, Lewis R,
Li J, Li L, Liley J, Lim WK,
Lin C, Liu Y, Lopez Y,
Low J, Lysenko A, Machado D,
Madhukar N, Maeyer
DD, Malpartida
AB, Mamitsuka
H, Marabita
F, Marchal
K, Marttinen
P, Mason D, Mazaheri A, Mehmood A,
Mehreen A,
Michaut M,
Miller RA, Mitsopoulos
C, Modos
D, Moerbeke
MV, Moo K, Motsinger-Reif
A, Movva
R, Muraru
S, Muratov
E, Mushthofa
M, Nagarajan N, Nakken S, Nath A,
Neuvial P,
Newton R, Ning Z, Niz CD, Oliva B,
Olsen C, Palmeri
A, Panesar B, Papadopoulos S, Park J,
Park S, Park S, Pawitan Y, Peluso D,
Pendyala S,
Peng J, Perfetto L, Pirro S, Plevritis S,
Politi R,
Poon H, Porta E, Prellner I, Preuer K, Pujana MA, Ramnarine R,
Reid JE, Reyal
F, Richardson S, Ricketts C,
Rieswijk L,
Rocha M, Rodriguez-Gonzalvez C, Roell K, Rotroff
D, de Ruiter JR, Rukawa P, Sadacca B, Safikhani Z, Safitri F, Sales-Pardo M, Sauer S,
Schlichting M, Seoane JA, Serra
J, Shang MM, Sharma A,
Sharma H, Shen Y, Shiga M,
Shin M, Shkedy
Z, Shopsowitz
K, Sinai S, Skola D, Smirnov P,
Soerensen IF,
Soerensen P,
Song JH, Song SO, Soufan O, Spitzmueller
A, Steipe
B, Suphavilai
C, Tamayo SP, Tamborero D, Tang J,
Tanoli ZUR,
Tarres-Deulofeu M, Tegner J, Thommesen L, Tonekaboni SAM, Tran
H, Troyer ED, Truong A,
Tsunoda T,
Turu G,
Tzeng GY, Verbeke L, Videla S, Vis D,
Voronkov A,
Votis K,
Wang A, Wang H-QH, Wang P-W,
Wang S, Wang W, Wang X,
Wang X, Wennerberg, Wernisch L, Wessels L,
van Westen GJP, Westerman BA, White SR,
Willighagen E,
Wurdinger T,
Xie L, Xie S, Xu H, Yadav B,
Yau C, Yeerna H, Yin
JW, Yu M, Yu MH,
Yun SJ, Zakharov
A, Zamichos
A, Zanin
M, Zeng L, Zenil H, Zhang F,
Zhang P, Zhang W, Zhao H,
Zhao L, Zheng W, Zoufir A, Zucknick M, Jang IS,
Ghazoui Z,
Ahsen ME,
Vogel R, Neto EC, Norman T,
Tang EKY, Garnett MJ, Veroli GYD, Fawell S, Stolovitzky G, Guinney J, Dry JR, Saez-Rodriguez J,
(2019). Community assessment to advance computational prediction of
cancer drug combinations in a pharmacogenomic screen. Nat Commun. 10(1):2674.
- Parca L, Ariano B, Cabibbo A, Paoletti M,
Tamburrini A, Palmeri A, Ausiello G, Helmer-Citterich
M. (2018). Kinome-wide identification of phosphorylation
networks in Eukaryotic proteomes. Bioinformatics, 35(3):372-379 (free
full-text)
- Pietrosanto M,
Adinolfi M, Casula R, Ausiello
G, Ferrè F, Helmer-Citterich
M. (2017). BEAM web server: A tool for structural RNA motif discovery.
Bioinformatics, 34(6):1058-1060 (free
full-text)
- El Hachem M, Fortugno P, Palmeri A, Helmer-Citterich M, Diociaiuti A, Proto
V, Boldrini R, Zambruno G,
Castiglia D (2016). Structural Defects of Laminin β3
N-terminus Underlie Junctional Epidermolysis Bullosa with Altered Granulation
Tissue Response. Acta Derm Venereol, 96(7):954-958 (free
full-text)
- Pietrosanto M,
Mattei E, Helmer-Citterich
M, Ferrè F. (2016). A novel method for the
identification of conserved structural patterns in RNA: From small scale to high-throughput
applications. Nucleic Acids Res. 44(18):8600-8609. (free-full-text)
- Mongiardi MP,
Savino M, Falchetti ML, Illi
B, Bozzo F, Valle C, Helmer-Citterich
M, Ferrè F, Nasi S, Levi A. (2016). c-MYC inhibition
impairs hypoxia response in glioblastoma multiforme. Oncotarget,
7(22):33257-71 (free full-text)
- Tabolacci E, Mancano G, Lanni S, Palumbo F, Goracci M, Ferrè F, Helmer-Citterich M, Neri G. (2016).
Genome-wide methylation analysis demonstrates that 5-aza-2-deoxycytidine
treatment does not cause random DNA demethylation in fragile X syndrome cells.
Epigenetics Chromatin. 2016 Mar 24;9:12. (free full-text)
- Mango R, Luchetti
A, Sangiuolo R, Ferradini
V, Briglia N, Giardina E, Ferrè F, Helmer Citterich M,
Romeo F, Novelli G, Sangiuolo
F. (2016). Next Generation Sequencing and Linkage Analysis for the Molecular
Diagnosis of a Novel Overlapping Syndrome Characterized by Hypertrophic
Cardiomyopathy and Typical Electrical Instability of Brugada
Syndrome. Circ J; 80(4):938-49 (free
full-text)
- Ison J, Rapacki K, Ménager H, Kalaš M, Rydza E, Chmura P,
Anthon C, Beard N, Berka K, Bolser
D, Booth T, Bretaudeau A, Brezovsky
J, Casadio R, Cesareni G,
Coppens F, Cornell M, Cuccuru G, Davidsen
K, Vedova GD, Dogan T, Doppelt-Azeroual
O, Emery L, Gasteiger E, Gatter
T, Goldberg T, Grosjean M, Grüning B, Helmer-Citterich M, Ienasescu H,
Ioannidis V, Jespersen MC, Jimenez R, Juty N, Juvan P, Koch M, Laibe C, Li JW,
Licata L, Mareuil F, Mičetić
I, Friborg RM, Moretti S, Morris C, Möller S, Nenadic A, Peterson H, Profiti G, Rice P, Romano P, Roncaglia
P, Saidi R, Schafferhans A,
Schwämmle V, Smith C, Sperotto
MM, Stockinger H, Vařeková RS, Tosatto
SC, de la Torre V, Uva P, Via A, Yachdav
G, Zambelli F, Vriend G, Rost B, Parkinson H, Løngreen P, Brunak S. (2015). Tools and data services registry: a
community effort to document bioinformatics resources. Nucleic Acids Res; 44(D1):D38-47 (free
full-text)
- Morini E, Rizzacasa B, Pucci S, Polidoro C,
Ferrè F, Caporossi D,
Helmer-Citterich M, Novelli
G, Amati F. (2015). The human rs1050286 polymorphism alters LOX-1 expression
through modifying miR-24 binding. J Cell Mol Med., 20(1):181-7 (free full-text)
- Creixell P, Schoof EM, Simpson CD, Longden J, Miller CJ, Lou HJ,
Perryman L, Cox TR, Zivanovic N, Palmeri
A, Wesolowska-Andersen A, Helmer-Citterich
M, Ferkinghoff-Borg J, Itamochi
H, Bodenmiller B, Erler JT,
Turk BE, Linding R. (2015). Kinome-wide
Decoding of Network-Attacking Mutations Rewiring Cancer Signaling. Cell, pii: S0092-8674(15)01108-3.
- Ferrè F, Colantoni A, Helmer-Citterich M. (2015). Revealing protein-lncRNA interaction. Brief Bioinform, 17(1):106-16. (free
full-text)
- Mattei E, Pietrosanto M, Ferrè F, Helmer-Citterich M. (2015). Web-Beagle: a web server for the alignment of RNA
secondary structures. Nucleic Acids Res., 43(W1):W493-7 (free
full-text)
- Mattei E,
Helmer-Citterich M, Ferrè
F. (2015). A simple protocol for the inference of RNA global pairwise
alignments. Methods Mol Biol.;1269:39-47.
- Cianfanelli V,
Fuoco C, Lorente M, Salazar M, Quondamatteo
F, Gherardini PF, De Zio D, Nazio
F, Antonioli M, D'Orazio M,
Skobo T, Bordi M, Rohde M,
Dalla Valle L, Gretzmeier C, Helmer-Citterich M, Dengjel J, Fimia GM, Piacentini M, Di
Bartolomeo S, Velasco G, and Cecconi F. (2015).
AMBRA1 links autophagy to cell proliferation and tumorigenesis by promoting
c-MYC dephosphorylation and degradation. Nature Cell Biology, 17:20-30.
- Palmeri A, Ferrè F, Helmer-Citterich M.
(2014). Exploiting holistic approaches to model specificity in protein
phosphorylation. Front Genet. 5:315 (free
full-text)
- Ferrè F, Palmeri A, Helmer-Citterich M. (2014).
Computational methods for analysis and inference of kinase/inhibitor
relationships. Front Genet. 5:196 (free
full-text).
- Palmeri A,
Helmer-Citterich M, Gherardini
PF (2014). A proteome-wide domain-centric perspective on protein
phosphorylation. Mol. Cell. proteomics:13,9; 2198-2212 (free full-text).
- Mattei E, Ausiello G, Ferrè F, Helmer-Citterich M. (2014). A novel approach to represent and compare RNA
secondary structures. Nucleic Acids Res. 2014 Apr 21. [Epub
ahead of print] (free
full-text).
- Tsigankov P, Gherardini PF, Helmer-Citterich M, Späth GF, Myler PJ, Zilberstein D. (2014)
Regulation dynamics of Leishmania differentiation: deconvoluting signals and
identifying phosphorylation trends. Mol. Cell. Proteomics, 13:1787-1799.
(free full-text).
- Lanni S, Goracci M, Borrelli L, Mancano G,
Chiurazzi P, Moscato U, Ferre'
F, Helmer-Citterich M, Tabolacci
E, Neri G. (2013). Role of CTCF Protein in Regulating FMR1 Locus
Transcription. PLoS Genet. 2013 Jul;9(7):e1003601. (free
full-test)
- Bianchi V, Colantoni A,
Calderone A, Ausiello G, Ferrè F, Helmer-Citterich
M. (2013). DBATE: DataBase
of Alternative Transcripts Expression. Database, 2013:bat050. (free
full-text)
- Colantoni A, Bianchi V, Gherardini PF,
Scalia Tomba G, Ausiello G, Helmer-Citterich M, Ferrè
F. (2013). Alternative splicing tends to avoid
partial removals of protein-protein interaction sites. BMC Genomics, 14:379. (free full-text)
- Parca L, Ferrè F, Ausiello G, Helmer Citterich M. Nucleos: a web
server for the identification of nucleotide-binding sites in protein
structures. Nucl Acids Res 2013 May 22. [Epub ahead of print] PubMed PMID: 23703207 (free
full-text).
- Bianchi V, Mangone
I, Ferrè F, Helmer-Citterich
M, Ausiello G. The webPDBinder
server for the identification of ligand binding sites on protein structures. Nucl Acids Res 2013 Jun 3. [Epub
ahead of print] PubMed PMID: 23737450 (free
full-text).
- Tsigankov P, Gherardini PF, Helmer Citterich
M, Spaeth GF, Zilberstein D. (2013). Phosphoproteomic analysis of differentiating Leishmania
parasites reveals unique stage-specific phosphorylation motif. J Proteome Res.,
12:3405-3412.
- Leclercq O, Bartho K, Duelsner E, von Kleist
L, Gherardini PF, Palmeri
A, Helmer-Citterich M, Baumgart S, Spaeth GF. (2013).
Enrichment of Leishmania donovani ATP-binding
proteins using a staurosporine capture compound. J
Proteomics., 86:97-104.
- Perfetto L, Gherardini
PF, Davey NE, Diella F, Helmer-Citterich
M, Cesareni G. (2013). Exploring the diversity of SPRY/B30.2-mediated
interactions. TiBS, 38(1):38-46. (abstract)
- Tuppo L,
Alessandri C, Pomponi D, Picone D, Tamburrini M, Ferrara R, Petriccione
M, Mangone I, Palazzo P, Liso M, Giangrieco I,
Crescenzo R, Bernardi ML, Zennaro D, Helmer-Citterich
M, Mari A, Ciardiello MA. (2013).
Peamaclein - A new peach allergenic protein:
similarities, differences and misleading features compared to Pru p 3. Clinical And Experimental Allergy, 43(1):128-140.
(abstract)
- Gherardini PF,
Helmer-Citterich M. (2012). Experimental and
computational methods for the analysis and modeling of signaling networks. N. Biotechnol, S1871-6784(12)00864-3. (abstract)
- Parca L, Gherardini PF, Truglio M, Mangone I, Ferrè F, Helmer-Citterich M, Ausiello G. (2012).
Identification of nucleotide-binding sites in protein structures: a novel
approach based on nucleotide modularity. PLoS One,
7(11):e50240. (free
full-text)
- Sacco F, Gherardini
PF, Paoluzi S, Saez-Rodriguez
J, Helmer-Citterich M, Ragnini
A, Castagnoli L, Cesareni C. Mapping the human phosphatome on growth pathways. Mol. Syst. Biol., 8:603. (free
full-text)
- Minguez P, Parca L, Diella F, Mende DR,
Kumar R, Helmer-Citterich M, Gavin AC, van Noort V, Bork P (2012). Deciphering a global network of
functionally associated post-translational modifications. Mol. Syst. Biol,
8:599. (free
full-text)
- Giacò L, Amicosante M, Fraziano M, Gherardini PF, Ausiello G,
Helmer-Citterich M, Colizzi V, Cabibbo
A. (2012). B-Pred, a structure based B-cell epitopes prediction server. Adv
Appl Bioinform Chem, 5:11-21. (free-full-text)
- Fioravanti F,
Helmer-Citterich M, Nardelli E. (2012). Modeling Gene
Regulatory Network Motifs using Statecharts. BMC
Bioinformatics, 13(Suppl 4):S20. (free full-text).
- Bianchi V, Gherardini
PF, Helmer-Citterich M, Ausiello
G. (2012). Identification of binding pockets in protein structures using a
knowledge-based potential derived from local structural similarities. BMC
Bioinformatics, 13(Suppl 4):S17. (free full-text).
- Tsigankov P, Gherardini PF, Helmer-Citterich
M, Zilberstein D. (2012) What have proteomics taught
us about Leishmania development inside its host? Parasitology, 28:1-12.
- Palmeri A, Gherardini PF, Tsigankov P, Ausiello G, Spaeth GF, Zilberstein
D, Helmer-Citterich M. (2011). PhosTryp:
a phosphorylation sites predictor specific for parasitic protozoa of the family
trypanosomatidae. BMC Genomics, 12:614. (abstract, free
full-text).
- Parca L, Mangone I, Gherardini PF, Ausiello G, Helmer-Citterich M
(2011). Phosfinder: a web server for the
identification of phosphate binding sites on protein structures. Nucl. Acids Res. 39(Web Server issue):W278-282. May 26. [Epub ahead of print]. (free
full-text)
- Schmidt-Arras,D.,
Leclercq, O., Gherardini,
P.F., Helmer-Citterich, M., Faigle,
W., Loew, D., Spaeth, G. (2011). Adaptation of a 2D in-gel kinase assay to
trace phosphotransferase activities in the human pathogen Leishmania donovani. J Proteomics, 74(9):1644-1651. Mar 26. [Epub ahead of print].
- Via, A., Diella,
F., Gibson, TJ., Helmer-Citterich, M. (2011). From
sequence to structural analysis in protein phosphorylation motifs. Frontiers in
Bioscience, 16: 1261-1275 (free
full-text).
- Zanzoni A,
Carbajo D, Diella
F, Gherardini PF, Tramontano A, Helmer-Citterich M, Via A (2011). Phospho3D 2.0: An enhanced database of
three-dimensional structures of phosphorylation sites. Nucl. Acids Res., 39 (Database
issue): D268-71. Epub 2010 Oct 21 (free
full-text).
- Parca L, Gherardini PF, Helmer-Citterich M, Ausiello G (2010). Phosphate binding-sites identification in protein
structures. Nucl. Acids Res., 39(4):1231-1242.
Oct 24. [Epub ahead of print] (free
full-text).
- Gherardini,
PF, Ausiello, A, Helmer-Citterich,
M. (2010). Superpose3D: a local structural comparison program that allows for
user-defined structure representations. PLoS One,
5(8): e11988 (free
full-text).
- Hem, S, Gherardini,
PF, Fortea, JO, Hourdel, V, Morales, MA, Watanabe, R, Pescher, P, Kuzyk, MA, Smith,
D, Borchers, CH, Zilberstein, D, Helmer-Citterich, M, Namane, A, Spaeth
GF (2010). Identification of Leishmania-specific protein phosphorylation sites
by LC-MS/MS and comparative genomics analyses. Proteomics, 21: 3868-6883.
- Yau WL, Blisnick T, Taly JF, Helmer-Citterich M, Schiene-Fischer C, Leclercq O, Li J, Schmidt-Arras D, Morales MA, Notredame C, Romo D, Bastin P,
Spaeth GF (2010). Cyclosporin A
treatment of Leishmania donovani reveals
stage-specific functions of cyclophilins in parasite differentiation,
proliferation, and viability. PLoS Negl Trop Dis., 4(6):e729 (free
full-text).
- Gherardini,
PF, Ausiello, G, Russell, RB, Helmer-Citterich, M (2010). Modular architecture of nucleotide
binding pockets. Nucl. Acids Res., 38: 3809-3816. [Epub 2010 Feb 25] (free full-text).
- Gould, C., Diella,
F., Via, A., Puntervoll, P., Gemuend,
C., Michael, S., Sayadi, A., Bryne,
JC., Chica, C., Davey, N., Haslam, N., Budd, A., Hughes, T., Pas, J., Rychlewski, L., Trave', G., Aasland,
R., Helmer-Citterich, M., Linding,
R., Gibson, TJ. (2010) ELM: The status of the 2010 Eukaryotic Linear Motif
Resource. Nucl. Acids Res., 38(Database issue):D167-180. Epub 2009 Nov 17 (free full-text).
- Via, A., Gould, C.M., Gemuend, C., Gibson, TJ, Helmer-Citterich,
M. (2009) A structure filter for the Eukaryotic Linear Motif Resource. BMC
Bioinformatics, 10(1):351 (free full-text).
- Ausiello, G., Gherardini, P.F., Gatti, E., Incani, O., Helmer-Citterich, M.
(2009). Structural motifs recurring in different folds recognize the same
ligand fragments. BMC Bioinformatics, 10:182 (free
full-text).
- Gherardini
P.F., Helmer-Citterich M. (2008). Structure-based
function prediction: approaches and applications. Briefings in Functional
Genomics and Proteomics, 7:291-302 (free full-test).
- Ausiello, G., Gherardini,
P.F., Marcatili, P., Tramontano,
A., Via, A., Helmer-Citterich, M. (2008) FunClust: A web server for the identification of structural
motifs in a set of non-homologous protein structures. BMC Bioinformatics,
9,(Suppl. 2): S1 (free full-text).
- Gherardini, P.F., Wass, M.N., Helmer-Citterich, M., Sternberg, M.J. (2007) Convergent evolution
of enzyme active sites is not a rare phenomenon. J. Mol. Biol., 372: 817-845.
- Ferraro, E., Peluso, D., Via, A., Ausiello, G.,
Helmer-Citterich, M. (2007) SH3-Hunter: discovery of SH3 domain interaction
sites in proteins. Nucl. Acids Res., 35:W451-454 (free
full-text).
- Via, A., Peluso, D., Gherardini, P.F., de Rinaldis,
E., Colombo, T., Ausiello, G., Helmer-Citterich, M. (2007) 3dLOGO: a web server for the identification,
analysis and use of conserved protein substructures. Nucl.
Acids Res., 35:W416-419 (free
full-text).
- Ausiello, G., Peluso, D., Via, A., Helmer-Citterich, M. (2007). Local comparison of protein
structures highlights cases of convergent evolution in analogous functional
sites. BMC Bioinformatics, 8(Suppl.1): S24 (free full-text).
- Via, A., Gherardini, P.F., Ferraro, E., Ausiello, G., Scalia Tomba, G.
and Helmer-Citterich, M. (2007). False occurrences of
functional motifs in protein sequences highlight evolutionary constraints. BMC
Bioinformatics, 8:68 (free-fulltext).
- Zanzoni, A., Ausiello,
G., Via, A., Gherardini, P.F., Helmer-Citterich, M. (2007). Phospho3D: a database of three-dimensional
structures of protein phosphorylation sites. Nucl.
Acids Res., 35:D229-D231 (free
full-text).
- Ferraro, E., Via, A., Ausiello, G., Helmer-Citterich, M. (2006) A novel structure-based encoding for
machine-learning applied to the inference of SH3 domain specificity. Bioinformatics, 22:2333-2339.
- Ferraro, E., Via, A., Ausiello, G., Helmer-Citterich,
M. (2005). A neural strategy for the inference of SH3
domain-peptide interaction specificity. BMC Bioinformatics, 6(Suppl 4):S13 (free full-text).
- Ausiello, G., Via, A., Helmer-Citterich,
M. (2005). Query3d: a new method for high-throughput analysis of functional
residues in protein structures. BMC Bioinformatics, 6(Suppl 4):S5 (free full-text).
- Ferre', F., Ausiello, G.,
Zanzoni, A., Helmer-Citterich,
M. (2005). Functional annotation by identification of local surface
similarities: a novel tool for structural genomics. BMC Bioinformatics, 6:19. (free
full-text)
- Ausiello, G., Zanzoni,
A., Peluso, D., Via, A., Helmer-Citterich, M. (2005) pdbFun: Mass selection and fast comparison of annotated PDB residues. Nucl.Acids Res., 33:133-137. (free
full-text)
- Via, A., Zanzoni, A., Helmer-Citterich,
M (2005). Seq2Struct: a resource for establishing sequence-structure links. Bioinformatics, 21:551-552. Epub
2004 Sep 28.
- Via, A, Helmer-Citterich, M (2004). A structural
study for the optimisation of functional motifs
encoded in protein sequences BMC Bioinformatics, 5, 50. (abstract, free
full-text)
- Ferrè, F., Ausiello, G., Zanzoni, A., Helmer-Citterich, M.
(2004). SURFACE: a database of protein surface regions for functional
annotation (abstract, freefull-text). Nucl.Acids
Res., 32, 240-244.
- Ferrè, F., Via, A., Ausiello,
G., Brannetti, B., Zanzoni,
A., Helmer-Citterich, M. (2003). Development of
computational tools for the inference of protein interaction specificity rules
and functional annotation using structural information. Comparative and
Functional Genomics, 4, 416-419 . (abstract)
- Cesareni, G., Helmer-Citterich,
M. (2003) Searching the MINT database for protein interaction information. Curr Protoc Bioinformatics,
Chapter 8:Unit 8.5., John Wiley & Sons, Inc.
- Brannetti, B., Helmer-Citterich,
M. (2003) iSPOT: a web tool to infer the interaction
specificity of families of protein modules. (abstract,
free
full-text) Nucl. Acids Res., 31: 3709-3711.
- Puntervoll, P., Linding,
R., Gemuend, C., Chabanis-Davidson,
S., Mattingsdal, M., Cameron, S., Martin, D.M.A., Ausiello, G., Brannetti, B., Costantini, A., Ferrè, F., Maselli, V., Via, A., Cesareni,
G., Diella, F., Superti-Furga,
G., Wyrwicz, Ramu, C.,
McGuigan, C., Gudavalli, R., Letunic,
I., Bork, P., Rychlewski, Kuester, B., Helmer-Citterich, M., Hunter, W.N., Aasland,
R. and Gibson, T. (2003) ELM server: a new resource for investigating short
functional sites in modular eukaryotic proteins. (abstract, free full-text) Nucl. Acids
Res., 31: 3625-3630
- Politou, A.S., Spadaccini,
R., Joseph, C., Brannetti, B., Guerrini, R., Helmer-Citterich, M., Salvadori, S., Temussi,
P.A. and Pastore, A. (2002). The SH3 domain of nebulin binds selectively to
type II peptides: theoretical prediction and experimental validation. J Mol
Biol. 316:305-315. (abstract)
- Zanzoni, A., Montecchi-Palazzi, L., Quondam, M., Ausiello,
G., Helmer-Citterich, M. and Cesareni,
G. (2002). MINT: a Molecular INTeraction database.
FEBS Letters.513, 135-140. (abstract)
- Brannetti, B.,
Zanzoni, A., Montecchi
Palazzi, L., Cesareni, G. and Helmer-Citterich, M. (2001). iSPOT: a
web tool for the analysis and recognition of protein domain specificity.
Comparative and Functional Genomics, 2, 314-318.
- Vaccaro, P., Brannetti,
B., Montecchi Palazzi, L., Philipp, S., Helmer Citterich, M., Cesareni, G. and
Dente, L. (2001). Distinct binding specificity of the multiple PDZ domains of
the human INADL, a human protein with homology to INAD from Drosophila
melanogaster. (abstract, free full-text) J.Biol.Chem.,
276, 42122-42130.
- Citarella, F.,
Velthuis, H., Helmer Citterich,
M. and Hack, C.E. (2000). Identification of a binding site for negatively
charged surfaces in the fibronectin type II domain of human factor XII: an
immunochemical and homology modeling approach. Thrombosis and Haemostasis, 84:1057-1065. (abstract)
- Via, A., Ferrè
F., Brannetti, B. and Helmer Citterich,
M. (2000) Protein surface similarities: a survey of methods to describe and
compare protein surfaces. Cell. Mol.Life Sci., 57,
1970-1977. (abstract)
- Via, A., Ferrè,
F., Brannetti, B., Valencia, A. and Helmer Citterich, M. (2000). 3D view of the surface motif
associated to the Ploop structure: cis and trans
cases of convergent evolution. J.Mol.Biol., 303,
455-465. (abstract)
- Brannetti, B.,
Via, A., Cestra, G., Cesareni,
G. and Helmer Citterich, M. (2000) SH3-SPOT: an
algorithm to predict preferred ligands of different members of the SH3 gene
family. J.Mol.Biol, 298, 313-328. (abstract)
- De Rinaldis, M., Ausiello,
G., Cesareni, G. and Helmer Citterich,
M. (1998) Three-dimensional profiles: a new tool to identify protein surface
similarities. J.Mol.Biol., 284,1211-1221. (abstract)
- Soucek, L.,
Helmer Citterich, M., Sacco, A., Jucker, R., Cesareni, G. and Nasi, S. (1998) Design and properties of a
Myc derivative that efficiently homodimerizes.
Oncogene, 17:2463-2472. (abstract)
- Murali, R., Helmer Citterich,
M., Sharkey, D.J., Scalice, E., Daiss,
J. and Murthy, K. (1998) Structural studies on a inhibitory antibody against
Thermus aquaticus DNA polymerase suggest mode of inhibition. (abstract, full-text) Prot. Eng., 11(2):79-86.
- Quondam,M., Barbato,C., Pickford,A., Helmer Citterich,M. and Macino,G. (1997)
Structural conservation in prenyltransferases:
structural analysis and modeling of Neurospora crassa
geranylgeranyl pyrophosphate synthase. (abstract, free full-text) Prot. Eng., 10, 1047-1055.
- Pazos,F.,
Helmer Citterich,M., Ausiello,G.
and Valencia,A. (1997).Protein docking with
sequences. Correlated mutations contain information about protein-protein
interaction. J.Mol.Biol., 271, 511-523. (abstract)
- Ausiello,G., Cesareni,G. and Helmer Citterich,M.
(1997). ESCHER: a new docking procedure applied to the reconstruction of
protein tertiary structure. Proteins, 28, 556-567. (abstract)
- Zappavigna,V.,
Falciola,L., Helmer Citterich,M.,
Mavilio,F. and Bianchi,M.E.
(1996) HMG1 cooperates with HOX proteins in DNA binding and transcriptional
activation. EMBO Journal, 15, 4981 - 4991. (abstract, free
full-text)
- Helmer Citterich,M.,
Rovida,E., Luzzago,A. and Tramontano,A. (1995). Modelling antibody antigen
interactions: ferritin as a case study. Molecular Immunology, 32, 1001-1010. (abstract)
- Helmer Citterich,M.
and Tramontano,A. (1994). PUZZLE: a new method for
automated protein docking based on surface shape complementarity. J.Mol.Biol., 235, 1021-1031. (abstract)
- Marvin,D.A., Hale,R.D., Nave,C. and Helmer Citterich,M. (1994). Molecular models and structural
comparisons of native and mutant class I filamentous bacteriophages Ff (fd, f1, M13), If1 and IKe. J.Mol.Biol., 235, 260-286. (abstract)
- Cesareni, G.,
Helmer Citterich, M. and Castagnoli, L. (1991).
Control of ColE1 replication by antisense RNA. TIG, 7, 230-235. (abstract)
- Helmer Citterich,M.,
Anceschi,M., Banner,D.W.
and Cesareni,G. (1988). Control of ColE1 replication:
Low affinity specific binding of Rop to RNAI and
RNAII. EMBO Journal, 7, 557-566. (abstract, free
full-text)
- Burger,G.,
Helmer Citterich,M., Nelson,M.A.,
Werner,S. and Macino,G. (1985).
RNA processing in Neurospora crassa mitochondria:
transfer RNAs punctuate a large precursor transcript. EMBO Journal, 4,197-204.
(abstract, free
full-text)
- Helmer Citterich,M.,
Morelli,G. and Macino,G.
(1983). Nucleotide sequence and intron structure of the apocytochrome b
gene of Neurospora crassa mitochondria. EMBO Journal,
2,1235-1242. (abstract, free full-text)
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M, Ferrè F, Pavesi G, Romualdi C, Pesole G (2018) Fondamenti di Bioinformatica – ed Zanichelli
Valle, G., Helmer-Citterich,
M., Attimonelli, M., Pesole, G. (2003) Introduzione alla
Bioinformatica -
ed. Zanichelli
The Internet for Cell and Molecular
Biologists - ed. A. Cabibbo, R.P. Grant, M. Helmer-Citterich, Horizon Scientific Press, 368 pages, Publication date: April 2002 ISBN: 1-898486-32-8 (hbk).
- Cesareni,G., Minenkova,O.,
Dente,L., Iannolo,G., Zucconi,A., Helmer Citterich,M., Lanfrancotti, A., Castagnoli,L.
and Vetriani,C. (1995). Phage display of peptide libraries: Structural and
functional constraints in the display of peptides on filamentous phage capsids.
in Combinatorial Libraries: Synthesis, screening and application potential. Cortese,R. ed., de Gruyter.
- Pizzi, E., Helmer-Citterich, M., Tramontano, A.
(1994). Structural and dynamic models of biomedicl interest. in: A. Colosimo
(ed.) Structural and dynamic models of biomedical interest, CISB, Rome.
- Cesareni, G.,
Castagnoli, L., Felici, F., Helmer Citterich, M., Jappelli , R., Tataseo, P., Gonfloni, S. and Musacchio, A. (1990) Protein vectors and oligopeptide
libraries for the selection of clones with specific binding properties. In
Recombinant DNA technologies in Industry and Agriculture: state of the art in
Italy. Amaldi, F., De Felice, M., Di Fonzo, N., Merlin, P., Polsinelli,
M. and Viotti, A. ed., pg.332-339.
- Cesareni,G., Anceschi,M., Castagnoli,L., Felici,F., Helmer Citterich,M., Hughes,J., Kirk,D., Murray,J., Rossi,N., Scarpa,M. and Spinelli,L.(1986). E.coli plasmid stability and control of copy number.
Fifth International Symposium on the Genetics of Industrial Microorganisms,
1986, M.Alacevic, D.Hranueli,
Z.Toman (eds);
- Macino,G.,
Helmer Citterich,M., Morelli,G.
and Nelson,M.A. (1984). The ATPase subunit 6 and 8
genes of Neurospora crassa mitochondria. in
"H-ATP synthase: structure, function, regulation" ed: S.Papa, K.Altendorf, L.Ernster, L.Packer - ICSU Press
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- Helmer Citterich,M.,
Morelli,G., Nelson,M.A. and
Macino,G. (1983). Expression of split genes of the
Neurospora crassa mitochondrial genome. in
"Mitochondria 1983", ed.R.J. Schweyen, K.Wolf, F.Kaudewitz, 357-369.
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A, Marangoni R, Pascarella S, Romano P, Zanzoni A,
Helmer-Citterich M. (2015). Preface: BITS2014, the annual meeting of the Italian
Society of Bioinformatics. BMC Bioinformatics.
2015;16 Suppl 9:S1 (free full-text)
- Gissi C, Romano
P, Ferro A, Giugno R, Pulvirenti
A, Facchiano A, Helmer-Citterich
M. (2013). Bioinformatics in Italy: BITS 2012, the ninth annual meeting of the
Italian Society of Bioinformatics. BMC Bioinformatics. 2013;14 Suppl 7:S1 (free full-text)
- Romano P, Helmer-Citterich
M. (2012). Bioinformatics in Italy: BITS2011, the Eighth Annual Meeting of the
Italian Society of Bioinformatics. BMC Bioinformatics. 2012 Mar 28;13
Suppl 4:I1 (free full-text)
- Casadio, R.,
Helmer-Citterich, ., Pesole,
G. (2007). Bioinformatics in Italy: BITS2006, the third annual meeting of the
Italian Society of Bioinformatics. BMC Bioinformatics, 8 (Suppl.1): S1 (free full-text).
- Helmer-Citterich,
M., Casadio, R., Guffanti, A.,
Mauri, G., Milanesi, L., Pesole,
G., Valle, G., Saccone, C. (2005). Overview of
BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society. BMC
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