TY - JOUR
T1 - On a fundamental structure of gene networks in living cells
AU - Kravchenko-Balasha, Nataly
AU - Levitzki, Alexander
AU - Goldstein, Andrew
AU - Rotter, Varda
AU - Gross, A.
AU - Remacle, F.
AU - Levine, R. D.
PY - 2012/3/20
Y1 - 2012/3/20
N2 - Computers are organized into hardware and software. Using a theoretical approach to identify patterns in gene expression in a variety of species, organs, and cell types, we found that biological systems similarly are comprised of a relatively unchanging hardware-like gene pattern. Orthogonal patterns of software-like transcripts vary greatly, even among tumors of the same type from different individuals. Two distinguishable classes could be identified within the hardware-like component: those transcripts that are highly expressed and stable and an adaptable subset with lower expression that respond to external stimuli. Importantly, we demonstrate that this structure is conserved across organisms. Deletions of transcripts from the highly stable core are predicted to result in cell mortality. The approach provides a conceptual thermodynamic-like framework for the analysis of geneexpression levels and networks and their variations in diseased cells.
AB - Computers are organized into hardware and software. Using a theoretical approach to identify patterns in gene expression in a variety of species, organs, and cell types, we found that biological systems similarly are comprised of a relatively unchanging hardware-like gene pattern. Orthogonal patterns of software-like transcripts vary greatly, even among tumors of the same type from different individuals. Two distinguishable classes could be identified within the hardware-like component: those transcripts that are highly expressed and stable and an adaptable subset with lower expression that respond to external stimuli. Importantly, we demonstrate that this structure is conserved across organisms. Deletions of transcripts from the highly stable core are predicted to result in cell mortality. The approach provides a conceptual thermodynamic-like framework for the analysis of geneexpression levels and networks and their variations in diseased cells.
KW - Disease patterns
KW - Firmware
KW - Genomics
KW - Surprisal analysis
KW - Thermodynamic analysis
UR - http://www.scopus.com/inward/record.url?scp=84858695934&partnerID=8YFLogxK
U2 - 10.1073/pnas.1200790109
DO - 10.1073/pnas.1200790109
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C2 - 22392990
AN - SCOPUS:84858695934
SN - 0027-8424
VL - 109
SP - 4702
EP - 4707
JO - Proceedings of the National Academy of Sciences of the United States of America
JF - Proceedings of the National Academy of Sciences of the United States of America
IS - 12
ER -