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webSDA: a web server to simulate macromolecular diffusional association

Authors: Xiaofeng Yu, Michael Martinez, Annika L. Gable, Jonathan C. Fuller, Neil J. Bruce, Stefan Richter, Rebecca C. Wade

DOI: 10.1093/nar/gkv335

Date Published: 30th Jun 2015

Projects: F3: Kinetic data handling

Journal: Nucleic Acids Res

Citation: Nucleic Acids Res 43(W1) : W220

Scales: Cell

Abstract (Expand)

Macromolecular interactions play a crucial role in biological systems. Simulation of diffusional association (SDA) is a software for carrying out Brownian dynamics simulations that can be used to study ...

Created: 18th Sep 2015 at 13:33 Last updated: 18th Sep 2015 at 13:34

Whole genome transcript profiling of drug induced steatosis in rats reveals a gene signature predictive of outcome

Authors: Nishika Sahini, Saravanakumar Selvaraj, Jürgen Borlak

PubMed ID: 25470483

Date Published: 3rd Dec 2014

Projects: A3.6: Transcription factor network and links to metabolism in NAFLD

Journal: PLoS ONE

Citation: PLoS ONE 9(12): e114085

Scales: Liver

Abstract (Expand)

Drug induced steatosis (DIS) is characterised by excess triglyceride accumulation in the form of lipid droplets (LD) in liver cells. To explore mechanisms underlying DIS we interrogated the publically ...

Created: 29th Jan 2015 at 14:53

WISP1 is a novel adipokine linked to inflammation in obesity

Authors: Veronica Murahovschi, Olga Pivovarova, Iryna Ilkavets, Renata M Dmitrieva, Stephanie Döcke, Farnaz Keyhani-Nejad, Özlem Gögebakan, Martin Osterhoff, Margrit Kemper, Silke Hornemann, Mariya Markova, Nora Klöting, Martin Stockmann, Martin O Weickert, Valeria Lamounier-Zepter, Peter Neuhaus, Alexandra Konradi, Steven Dooley, Christian von Loeffelholz, Matthias Blüher, Andreas F H Pfeiffer, Natalia Rudovich

PubMed ID: 25281430

Date Published: 3rd Oct 2014

Projects: C5: Structural changes and functional consequences of the liver lobular/...

Journal: Diabetes

Citation: Diabetes 64(3): 856-66

Scales: Organism

Abstract (Expand)

WISP1 (Wnt1-inducible signaling pathway protein-1, also known as CCN4) is a member of the secreted extracellular matrix-associated proteins of the CCN family and a target gene of the Wingless-type (WNT) ...

Created: 17th Jun 2015 at 09:29

What can we learn from Einstein and Arrhenius about the optimal flow of our blood

Authors: Stefan Schuster, Heiko Stark

PubMed ID: 24021886

Date Published: 8th Sep 2013

Projects: C3: Zonation of metabolism and its regulation

Journal: Biochim. Biophys. Acta

Citation: Biochim. Biophys. Acta 1840(1): 271-6

Scales: Organism

Abstract (Expand)

The oxygen flow in humans and other higher animals depends on the erythrocyte-to-blood volume ratio, the hematocrit. Since it is physiologically favourable when the flow of oxygen transport is maximum ...

Created: 4th Feb 2014 at 09:02

What mRNA Abundances Can Tell us about Metabolism

Author: Andreas Hoppe

DOI: 10.3390/metabo2030614

Date Published: 1st Sep 2012

Projects: A1.1: Central liver metabolism and its regulation under nutritional chal...

Journal: Metabolites

Citation: Metabolites 2(4) : 614

Scales: Not specified

Abstract (Expand)

Inferring decreased or increased metabolic functions from transcript profiles is at first sight a bold and speculative attempt because of the functional layers in between: proteins, enzymatic activities, ...

Created: 23rd Oct 2012 at 12:30 Last updated: 24th Oct 2013 at 16:16

webPIPSA: a web server for the comparison of protein interaction properties

Authors: Stefan Richter, Anne Wenzel, Matthias Stein, Razif R Gabdoulline, Rebecca C Wade

PubMed ID: 18420653

Date Published: 17th Apr 2008

Projects: No Projects

Journal: Nucleic Acids Res.

Citation: Nucleic Acids Res. 36(Web Server issue): W276-80

Scales: Not specified

Abstract (Expand)

Protein molecular interaction fields are key determinants of protein functionality. PIPSA (Protein Interaction Property Similarity Analysis) is a procedure to compare and analyze protein molecular ...

Created: 31st Oct 2012 at 14:11 Last updated: 24th Oct 2013 at 16:22

Web-links as a means to document annotated sequence and 3D-structure alignments in systems biology

Authors: Chirstoph Gille, Andreas Hoppe, Herman-Georg Holzhütter

PubMed ID: 19425142

Date Published: 2008

Projects: F2: The Liver Knowledge Base (LKB)

Journal: Genome Inform

Citation: Genome Inform 20: 277-84

Scales: Not specified

Abstract (Expand)

Reconstructed biological networks are the essence of knowledge originating from experiments, scientific literature, databases and modeling. Proteins are the major players in biological networks. If the ...

Created: 4th Jan 2013 at 10:55 Last updated: 24th Oct 2013 at 16:23