Publications & Proceedings
2023
Chang L-H, Ghosh S, Papale A, Luppino JM, Miranda M, Piras V, Degrouard J, Edouard J, Poncelet M, Lecouvreur N, Bloyer S, Leforestier A, Joyce EF, Holcman D, Noordermeer D S (2023) Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries. Nature Communications 14:5615
[Full text] [PDF] [PMID:37699887]Maser IP, Lacher S, Piras V, Kracher B, Zanziger K, Yule M, Loferer H, Bissinger S (2023) Development of a predictive biomarker signature for the highly potent SIK3 inhibitor OMX-0407. In: Proceedings of the AACR Annual Meeting 2023, 2023:953.
[Abstract]
2022
Paillasse M, Garner J, Fitzgerald M, Friend J, Davenne L, Ancey PB, Poussereau-Pomie C, Esquerre M, Badet G, Yuyaret J, Bozec T, Piras V, Mandron M, Rochaix P, Ayyoub M, Scarlata CM, Caux C, Caux C, Cassier C, Gomez Roca C, Delord JP, Fons P (2022) Cutting edge biomarkers strategy to provide early insights into activity of EVT801, a novel selective VEGFR-3 inhibitor that targets tumor angiogenesis during the FIH clinical trial. In: Proceedings of the AACR Annual Meeting 2022, 2022:3203.
[Abstract]
2021
Kychygina A, Dall’Osto M, Allen JAM, Cadoret JC, Piras V, Pickett HA, Crabbe L* (2021) Progerin impairs 3D genome organization and induces fragile telomeres by limiting the dNTP pools. Scientific Reports, 11:13195
[Full text] [PDF] [PMID:34162976]Chang LH, Ghosh S, Papale A, Miranda M, Piras V, Degrouard J, Poncelet M, Lecouvreur N, Bloyer S, Leforestier A, Holcman D & Noordermeer D* (2021) A complex CTCF binding code defines TAD boundary structure and function. BiorXiv, DOI:10.1101/2021.04.15.440007
[Full text] [PDF]
2020
Krawczyk M, Woodsmith J, Nustoa M, Corwin T, von der Heyde S, Piras V, Whittaker M, Hergovich A, Frommholt P, Juhl H. Proteogenomic characterization of colorectal cancer using the IndivuType multiomics database. In: Proceedings of the AACR Annual Meeting 2022, 2020:6587.
[Abstract] [PDF]
2019
Lleres D, Moindrot B, Pathak R, Piras V, Matelot M, Pignard B, Marchand A, Poncelet M, Perrin A, Tellier V, Feil R & Noordermeer D* (2019) CTCF modulates allele-specific sub-TAD organization and imprinted gene activity at the mouse Dlk1-Dio3 and Igf2-H19 domains. Genome biology, 20: 272.
[Full text] [PDF] [PMID:31831055]Shukron O, Piras V, Noordermeer D & Holcman D* (2019) Statistics of chromatin organization during cell differentiation revealed by heterogeneous cross-linked polymers. Nature Communications 10: 2626.
[Full text] [PDF] [PMID:31201308]Piras V*, Chiow A & Selvarakoo K* (2019) Long Range Order and Short Range Disorder in Saccharomyces cerevisiae Biofilm. IET Engineering Biology 3: 12-19.
[Full text] [PDF] [IEEE:8679587]
2018
Selvarajoo K*, Piras V & Giuliani A (2018) Hints from information theory for analyzing dynamic and high-dimensional biological data. In Systems Biology: RNA Technologies (Rajewsky N, Jurga S & Barciszewski J, eds.) New York, NY: Springer.
[Full text]
2015
Simeoni O=, Piras V=, Tomita M & Selvarajoo K* (2015) Tracking Global Gene Expression Responses in T Cell Differentiation. Gene 569:259-266.
[Full text] [PDF] [PMID:26028587]
Piras V & Selvarajoo K* (2015) The reduction of Gene Expression Variability from Single Cells to Populations follows Simple Statistical Laws. Genomics 105:137-144.
[Full text] [PDF] [PMID:25554103]
Hayashi K, Tabata S, Piras V, Tomita M & Selvarajoo K* (2015) Systems Biology Strategy Reveals PKC-delta is Key for Sensitizing TRAIL-Resistant Human Fibrosarcoma. Frontiers in Immunology 5:659.
[Full text] [PDF] [PMID:25601862]
2014
Piras V, Tomita M & Selvarajoo K* (2014) Transcriptome-wide Variability in Single Embryonic Development Cells. Scientific Reports 4:7137.
[Full text] [PDF] [PMID:25409746]
Piras V & Selvarajoo K* (2014) Beyond MyD88 and TRIF pathways in Toll-like receptor signaling. Frontiers in Immunology 5:70.
[Full text] [PDF] [PMID:24605113]
2013
Hayashi K, Piras V, Tabata S, Tomita M & Selvarajoo K* (2013) A systems biology approach to suppress TNF-induced proinflammatory gene expressions. Cell Communication and Signaling 11:84.
[Full text] [PDF] [PMID:24199619] [Keywords: #SystemsBiology #ImmunePathways #Cancer #Model]
2012
Piras V, Tomita M & Selvarajoo K* (2012) Is central dogma a global property of cellular information flow? Frontiers in Physiology 3:439.
[Full text] [PDF] [PMID:23189060]
Piras V, Hayashi K, Tomita M & Selvarajoo K* (2012) Investigation of stochasticity in TRAIL signaling cancer model. In Proceedings of the 2012 IEEE/ICME International Conference on Computational Medicine and Engineering 2012:609-614.
[Full text] [PDF] [IEEE:6275648]
2011
Piras V=, Hayashi K=, Tomita M & Selvarajoo K* (2011) Enhancing apoptosis in TRAIL-resistant cancer cells using fundamental response rules. Scientific Reports 1:144.
[Full text] [PDF] [PMID:22355661] [Press releases] [Highlight in Nature Asia]
Hayashi K, Piras V, Tomita M, Tsuchiya M & Selvarajoo K* (2011) Emergence of macroscopic simplicity from the Tumor Necrosis Factor-alpha signaling dynamics. In Proc. 2011 International Symposium on Nonlinear Theory and its Applications, 2011:68-71.
[PDF]
Tsuchiya M, Piras V, Tomita M & Selvarajoo K* (2011) Collective fluctuations are crucial for global biological response. In Proc. 2011 International Symposium on Nonlinear Theory and its Applications, 2011:72-75.
[PDF] [Keywords: #Biophysics #GeneExpression]
2010
Tsuchiya M*=, Piras V=, Giuliani A, Tomita M & Selvarajoo K*= (2010) Collective dynamics of specific gene ensembles crucial for neutrophil differentiation: the existence of genome vehicles revealed. PLoS ONE 5(8):e12116.
[Full text] [PDF] [PMID:20725638]
2009
Tsuchiya M*=, Piras V=, Choi S, Akira S, Tomita M, Giuliani A & Selvarajoo K*= (2009) Emergent genome-wide control in wildtype and genetically mutated lipopolysaccarides-stimulated macrophages. PLoS ONE 4(3):e4905.
[Full text] [PDF] [PMID:19300509]
Tsuchiya M=, Selvarajoo K=, Piras V, Tomita M & Giuliani A* (2009) Local and global responses in complex gene regulation networks. Physica A 388(8):1738-1746.
[Full text] [PDF]
2007
Piras V=, Selvarajoo K=, Fujikawa N, Sangdun C, Tomita M, Giuliani A & Tsuchiya M* (2007) Statistical analysis of gene expression in innate immune response indicates dynamical interaction between microRNA and signalling molecules. Genomics and Informatics 5(3):107-112.
[Full Text] [PDF] [Keywords: #ImmunePathways #miRNA #Biophysics #GeneExpression #Microarray]
Yeo ZX, Wong ST, Arjunan S, Piras V, Tomita M, Selvarajoo K, Giuliani A & Tsuchiya M* (2007) Sequential logic model deciphers dynamic transcriptional control of gene expressions. PLoS ONE2(8):e776.
[Full text] [PDF] [PMID:17712424]
=: equal contribution
*: corresponding author
Thesis