bertelsen's multi-scale [24 articles] Export

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	Scale-free flow of life: on the biology, economics, and physics of the cell [My Copy] Theoretical Biology and Medical Modelling, Vol. 6, No. 1. (05 May 2009), 6. by Alexei Kurakin posted to thermodynamics scale-free review physics organization nonequilibrium multi-scale cell-biology biology by bertelsen on 2009-11-23 21:58:16 as along with 1 person VGreiff
	Simulating non-small cell lung cancer with a multiscale agent-based model [My Copy] Theoretical Biology and Medical Modelling, Vol. 4, No. 1. (21 December 2007), 50. by Zhihui Wang, Le Zhang, Jonathan Sagotsky, Thomas Deisboeck posted to spatio-temporal simulation signal-transduction phenotype pathway multi-scale molecular modelling lung intracellular epidermal_growth_factor dynamics chemotactic cell-migration cancer agent-based by bertelsen on 2009-11-23 21:45:02 as
	Local cell metrics: a novel method for analysis of cell-cell interactions [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 350. by Jing Su, Pedro Zapata, Chien C. Chen, J. Carson Meredith posted to tissue-level regulation probabilistic multi-scale modelling metric local imaging histological environment development cell-population cell-interaction cancer biology bayesian by bertelsen on 2009-11-23 20:54:10 as along with 1 person kevinzheng1983
	Models and computational strategies linking physiological response to molecular networks from large-scale data. [My Copy] Philosophical transactions. Series A, Mathematical, physical, and engineering sciences, Vol. 366, No. 1878. (13 September 2008), pp. 3067-3089. by Fernando Ortega, Katrin Sameith, Nil Turan, et al.Russell Compton, Victor Trevino, Marina Vannucci, Francesco Falciani posted to systems-biology review physiology pathways networks multi-scale molecular modularity models integration complexity by bertelsen on 2009-11-18 20:26:07 as along with 2 people aviad_work cswinburne
	Thermodynamic Limit of a Nonequilibrium Steady State: Maxwell-Type Construction for a Bistable Biochemical System [My Copy] Physical Review Letters, Vol. 103, No. 14. (2009), 148103. by Hao Ge, Hong Qian posted to thermodynamics systems-biology stochastic steady-state stability robustness nonequilibrium multi-scale model macroscopic fluctuation emergent-properties chemical-master-equation cell-biology biochemical by bertelsen on 2009-10-06 21:06:38 as along with 1 person jjray
	From signatures to models: understanding cancer using microarrays [My Copy] Nature Genetics, Vol. 37 Suppl (01 June 2005), pp. S38-S45. by Eran Segal, Nir Friedman, Naftali Kaminski, Aviv Regev, Daphne Koller posted to transcription signatures processes networks multi-scale molecular modules modular models microarray mechanistic gene-regulation disease comparative cancer by bertelsen on 2009-10-05 15:56:21 as along with 13 people and 1 group chasmand roys lwaldron cswinburne aalibes textoris troels_marstrand wnpx nirfriedman rdiaz sampath shikin srp33 GeneGo
	Bioinformatics, multiscale modeling and the IUPS Physiome Project [My Copy] Brief Bioinform, Vol. 9, No. 4. (1 July 2008), pp. 333-343. by Peter J. Hunter, Edmund J. Crampin, Poul M. F. Nielsen posted to systems-biology physiome multi-scale modelling bioinformatics by bertelsen on 2009-09-21 15:45:09 as along with 2 people vgurev guhjy
	Could there be a Synthesis between Western and Oriental Medicine, and with Sasang Constitutional Medicine in Particular? [My Copy] eCAM, Vol. 6, No. suppl_1. (1 September 2009), pp. 5-10. by Denis Noble posted to western systems-biology synthesis science philosophy oriental multi-scale medicine by bertelsen on 2009-09-21 12:53:27 as along with 1 person Jakujo
	The Virtual Kidney: an eScience interface and Grid portal [My Copy] Physical and Engineering Sciences, Vol. 367, No. 1896. (13 June 2009), pp. 2141-2159. by Peter J. Harris, Rajkumar Buyya, Xingchen Chu, et al.Tom Kobialka, Ed Kazmierczak, Robert Moss, William Appelbe, Peter J. Hunter, S. Randall Thomas posted to visualization systems-biology simulation physiology multi-scale model kidney integrative grid-computing experimental-design database computational-biology by bertelsen on 2009-09-20 22:22:13 as
	Creation and implications of a phenome-genome network. [My Copy] Nature biotechnology, Vol. 24, No. 1. (10 January 2006), pp. 55-62. by Atul J. Butte, Isaac S. Kohane posted to protein-expression phenotype phenome network multi-scale measurements genome gene-expression experiment environment drug-discovery associations by bertelsen on 2009-09-15 20:15:51 as along with 10 people and 2 groups daforerog BioGeek bpb okarsligil balajis wnpx tag elsiatcase eukfn guhjy Bioinformatics metric_embeddings
	The virtual cell--a candidate co-ordinator for 'middle-out' modelling of biological systems [My Copy] Brief Bioinform, Vol. 10, No. 4. (1 July 2009), pp. 450-461. by Dawn C. Walker, Jennifer Southgate posted to systemic-computation systems-biology review noise multi-scale modelling heterogeneity emergent-properties computational-biology complexity cellular-automata cell-biology cell agent-based by bertelsen on 2009-09-06 21:01:34 as along with 4 people maburkitt sandfire reyez fgibson
	Modeling the Heart--from Genes to Cells to the Whole Organ [My Copy] Science, Vol. 295, No. 5560. (1 March 2002), pp. 1678-1682. by Denis Noble posted to systems-biology review physiology organ multi-scale modelling heart genes cells by bertelsen on 2009-09-06 20:53:45 as along with 6 people and 1 group bruno reyez brocktice eweaver maburkitt chihchun_chen TulaneCEP
	Towards whole-organ modelling of tumour growth [My Copy] Progress in Biophysics and Molecular Biology, Vol. 85, No. 2-3. (July 2004), pp. 451-472. by T. Alarcon posted to tumour-growth review organ multi-scale modelling integrative drug-delivery cancer by bertelsen on 2009-09-06 20:04:17 as along with 1 person glyg
	Kinetic laws, phase–phase expansions, renormalization group, and INR calibration [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 16. (21 April 2009), pp. 6465-6470. by Marcel O. Vlad, Alexandru D. Corlan, Federico Morán, Rainer Spang, Peter Oefner, John Ross posted to renormalization-group-analysis reactions rate-law probabilistic power-laws multi-scale mathematical kinetic emergent-properties chemical biochemical approximation anlaysis analysis allometric by bertelsen on 2009-09-06 16:27:05 as
	Systems biology and the heart [My Copy] Biosystems, Vol. 83, No. 2-3. (February 2006), pp. 75-80. by D. Noble posted to systems-biology mutations multi-scale modelling heart by bertelsen on 2009-09-06 16:12:50 as
	Renormalization group analysis of the small-world network model [My Copy] Physics Letters A, Vol. 263, No. 4-6. (6 December 1999), pp. 341-346. by M. Newman posted to transformation simulation renormalization-group-analysis network multi-scale model analysis by bertelsen on 2009-09-06 14:19:57 as along with 2 people and 2 groups dylanwalker amac Soslab CooperationStudies
	Multiscale modeling of biomolecular systems: in serial and in parallel. [My Copy] Current opinion in structural biology, Vol. 17, No. 2. (April 2007), pp. 192-198. by Gary S. Ayton, Will G. Noid, Gregory A. Voth posted to systems-biology systems structural-biology review multi-scale molecular models modelling methods hybrid hierarchical bridges biophysics biomolecular by bertelsen on 2009-09-05 11:21:29 as along with 5 people jonathancooper Elena_Zubova RamuAnandakrishnan aqeel choonpeng
	Integration from proteins to organs: the Physiome Project. [My Copy] Nature reviews. Molecular cell biology, Vol. 4, No. 3. (March 2003), pp. 237-243. by Peter J. Hunter, Thomas K. Borg posted to systems-biology review multi-scale integrative hypothesis human framework biophysics biochemical anatomy by bertelsen on 2009-09-05 10:51:25 as along with 2 people jonathancooper danlea
	Strategies for the physiome project. [My Copy] Annals of biomedical engineering, Vol. 28, No. 8. (August 2000), pp. 1043-1058. by J. B. Bassingthwaighte posted to virtual_human systems-biology review quantitative physiology pathology networks multi-scale modules model human database complexity biochemical by bertelsen on 2009-09-04 21:00:17 as
	Multiscale modeling of biological pattern formation. [My Copy] Current topics in developmental biology In Multiscale Modeling of Developmental Systems, Vol. 81 (2008), pp. 435-460. by R. Grima posted to tissue-level spatial-scale pattern multi-scale modeling mathematical cell-biology biology by bertelsen on 2009-09-04 20:56:18 as
	Modelling biological complexity: a physical scientist's perspective [My Copy] Journal of The Royal Society Interface, Vol. 2, No. 4. (22 September 2005), pp. 267-280. by Peter V. Coveney, Philip W. Fowler posted to systems-biology systemic-computation simulation self-organization physical networks multi-scale modelling methodology integrative hybrid hierarchical emergent-properties computational-biology complexity biology by bertelsen on 2009-09-04 20:25:36 as along with 6 people jonathancooper Scis0000002 PaulSherwood6 paulschlesinger jjray danscott
	A Bayesian statistics approach to multiscale coarse graining [My Copy] The Journal of Chemical Physics, Vol. 129, No. 21. (2008), 214114. by Pu Liu, Qiang Shi, Hal Daumé, Gregory A. Voth posted to time thermodynamics systems space physical multi-scale modelling large-scale force-field coarse-grained chemical bayesian atom by bertelsen on 2009-09-04 20:07:28 as along with 1 person tomweingarten
	Introduction of an agent-based multi-scale modular architecture for dynamic knowledge representation of acute inflammation [My Copy] Theoretical Biology and Medical Modelling, Vol. 5, No. 1. (27 May 2008), 11. by Gary An posted to systemic-computation software multi-scale modular modeling introduction inflammation dynamic agent-based by bertelsen on 2009-09-01 16:09:18 as
	Multiscale agent-based cancer modeling [My Copy] Journal of Mathematical Biology, Vol. 58, No. 4. (1 April 2009), pp. 545-559. by Le Zhang, Zhihui Wang, Jonathan A. Sagotsky, Thomas S. Deisboeck posted to tumor systems-biology systemic-computation simulation network multi-scale modeling integrative insilico cancer agent-based by bertelsen on 2009-08-27 13:14:53 as along with 1 person frohike

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microarray	223
analysis	130
review	126
gene-expression	125
systems-biology	97
bayesian	93
cancer	78
expression	59
networks	59
affymetrix	48
gene	47
software	46
annotation	45
functional-genomics	44
tool	44
biology	42
network	40
model	40
modelling	39
regulation	38
data	34
bioinformatics	31
modeling	29
pathway	29
disease	29
models	28
rna	27
genechip	27
polyadenylation	26
human	26
drug-discovery	25
gene-regulation	25
clustering	24
oligonucleotide	24
multi-scale	24
ontology	23
biochemical	22
probe	22
inference	21
probability	20
differential	20
transcription	20
degradation	20
mrna	20
molecular	20
factor-analysis	19
dynamic	19
database	19
integrative	18
simulation	18
mathematical	18
stochastic	18
probe-level	18
probabilistic	17
chemical	17
structure	17
integration	16
function	16
kinetic	16
nonparametric	16
computational	16
dirichlet-process	16
statistical	15
genomics	15
experiment	15
sequence	15
high-throughput	15
theory	15
comparison	15
algorithm	15
drug	15
genome	15
sampling	15
r	15
complexity	14
enrichment-analysis	14
protein	14
framework	14
normalization	14
regression	14
prediction	14
python	14
noise	14
gastric	14
array	13
pathways	13
mirna	13
therapy	13
classification	13
statistics	13
personalized-medicine	13
bioconductor	13
interpretation	13
control	13
biochemical-systems-theory	13
go	13
phenotype	13
transcriptome	12
algorithms	12
clinical	12
latent	12
data-integration	12
hierarchical	12
mechanism	12
promoter	12
modules	12
non-protein-coding	11
tumour	11
computational-biology	11
distribution	11
oncogenesis	11
sparse	11
evolution	11
quality	11
integrating	10
systems	10
quantitative	10
test	10
mixture	10
mcmc	10
uncertainty	10
proteomics	10
genetic	10
modular	10
alternative	10
interactions	10
biomedical	10
transcription-factor	9
dna	9
multiple	9
visualization	9
large-scale	9
selection	9
diagnostic	9
biophysics	9
quality-control	9
hypothesis	9
s-system	9
information	9
methodology	9
cell-biology	9
machine-learning	9
discovery	9
insilico	9
3-utr	9
design	9
method	9
therapeutic	9
time-series	8
measure	8
transcripts	8
ica	8
linear	8
methods	8
experimental-design	8
background	8
overview	8
hybridization	8
systemic-computation	8
synthetic-biology	8
heterogeneity	8
rnai	8
utr	8
mapping	7
nonlinear	7
invivo	7
time-course	7
agent-based	7
infection	7
organization	7
translation	7
development	7
specificity	7
pathology	7
tiling	7
physiology	7
gene-set-analysis	7
multivariate	7
binary	7
ontologies	7
webservices	7
pathway-analysis	7
drug-target	7
rats	7
emergent-properties	7
mammalian	6
reactions	6
profiles	6
epigenetic	6
reverse-engineering	6
databases	6
cdna	6
pattern	6
upt	6
computation	6
dynamics	6
feature	6
computing	6
prior	6
scientific	6
thermodynamics	6
processes	6
splicing	6
metabolomics	6
application	6
sequencing	6
graphs	6
tumor	6
chip-chip	6
metabolic-network	6
pre-processing	6
genetics	6
summary	6
rna-seq	6
evolutionary-computation	6
primary	6
matrix-factorization	6
kidney	5
comparative	5
dependence	5
correction	5
membrane	5
import	5
error	5
encode	5
binfbib	5
book	5
sensitivity	5
genome-wide	5
simulations	5
apoptosis	5
variation	5
quantitative-trait-loci	5
invitro	5
process	5
normal	5
cell-cycle	5
physical	5
nonsense-mediated	5
nmd	5
medical	5
baysian	5
identification	5
cell	5
unknown	5
treatment	5
profiling	5
profilingmethods	5
truncated	5
signal	5
time	5
biomarker	5
ncrna	5
environment	5
gibbs	5
measurement	5
synthesis	5
eukaryotic	5
bias	5
pca	5
topological	5
protein-expression	5
optimization	5
quality-assessment	5
gaussian	5
gene-function	5
variational	5
localization	5
false	5
animals	4
sequence-analysis	4
pharmacogenomic	4
mice	4
decay	4
high-dimensional	4
endolymphatic-sac	4
cage	4
ode	4
gastric-cancer-group	4
signals	4
web	4
entropy	4
diversity	4
prognosis	4
mechanistic	4
tissue-specific	4
approximation	4
dynamical-systems	4
steady-state	4
signatures	4
grid	4
nested	4
co-expression	4
mining	4
survey	4
philosophy	4
exons	4
filtering	4
motif	4
global	4
map	4
physics	4
graphical-modelling	4
ordinal	4
signature	4
5-utr	4
power-laws	4
exploratory	4
biomolecular	4
standard	4
transcript	4
transformation	4
post-transcriptional	4
mixtures	4
toxoplasma	4
interface	4
inhibitors	4
inflammation	4
literature	4
inner-ear	4
knowledge-based	4
metabolic-control-analysis	4
local	4
co-regulation	4
circuits	4
guide	4
hybrid	4
estimation	4
dirichlet	3
differentiation	3
model-selection	3
random	3
multinomial	3
resource	3
differential-equation	3
structural-biology	3
dataset	3
chromosomal-expression	3
evaluation	3
chip-seq	3
pattern-recognition	3
affinity	3
component	3
humans	3
repository	3
chemotherapy	3
management	3
snp	3
chromatin	3
fdr	3
generalized	3
distributions	3
metabolic	3
signal-transduction	3
amplification	3
associations	3
nuclear	3
bacteria	3
metastatic	3
identifiability	3
parasitology	3
performance	3
characteristics	3
robust	3
languages	3
adjustment	3
interference	3
correlation	3
combinatorial	3
automatic	3
renormalization-group-analysis	3
stochasticity	3
gene-circuits	3
tumorigenesis	3
affy	3
introduction	3
ranking	3
accuracy	3
nonnegative	3
assessment	3
unsupervised	3
semantic-web	3
enzyme	3
medicine	3
hmm	3
chemical-master-equation	3
reproducibility	3
polymerase	3
independence	3
exchangeability	3
stochastic-resonance	3
natural	3
regulators	3
genes	3
genotyping	3
beta	3
learning	3
perturbation	3
cell-lines	3
modularity	3
histological	3
signaling-system	3
calibration	3
analysismethods	3
alignment	3
resonance	3
cells	2
text-mining	2
sequential	2
target	2
foundations	2
stem-cells	2
rma	2
present_absent_call	2
exon	2
mutations	2
missing-value	2
cox-theorem	2
approximate	2
stress	2
mismatch	2
5	2
generative	2
homologous	2
translational-medicine	2
physiome	2
threshold	2
rate-law	2
false-discovery	2
constraint-based-modelling	2
primer	2
non-specific	2
difference	2
biopython	2
fractal	2
properties	2
gamma	2
poly	2
distance	2
vector	2
acid	2
saturation	2
benchmark	2
user-computer	2
regulatory-modules	2
knowledgebase	2
parts	2
plausibility	2
health	2
plant	2
indian	2
probit	2
miame	2
lung	2
matrix	2
memory	2
t-test	2
pipelines	2
community	2
set	2
buffet	2
mass_spectroscopy	2
copy-number-variation	2
variational-inference	2
phenome	2
cross-platform	2
kullback-leibler	2
nonequilibrium	2
dsrna	2
lasso	2
comment	2
deterministic	2
behaviour	2
perspective	2
heterogeneous	2
preprocessing	2
post-transcription	2
neuroscience	2
mage	2
3	2
cell-migration	2
subcellular	2
pharmacogenomics	2
organ	2
immune-system	2
opensource	2
p-bodies	2
molecular-connectivity-map	2
programming	2
mitochondria	2
chromosome-wide	2
approximations	2
epithelial	2
grid-computing	2
signaling-pathway	2
sage	2
cross-study	2
multi-target	2
proteome	2

bertelsen's multi-scale [24 articles] Export

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