Scientific discovery as a combinatorial optimisation problem: How best to navigate the landscape of possible experiments?

Breeding crop plants with deep roots: their role in sustainable carbon, nutrient and water sequestration

(2011) D. B. Kell   ANNALS OF BOTANY

Integrating systems biology models and biomedical ontologies

(2011) Robert Hoehndorf et al.   BMC Systems Biology

Pharmaceutical drug transport: the issues and the implications that it is essentially carrier-mediated only

(2011) Douglas B. Kell et al.   DRUG DISCOVERY TODAY

Visualisation and subsets of the chemical universe database GDB-13 for virtual screening

(2011) Lorenz C. Blum et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Controlled vocabularies and semantics in systems biology

(2011) M. Courtot et al.   Molecular Systems Biology

Efficient discovery of anti-inflammatory small-molecule combinations using evolutionary computing

(2011) Ben G Small et al.   Nature Chemical Biology

How to Grow a Mind: Statistics, Structure, and Abstraction

(2011) J. B. Tenenbaum et al.   SCIENCE

Systems metabolic engineering for chemicals and materials

(2011) Jeong Wook Lee et al.   TRENDS IN BIOTECHNOLOGY

Predictive models for population performance on real biological fitness landscapes

(2010) William Rowe et al.   BIOINFORMATICS

Bioinformatics challenges for genome-wide association studies

(2010) J. H. Moore et al.   BIOINFORMATICS

Further developments towards a genome-scale metabolic model of yeast

(2010) Paul D Dobson et al.   BMC Systems Biology

A survey of formalisms for representing and reasoning with scientific knowledge

(2010) Anthony Hunter et al.   KNOWLEDGE ENGINEERING REVIEW

Rapid profiling of a microbial genome using mixtures of barcoded oligonucleotides

(2010) Joseph R Warner et al.   NATURE BIOTECHNOLOGY

A protocol for generating a high-quality genome-scale metabolic reconstruction

(2010) Ines Thiele et al.   Nature Protocols

Rise of the Robo Scientists

(2010) Ross D. King   SCIENTIFIC AMERICAN

Event extraction for systems biology by text mining the literature

(2010) Sophia Ananiadou et al.   TRENDS IN BIOTECHNOLOGY

Annotation of SBML models through rule-based semantic integration

(2010) Allyson L Lister et al.   Journal of Biomedical Semantics

Calling International Rescue: knowledge lost in literature and data landslide!

(2009) Teresa K. Attwood et al.   BIOCHEMICAL JOURNAL

Visualising biological data: a semantic approach to tool and database integration

(2009) Steve Pettifer et al.   BMC BIOINFORMATICS

The Robot Scientist Adam

(2009) Ross D. King et al.   COMPUTER

Closed-loop evolutionary multiobjective optimization

(2009) Joshua Knowles   IEEE Computational Intelligence Magazine

Analysis of a complete DNA-protein affinity landscape

(2009) W. Rowe et al.   Journal of the Royal Society Interface

How To Choose a Good Scientific Problem

(2009) Uri Alon   MOLECULAR CELL

The Automation of Science

(2009) Ross D. King et al.   SCIENCE

Distilling Free-Form Natural Laws from Experimental Data

(2009) Michael Schmidt et al.   SCIENCE

Systems approaches and algorithms for discovery of combinatorial therapies

(2009) Jacob D. Feala et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Bayesian inference of the sites of perturbations in metabolic pathways via Markov chain Monte Carlo

(2008) Bayu Jayawardhana et al.   BIOINFORMATICS

Seeking a New Biology through Text Mining

(2008) Andrey Rzhetsky et al.   CELL

‘Metabolite-likeness’ as a criterion in the design and selection of pharmaceutical drug libraries

(2008) Paul D. Dobson et al.   DRUG DISCOVERY TODAY

A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology

(2008) Markus J Herrgård et al.   NATURE BIOTECHNOLOGY

Network pharmacology: the next paradigm in drug discovery

(2008) Andrew L Hopkins   Nature Chemical Biology

Flowering-time genes modulate meristem determinacy and growth form in Arabidopsis thaliana

(2008) Siegbert Melzer et al.   NATURE GENETICS

Carrier-mediated cellular uptake of pharmaceutical drugs: an exception or the rule?

(2008) Paul D. Dobson et al.   NATURE REVIEWS DRUG DISCOVERY

Reconstruction of biochemical networks in microorganisms

(2008) Adam M. Feist et al.   NATURE REVIEWS MICROBIOLOGY

Array-based evolution of DNA aptamers allows modelling of an explicit sequence-fitness landscape

(2008) Christopher G. Knight et al.   NUCLEIC ACIDS RESEARCH

Evaluating the links between climate, disease spread, and amphibian declines

(2008) J. R. Rohr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Defrosting the Digital Library: Bibliographic Tools for the Next Generation Web

(2008) Duncan Hull et al.   PLoS Computational Biology

The markup is the model: Reasoning about systems biology models in the Semantic Web era

(2007) Douglas B. Kell et al.   JOURNAL OF THEORETICAL BIOLOGY