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Rosemary I. Braun, PhD, MPH - Publications

Northwestern University, Evanston, IL 
computational biology, complex systems, biostatistics, bioinformatics, biophysics

20 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Maas MB, Iwanaszko M, Lizza BD, Reid KJ, Braun RI, Zee PC. Circadian Gene Expression Rhythms During Critical Illness. Critical Care Medicine. PMID 33031153 DOI: 10.1097/CCM.0000000000004697  0.715
2020 Ness-Cohn E, Iwanaszko M, Kath WL, Allada R, Braun R. TimeTrial: An Interactive Application for Optimizing the Design and Analysis of Transcriptomic Times-Series Data in Circadian Biology Research. Journal of Biological Rhythms. 748730420934672. PMID 32613882 DOI: 10.1177/0748730420934672  0.723
2020 Levine DC, Hong H, Weidemann BJ, Ramsey KM, Affinati AH, Schmidt MS, Cedernaes J, Omura C, Braun R, Lee C, Brenner C, Peek CB, Bass J. NAD Controls Circadian Reprogramming through PER2 Nuclear Translocation to Counter Aging. Molecular Cell. PMID 32369735 DOI: 10.1016/J.Molcel.2020.04.010  0.301
2019 Shah SD, Braun R. GeneSurrounder: network-based identification of disease genes in expression data. Bmc Bioinformatics. 20: 229. PMID 31060502 DOI: 10.1186/S12859-019-2829-Y  0.71
2019 Braun R, Kath WL, Iwanaszko M, Kula-Eversole E, Abbott SM, Reid KJ, Zee PC, Allada R. Reply to Laing et al.: Accurate prediction of circadian time across platforms. Proceedings of the National Academy of Sciences of the United States of America. 116: 5206-5208. PMID 30872489 DOI: 10.1073/Pnas.1819173116  0.707
2019 Grimaldi D, Papalambros NA, Reid KJ, Abbott SM, Malkani RG, Gendy M, Iwanaszko M, Braun RI, Sanchez DJ, Paller KA, Zee PC. Strengthening sleep-autonomic interaction via acoustic enhancement of slow oscillations. Sleep. PMID 30753650 DOI: 10.1093/Sleep/Zsz036  0.689
2019 Wojdyla T, Mehta H, Glaubach T, Bertolusso R, Iwanaszko M, Braun R, Corey SJ, Kimmel M. Mutation, drift and selection in single-driver hematologic malignancy: Example of secondary myelodysplastic syndrome following treatment of inherited neutropenia. Plos Computational Biology. 15: e1006664. PMID 30615612 DOI: 10.1371/Journal.Pcbi.1006664  0.684
2019 Wilk G, Braun R. Integrative analysis reveals disrupted pathways regulated by microRNAs in cancer. Nucleic Acids Research. 46: 1089-1101. PMID 29294105 DOI: 10.1093/Nar/Gkx1250  0.718
2018 Nguyen P, Braun R. Time-lagged Ordered Lasso for network inference. Bmc Bioinformatics. 19: 545. PMID 30594121 DOI: 10.1186/S12859-018-2558-7  0.664
2018 Wilk G, Braun R. regQTLs: Single nucleotide polymorphisms that modulate microRNA regulation of gene expression in tumors. Plos Genetics. 14: e1007837. PMID 30557297 DOI: 10.1371/Journal.Pgen.1007837  0.723
2018 Braun R, Kath WL, Iwanaszko M, Kula-Eversole E, Abbott SM, Reid KJ, Zee PC, Allada R. Universal method for robust detection of circadian state from gene expression. Proceedings of the National Academy of Sciences of the United States of America. PMID 30201705 DOI: 10.1073/Pnas.1800314115  0.735
2017 Nguyen P, Braun R. Semi-supervised network inference using simulated gene expression dynamics. Bioinformatics (Oxford, England). PMID 29186340 DOI: 10.1093/Bioinformatics/Btx748  0.637
2014 Braun R. Systems analysis of high-throughput data. Advances in Experimental Medicine and Biology. 844: 153-87. PMID 25480641 DOI: 10.1007/978-1-4939-2095-2_8  0.395
2013 Nabet B, Braun R, Popovic R, Licht JD. Abstract 740: Investigating the role of epigenetic mechanisms upon aberrant signaling network activation. Cancer Research. 73: 740-740. DOI: 10.1158/1538-7445.Am2013-740  0.334
2011 Braun R, Leibon G, Pauls S, Rockmore D. Partition decoupling for multi-gene analysis of gene expression profiling data. Bmc Bioinformatics. 12: 497. PMID 22208906 DOI: 10.1186/1471-2105-12-497  0.384
2006 Cohen J, Arkhipov A, Braun R, Schulten K. Imaging the migration pathways for O2, CO, NO, and Xe inside myoglobin. Biophysical Journal. 91: 1844-57. PMID 16751246 DOI: 10.1529/Biophysj.106.085746  0.538
2005 Phillips JC, Braun R, Wang W, Gumbart J, Tajkhorshid E, Villa E, Chipot C, Skeel RD, Kalé L, Schulten K. Scalable molecular dynamics with NAMD. Journal of Computational Chemistry. 26: 1781-802. PMID 16222654 DOI: 10.1002/Jcc.20289  0.675
2004 Braun R, Engelman DM, Schulten K. Molecular Dynamics Simulations of Micelle Formation around Dimeric Glycophorin A Transmembrane Helices. Biophysical Journal. 87: 754-63. PMID 15298884 DOI: 10.1529/Biophysj.104.040279  0.427
2002 Braun R, Sarikaya M, Schulten K. Genetically engineered gold-binding polypeptides: structure prediction and molecular dynamics. Journal of Biomaterials Science. Polymer Edition. 13: 747-57. PMID 12296441 DOI: 10.1163/156856202760197384  0.434
1999 Gullingsrud JR, Braun R, Schulten K. Reconstructing Potentials of Mean Force through Time Series Analysis of Steered Molecular Dynamics Simulations Journal of Computational Physics. 151: 190-211. DOI: 10.1006/Jcph.1999.6218  0.71
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