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| The FoldX web server: an online force field | Nucleic Acids Research | 2005 | 1.5K |
| Comparative metagenomics of microbial communities | Science | 2005 | 1.2K |
| Comparative characteristics of mesenchymal stem cells from human bone marrow, adipose tissue, and umbilical cord blood | Experimental Hematology | 2005 | 1K |
| STRING: known and predicted protein-protein associations, integrated and transferred across organisms | Nucleic Acids Research | 2005 | 953 |
| Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution | Cell | 2005 | 890 |
| Global rigid body modeling of macromolecular complexes against small-angle scattering data | Biophysical Journal | 2005 | 770 |
| An algorithm for progressive multiple alignment of sequences with insertions | Proceedings of the National Academy of Sciences of the United States of America | 2005 | 699 |
| An acylation cycle regulates localization and activity of palmitoylated Ras isoforms | Science | 2005 | 679 |
| A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses | Science | 2005 | 662 |
| Structural basis for the regulation of tubulin by vinblastine | Nature | 2005 | 554 |
| FKF1 F-box protein mediates cyclic degradation of a repressor of CONSTANS in Arabidopsis | Science | 2005 | 533 |
| Adaptive evolution of bacterial metabolic networks by horizontal gene transfer | Nature Genetics | 2005 | 389 |
| The macro domain is an ADP-ribose binding module | EMBO Journal | 2005 | 380 |
| Nonsense-mediated mRNA decay: molecular insights and mechanistic variations across species | Current Opinion in Cell Biology | 2005 | 366 |
| Induction of tumor growth by altered stem-cell asymmetric division in Drosophila melanogaster | Nature Genetics | 2005 | 359 |
| A structural model for unfolded proteins from residual dipolar couplings and small-angle x-ray scattering | Proceedings of the National Academy of Sciences of the United States of America | 2005 | 357 |
| A crucial role for GW182 and the DCP1:DCP2 decapping complex in miRNA-mediated gene silencing | Rna | 2005 | 350 |
| Dynamic complex formation during the yeast cell cycle | Science | 2005 | 343 |
| An enzymatic cascade of Rab5 effectors regulates phosphoinositide turnover in the endocytic pathway | Journal of Cell Biology | 2005 | 309 |
| Tumor suppressor properties of the ESCRT-II complex component Vps25 in Drosophila | Developmental Cell | 2005 | 278 |
| Prediction of water and metal binding sites and their affinities by using the Fold-X force field | Proceedings of the National Academy of Sciences of the United States of America | 2005 | 278 |
| Disruption of Toxoplasma gondii parasitophorous vacuoles by the mouse p47-resistance GTPases | PLoS Pathogens | 2005 | 273 |
| Systematic discovery of new recognition peptides mediating protein interaction networks | PLoS Biology | 2005 | 257 |
| Pushing the envelope: structure, function, and dynamics of the nuclear periphery | Annual Review of Cell and Developmental Biology | 2005 | 251 |
