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Top Articles

#TitleJournalYearCitations
1Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal OmegaMolecular Systems Biology201113,322
2Construction of Escherichia coli K‐12 in‐frame, single‐gene knockout mutants: the Keio collectionMolecular Systems Biology20066,783
3Current best practices in single‐cell RNA‐seq analysis: a tutorialMolecular Systems Biology20191,456
4Network‐based classification of breast cancer metastasisMolecular Systems Biology20071,327
5A genome‐scale metabolic reconstruction for Escherichia coli K‐12 MG1655 that accounts for 1260 ORFs and thermodynamic informationMolecular Systems Biology20071,246
6Selected reaction monitoring for quantitative proteomics: a tutorialMolecular Systems Biology20081,235
7Deep learning for computational biologyMolecular Systems Biology20161,114
8Potential of fecal microbiota for early‐stage detection of colorectal cancerMolecular Systems Biology20141,051
9A comprehensive genome‐scale reconstruction of Escherichia coli metabolism—2011Molecular Systems Biology2011938
10A comprehensive pathway map of epidermal growth factor receptor signalingMolecular Systems Biology2005934
11Network‐based prediction of protein functionMolecular Systems Biology2007925
12Ultrasensitive proteome analysis using paramagnetic bead technologyMolecular Systems Biology2014908
13Deep proteome and transcriptome mapping of a human cancer cell lineMolecular Systems Biology2011895
14Large‐scale mapping of human protein–protein interactions by mass spectrometryMolecular Systems Biology2007865
15Synthetic biology: new engineering rules for an emerging disciplineMolecular Systems Biology2006837
16The protein expression profile of ACE2 in human tissuesMolecular Systems Biology2020825
17Feedback between p21 and reactive oxygen production is necessary for cell senescenceMolecular Systems Biology2010787
18Applications of genome‐scale metabolic reconstructionsMolecular Systems Biology2009772
19A side effect resource to capture phenotypic effects of drugsMolecular Systems Biology2010772
20Data‐independent acquisition‐based SWATH ‐ MS for quantitative proteomics: a tutorialMolecular Systems Biology2018772
21Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data setsMolecular Systems Biology2018731
22The quantitative proteome of a human cell lineMolecular Systems Biology2011711
23Differential network biologyMolecular Systems Biology2012701
24PREDICT: a method for inferring novel drug indications with application to personalized medicineMolecular Systems Biology2011686
25Towards a theory of biological robustnessMolecular Systems Biology2007666
26Revisiting biomarker discovery by plasma proteomicsMolecular Systems Biology2017649
27Omic data from evolved E. coli are consistent with computed optimal growth from genome‐scale modelsMolecular Systems Biology2010639
28Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coliMolecular Systems Biology2007629
29A uniform proteomics MS/MS analysis platform utilizing open XML file formatsMolecular Systems Biology2005628
30Novel biomarkers for pre‐diabetes identified by metabolomicsMolecular Systems Biology2012627
31A deep proteome and transcriptome abundance atlas of 29 healthy human tissuesMolecular Systems Biology2019627
32Network‐based global inference of human disease genesMolecular Systems Biology2008594
33Metabolic networks in motion: 13 C‐based flux analysisMolecular Systems Biology2006590
34How to infer gene networks from expression profilesMolecular Systems Biology2007586
35The endocannabinoid system links gut microbiota to adipogenesisMolecular Systems Biology2010564
36Shifts in growth strategies reflect tradeoffs in cellular economicsMolecular Systems Biology2009562
37Oscillations and variability in the p53 systemMolecular Systems Biology2006548
38Sequence signatures and mRNA concentration can explain two‐thirds of protein abundance variation in a human cell lineMolecular Systems Biology2010537
39The auxin signalling network translates dynamic input into robust patterning at the shoot apexMolecular Systems Biology2011532
40Human disease classification in the postgenomic era: A complex systems approach to human pathobiologyMolecular Systems Biology2007494
41Metabolic modeling of a mutualistic microbial communityMolecular Systems Biology2007493
42Phosphotyrosine interactome of the ErbB‐receptor kinase familyMolecular Systems Biology2005475
43Metabolomic and transcriptomic stress response of Escherichia coliMolecular Systems Biology2010470
44Modular cell biology: retroactivity and insulationMolecular Systems Biology2008460
45Engineering microbial biofuel tolerance and export using efflux pumpsMolecular Systems Biology2011447
46A synthetic Escherichia coli predator–prey ecosystemMolecular Systems Biology2008431
47Genome‐scale models of metabolism and gene expression extend and refine growth phenotype predictionMolecular Systems Biology2013426
48A top‐down systems biology view of microbiome‐mammalian metabolic interactions in a mouse modelMolecular Systems Biology2007425
49Oncogenic K‐Ras decouples glucose and glutamine metabolism to support cancer cell growthMolecular Systems Biology2011424
50Predicting selective drug targets in cancer through metabolic networksMolecular Systems Biology2011423