| Year |
Citation |
Score |
| 2016 |
Benyoucef A, Palii CG, Wang C, Porter CJ, Chu A, Dai F, Tremblay V, Rakopoulos P, Singh K, Huang S, Pflumio F, Hébert J, Couture JF, Perkins TJ, Ge K, et al. UTX inhibition as selective epigenetic therapy against TAL1-driven T-cell acute lymphoblastic leukemia. Genes & Development. 30: 508-21. PMID 26944678 DOI: 10.1101/gad.276790.115 |
1 |
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| 2015 |
Ramachandran P, Palidwor GA, Perkins TJ. BIDCHIPS: bias decomposition and removal from ChIP-seq data clarifies true binding signal and its functional correlates. Epigenetics & Chromatin. 8: 33. PMID 26388941 DOI: 10.1186/s13072-015-0028-2 |
1 |
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| 2015 |
Ghadie MA, Japkowicz N, Perkins TJ. Gene selection for the reconstruction of stem cell differentiation trees: a linear programming approach. Bioinformatics (Oxford, England). PMID 25847008 DOI: 10.1093/bioinformatics/btv192 |
1 |
|
| 2015 |
Awdeh A, Phenix H, Kaern M, Perkins TJ. The potential power of dynamics in epistasis analysis Bcb 2015 - 6th Acm Conference On Bioinformatics, Computational Biology, and Health Informatics. 106-115. DOI: 10.1145/2808719.2808730 |
1 |
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| 2015 |
Grinberg Y, Perkins TJ. State sequence analysis in hidden Markov models Uncertainty in Artificial Intelligence - Proceedings of the 31st Conference, Uai 2015. 336-344. |
1 |
|
| 2014 |
Perkins TJ, Foxall E, Glass L, Edwards R. A scaling law for random walks on networks. Nature Communications. 5: 5121. PMID 25311870 DOI: 10.1038/ncomms6121 |
1 |
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| 2014 |
Palii CG, Vulesevic B, Fraineau S, Pranckeviciene E, Griffith AJ, Chu A, Faralli H, Li Y, McNeill B, Sun J, Perkins TJ, Dilworth FJ, Perez-Iratxeta C, Suuronen EJ, Allan DS, et al. Trichostatin A enhances vascular repair by injected human endothelial progenitors through increasing the expression of TAL1-dependent genes. Cell Stem Cell. 14: 644-57. PMID 24792117 DOI: 10.1016/j.stem.2014.03.003 |
1 |
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| 2014 |
Li K, Precup D, Perkins TJ. Pooled screening for synergistic interactions subject to blocking and noise Plos One. 9. PMID 24454940 DOI: 10.1371/journal.pone.0085864 |
1 |
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| 2014 |
Nilufar S, Perkins TJ. Learning to detect contours with dynamic programming snakes Proceedings - International Conference On Pattern Recognition. 984-989. DOI: 10.1109/ICPR.2014.179 |
1 |
|
| 2013 |
Nilufar S, Morrow AA, Lee JM, Perkins TJ. FiloDetect: Automatic detection of filopodia from fluorescence microscopy images Bmc Systems Biology. 7. PMID 23880086 DOI: 10.1186/1752-0509-7-66 |
1 |
|
| 2013 |
Soleimani VD, Palidwor GA, Ramachandran P, Perkins TJ, Rudnicki MA. Chromatin tandem affinity purification sequencing Nature Protocols. 8: 1525-1534. PMID 23845964 DOI: 10.1038/nprot.2013.088 |
1 |
|
| 2013 |
Ramachandran P, Palidwor GA, Porter CJ, Perkins TJ. MaSC: Mappability-sensitive cross-correlation for estimating mean fragment length of single-end short-read sequencing data Bioinformatics. 29: 444-450. PMID 23300135 DOI: 10.1093/bioinformatics/btt001 |
1 |
|
| 2012 |
Levin P, Lefebvre J, Perkins TJ. What do molecules do when we are not looking? State sequence analysis for stochastic chemical systems Journal of the Royal Society Interface. 9: 3411-3425. PMID 22977098 DOI: 10.1098/rsif.2012.0633 |
1 |
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| 2012 |
Soleimani VD, Punch VG, Kawabe Y, Jones AE, Palidwor GA, Porter CJ, Cross JW, Carvajal JJ, Kockx CE, van IJcken WF, Perkins TJ, Rigby PW, Grosveld F, Rudnicki MA. Transcriptional dominance of Pax7 in adult myogenesis is due to high-affinity recognition of homeodomain motifs. Developmental Cell. 22: 1208-20. PMID 22609161 DOI: 10.1016/j.devcel.2012.03.014 |
1 |
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| 2012 |
Lefebvre J, Perkins TJ. Neural population densities shape network correlations. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 85: 021914. PMID 22463251 DOI: 10.1103/PhysRevE.85.021914 |
1 |
|
| 2012 |
Iacucci E, Zingg HH, Perkins TJ. Methods for determining the statistical significance of enrichment or depletion of gene ontology classifications under weighted membership Frontiers in Genetics. 3. DOI: 10.3389/fgene.2012.00024 |
1 |
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| 2011 |
Chan CC, Scoggin S, Wang D, Cherry S, Dembo T, Greenberg B, Jin EJ, Kuey C, Lopez A, Mehta SQ, Perkins TJ, Brankatschk M, Rothenfluh A, Buszczak M, Hiesinger PR. Systematic discovery of Rab GTPases with synaptic functions in Drosophila. Current Biology : Cb. 21: 1704-15. PMID 22000105 DOI: 10.1016/j.cub.2011.08.058 |
1 |
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| 2011 |
Phenix H, Morin K, Batenchuk C, Parker J, Abedi V, Yang L, Tepliakova L, Perkins TJ, Kærn M. Quantitative epistasis analysis and pathway inference from genetic interaction data. Plos Computational Biology. 7: e1002048. PMID 21589890 DOI: 10.1371/journal.pcbi.1002048 |
1 |
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| 2011 |
Charlebois DA, Perkins TJ, Kaern M. Stochastic gene expression and the processing and propagation of noisy signals in genetic networks Intelligent Systems Reference Library. 11: 89-112. DOI: 10.1007/978-3-642-19621-8_5 |
1 |
|
| 2010 |
Salehi M, Perkins TJ. Maximum probability reaction sequences in stochastic chemical kinetic systems. Frontiers in Physiology. 1: 170. PMID 21629860 DOI: 10.3389/fphys.2010.00170 |
1 |
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| 2010 |
Summer G, Perkins TJ. Functional data analysis for identifying nonlinear models of gene regulatory networks. Bmc Genomics. 11: S18. PMID 21143801 DOI: 10.1186/1471-2164-11-S4-S18 |
1 |
|
| 2010 |
Husainy AN, Morrow AA, Perkins TJ, Lee JM. Robust patterns in the stochastic organization of filopodia. Bmc Cell Biology. 11: 86. PMID 21083909 DOI: 10.1186/1471-2121-11-86 |
1 |
|
| 2010 |
Palidwor GA, Perkins TJ, Xia X. A general model of codon bias due to GC mutational bias. Plos One. 5: e13431. PMID 21048949 DOI: 10.1371/journal.pone.0013431 |
1 |
|
| 2010 |
Perkins TJ, Wilds R, Glass L. Robust dynamics in minimal hybrid models of genetic networks. Philosophical Transactions. Series a, Mathematical, Physical, and Engineering Sciences. 368: 4961-75. PMID 20921006 DOI: 10.1098/rsta.2010.0139 |
1 |
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| 2010 |
Song C, Phenix H, Abedi V, Scott M, Ingalls BP, Kaern M, Perkins TJ. Estimating the stochastic bifurcation structure of cellular networks. Plos Computational Biology. 6: e1000699. PMID 20221261 DOI: 10.1371/journal.pcbi.1000699 |
1 |
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| 2010 |
Perkins TJ, Hallett MT. A trade-off between sample complexity and computational complexity in learning Boolean networks from time-series data. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 7: 118-25. PMID 20150674 DOI: 10.1109/TCBB.2008.38 |
1 |
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| 2009 |
Perkins TJ. Maximum likelihood trajectories for continuous-time Markov chains Advances in Neural Information Processing Systems 22 - Proceedings of the 2009 Conference. 1437-1445. |
1 |
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| 2006 |
Perkins TJ, Jaeger J, Reinitz J, Glass L. Reverse engineering the gap gene network of Drosophila melanogaster. Plos Computational Biology. 2: e51. PMID 16710449 DOI: 10.1371/journal.pcbi.0020051 |
1 |
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| 2006 |
Rosenfeld N, Perkins TJ, Alon U, Elowitz MB, Swain PS. A fluctuation method to quantify in vivo fluorescence data. Biophysical Journal. 91: 759-66. PMID 16648159 DOI: 10.1529/biophysj.105.073098 |
1 |
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| 2005 |
Glass L, Perkins TJ, Mason J, Siegelmann HT, Edwards R. Chaotic dynamics in an electronic model of a genetic network Journal of Statistical Physics. 121: 989-994. DOI: 10.1007/s10955-005-7009-y |
1 |
|
| 2003 |
Perkins TJ, Barto AG. Lyapunov design for safe reinforcement learning Journal of Machine Learning Research. 3: 803-832. |
1 |
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| 2003 |
Perkins TJ, Precup D. A convergent form of approximate policy iteration Advances in Neural Information Processing Systems. |
1 |
|
| 2002 |
Bernstein DS, Perkins TJ, Zilberstein S, Finkelstein L. Scheduling contract algorithms on multiple processors Proceedings of the National Conference On Artificial Intelligence. 702-706. |
1 |
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| 2001 |
Perkins TJ, Barto AG. Heuristic search in infinite state spaces guided by Lyapunov analysis Ijcai International Joint Conference On Artificial Intelligence. 242-247. |
1 |
|
| 1999 |
Moll R, Barto AG, Perkins TJ, Sutton RS. Learning instance-independent value functions to enhance local search Advances in Neural Information Processing Systems. 1017-1023. |
1 |
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