26.
Modeling time delay in the NFκ B signaling pathway following low dose IL-1 stimulation
Johannes
Witt,
Sandra
Barisic,
Oliver
Sawodny,
Michael
Ederer,
Dagmar
Kulms,
Thomas
Sauter
EURASIP Journal on Bioinformatics and Systems Biology 2011, 2011 :3 (17 June 2011)
Abstract | Full text | PDF | PubMed
27.
A systems biology approach to analyse leaf carbohydrate metabolism in Arabidopsis thaliana
Sebastian
Henkel,
Thomas
Nägele,
Imke
Hörmiller,
Thomas
Sauter,
Oliver
Sawodny,
Michael
Ederer,
Arnd
G
Heyer
EURASIP Journal on Bioinformatics and Systems Biology 2011, 2011 :2 (17 June 2011)
Abstract | Full text | PDF | PubMed
28.
Health impact assessment of waste management facilities in three European countries
Francesco
Forastiere,
Chiara
Badaloni,
Kees
de Hoogh,
Martin
K
von Kraus,
Marco
Martuzzi,
Francesco
Mitis,
Lubica
Palkovicova,
Daniela
Porta,
Philipp
Preiss,
Andrea
Ranzi,
Carlo
A
Perucci,
David
Briggs
Environmental Health 2011, 10 :53 (2 June 2011)
Abstract | Full text | PDF | PubMed
29.
Agent-based simulation of reactions in the crowded and structured intracellular environment: Influence of mobility and location of the reactants
Michael
T
Klann,
Alexei
Lapin,
Matthias
Reuss
BMC Systems Biology 2011, 5 :71 (14 May 2011)
Abstract | Full text | PDF | PubMed
30.
A systems biology approach to dynamic modeling and inter-subject variability of statin pharmacokinetics in human hepatocytes
Joachim
Bucher,
Stephan
Riedmaier,
Anke
Schnabel,
Katrin
Marcus,
Gabriele
Vacun,
Thomas
S
Weiss,
Wolfgang
E
Thasler,
Andreas
K
Nüssler,
Ulrich
M
Zanger,
Matthias
Reuss
BMC Systems Biology 2011, 5 :66 (6 May 2011)
Abstract | Full text | PDF | PubMed
31.
Identification of models of heterogeneous cell populations from population snapshot data
Jan
Hasenauer,
Steffen
Waldherr,
Malgorzata
Doszczak,
Nicole
Radde,
Peter
Scheurich,
Frank
Allgöwer
BMC Bioinformatics 2011, 12 :125 (28 April 2011)
Abstract | Full text | PDF | PubMed
32.
Engineering of a plasmid-free Escherichia coli strain for improved in vivo biosynthesis of astaxanthin
Karin
Lemuth,
Kristin
Steuer,
Christoph
Albermann
Microbial Cell Factories 2011, 10 :29 (26 April 2011)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
33.
Lipase-catalysed acylation of starch and determination of the degree of substitution by methanolysis and GC
Apostolos
Alissandratos,
Nina
Baudendistel,
Sabine
L
Flitsch,
Bernhard
Hauer,
Peter
J
Halling
BMC Biotechnology 2010, 10 :82 (29 November 2010)
Abstract | Full text | PDF | PubMed
34.
Prediction and analysis of the modular structure of cytochrome P450 monooxygenases
Demet
Sirim,
Michael
Widmann,
Florian
Wagner,
Jürgen
Pleiss
BMC Structural Biology 2010, 10 :34 (15 October 2010)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
35.
SHV Lactamase Engineering Database: a reconciliation tool for SHV β -lactamases in public databases
Quan
K
Thai,
Juergen
Pleiss
BMC Genomics 2010, 11 :563 (13 October 2010)
Abstract | Full text | PDF | PubMed
36.
Bridging time scales in cellular decision making with a stochastic bistable switch
Steffen
Waldherr,
Jingbo
Wu,
Frank
Allgöwer
BMC Systems Biology 2010, 4 :108 (9 August 2010)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
37.
Review of three Recent Books on the Boundary of Bioinformatics and Systems Biology
Eric
Bullinger,
Monica
Schliemann
BioMedical Engineering OnLine 2010, 9 :33 (14 July 2010)
Abstract | Full text | PDF
38.
Molecular understanding of sterically controlled compound release through an engineered channel protein (FhuA)
Arcan
Güven,
Marco
Fioroni,
Bernhard
Hauer,
Ulrich
Schwaneberg
Journal of Nanobiotechnology 2010, 8 :14 (25 June 2010)
Abstract | Full text | PDF | PubMed
39.
Attenuation Analysis of Lamb Waves Using the Chirplet Transform
Florian
Kerber,
Helge
Sprenger,
Marc
Niethammer,
Kritsakorn
Luangvilai,
LaurenceJ
Jacobs
EURASIP Journal on Advances in Signal Processing 2010, 2010 :375171 (14 June 2010)
Abstract | Full text | PDF
40.
Dynamics and Control of the Central Carbon Metabolism in Hepatoma Cells
Klaus
Maier,
Ute
Hofmann,
Matthias
Reuss,
Klaus
Mauch
BMC Systems Biology 2010, 4 :54 (28 April 2010)
Abstract | Full text | PDF | PubMed
41.
Transcriptome survey of the anhydrobiotic tardigrade Milnesium tardigradum in comparison with Hypsibius dujardini and Richtersius coronifer
Brahim
Mali,
Markus
A
Grohme,
Frank
Förster,
Thomas
Dandekar,
Martina
Schnölzer,
Dirk
Reuter,
Weronika
Wełnicz,
Ralph
O
Schill,
Marcus
Frohme
BMC Genomics 2010, 11 :168 (12 March 2010)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000 Biology
42.
Structural classification by the Lipase Engineering Database: a case study of Candida antarctica lipase A
Michael
Widmann,
P Benjamin
Juhl,
Jürgen
Pleiss
BMC Genomics 2010, 11 :123 (19 February 2010)
Abstract | Full text | PDF | PubMed
43.
The Thiamine diphosphate dependent Enzyme Engineering Database: A tool for the systematic analysis of sequence and structure relations
Michael
Widmann,
Robert
Radloff,
Jürgen
Pleiss
BMC Biochemistry 2010, 11 :9 (1 February 2010)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
A database of thiamine diphosphate (ThDP) dependent enzymes includes multisequence alignments and phylogenetic trees for families of the enzymes, structural information, and SNPs of human enzymes that might be related to disease.
44.
Amplitude distribution of stochastic oscillations in biochemical networks due to intrinsic noise
Moritz
Lang,
Steffen
Waldherr,
Frank
Allgöwer
PMC Biophysics 2009, 2 :10 (17 November 2009)
Abstract | Full text | PDF | PubMed
|
Editor’s summary
Intrinsic noise is a common phenomenon in biochemical reaction networks and may affect the occurence and amplitude of sustained oscillations in the states of the network. We present a new method to compute the amplitude distribution of the oscillations without the need for long-term stochastic simulations.
45.
The Cytochrome P450 Engineering Database: integration of biochemical properties
Demet
Sirim,
Florian
Wagner,
Andrey
Lisitsa,
Jürgen
Pleiss
BMC Biochemistry 2009, 10 :27 (12 November 2009)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
The new version of the Cytochrome P450 Engineering Database (CYPED) contains information on the sequences of 8613 proteins and the structures of 47 proteins, and has been extended by integrating biochemical information from the Cytochrome P450 Knowledgebase.
46.
Long-term prediction of fish growth under varying ambient temperature using a multiscale dynamic model
Nadav
S
Bar,
Nicole
Radde
BMC Systems Biology 2009, 3 :107 (10 November 2009)
Abstract | Full text | PDF | PubMed
47.
The mitochondrial genomes of the ciliates Euplotes minuta and Euplotes crassus
Rob
M
de Graaf,
Theo
A
van Alen,
Bas
E
Dutilh,
Jan
WP
Kuiper,
Hanneke
JAA
van Zoggel,
Minh
Huynh,
Hans-Dieter
Görtz,
Martijn
A
Huynen,
Johannes
HP
Hackstein
BMC Genomics 2009, 10 :514 (6 November 2009)
Abstract | Full text | PDF | PubMed
48.
Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades
Frank
Förster,
Chunguang
Liang,
Alexander
Shkumatov,
Daniela
Beisser,
Julia
C
Engelmann,
Martina
Schnölzer,
Marcus
Frohme,
Tobias
Müller,
Ralph
O
Schill,
Thomas
Dandekar
BMC Genomics 2009, 10 :469 (12 October 2009)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
49.
Modeling system states in liver cells: Survival, apoptosis and their modifications in response to viral infection
Nicole
Philippi,
Dorothee
Walter,
Rebekka
Schlatter,
Karine
Ferreira,
Michael
Ederer,
Oliver
Sawodny,
Jens
Timmer,
Christoph
Borner,
Thomas
Dandekar
BMC Systems Biology 2009, 3 :97 (22 September 2009)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
|
Editor’s summary
A Boolean network model for liver cells has four stable system states, two for survival and two for apoptosis, and is validated by successful predictions of the outcome of viral infection and varying growth substrate signals in the presence of FasL.
50.
The Lactamase Engineering Database: a critical survey of TEM sequences in public databases
Quan
Thai,
Fabian
Bös,
Jürgen
Pleiss
BMC Genomics 2009, 10 :390 (21 August 2009)
Abstract | Full text | PDF | PubMed