Salzman Lab Publications

Selected Publications

L Szabo, J Salzman (2016). Detecting Circular RNAs: bioinformatic and experimental challenges. doi:10.1038/nrg.2016.114
http://www.nature.com/nrg/journal/v17/n11/full/nrg.2016.114.html   PDF

S.P. Barrett, J Salzman (2016). Circular RNAs: analysis, expressions and potential functions. DOI 10.1242/dev.128074
http://dev.biologists.org/content/143/11/1838.abstract   PDF

J Salzman (2016). Circular RNA Expression: Its Potential Regulation and Function. Trends in Genetics: DOI 10.1016/j.tig.2016.03.002 http://www.sciencedirect.com/science/article/pii/S0168952516000329   PDF Copy

S.P. Barrett, P.L. Wang, J. Salzman (2015). Circular RNA biogenesis can proceed through an exon-containing lariat precursor. eLife 4: e07540. http://elifesciences.org/content/elife/4/e07540.full.pdf

L. Szabo, R. Morey, N.J. Palpant, P.L. Wang, N. Afari, C. Jiang, M.M. Parast, C.E. Murry, L.C. Laurent, J. Salzman (2015). Statistically based splicing detection reveals neural enrichment and tissue-specific induction of circular RNA during fetal development. Genome Biology 16(126): DOI 10.1186/s13059-015-0690-5 http://www.biomedcentral.com/content/pdf/s13059-015-0690-5.pdf

H. Jiang, J. Salzman (2014) A penalized likelihood approach for robust estimation of isoform expression. Statistics and Its Interface. 8, 437-445. PDF  

P.L. Wang, Y. Bao, M.C. Yee, S.P. Barrett, G.J. Hogan, M.N. Olsen, J.R. Dinneny, P.O. Brown, J. Salzman (2014). Circular RNA Is Expressed across the Eukaryotic Tree of Life. PLoS ONE 9(3): e90859. doi:10.1371/journal.pone.0090859. http://www.plosone.org/article/fetchObject.action?uri=info:doi/10.1371/journal.pone.0090859&representation=PDF

J. Salzman, R.E. Chen, M.N. Olsen, P.L. Wang, P.O. Brown (2013). Cell type specific features of circular RNA expression. PLoS Genetics, doi:10.1371/journal.pgen.1003777 http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1003777

H. Jiang, J. Salzman (2012) Statistical properties of an early stopping rule for resampling-based multiple testing. Biometrika, doi: 10.1093/biomet/ass051. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3629857/pdf/ass051.pdf

J. Salzman, C. Gawad, P. L. Wang, N. Lacayo and P. O. Brown (2012). Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types. PLoS One. 7(2). — Faculty of 1000; features in Nature, Biotechniques and other scientific press venues. http://www.plosone.org/article/fetchObject.action?uri=info:doi/10.1371/journal.pone.0030733&representation=PDF

J. Salzman, R. J. Marinelli, P. L. Wang, A. Greene, J. Nielsen, B. Nelsen, C. Dresher and P. O. Brown (2011). ESRRA-C11orf20 is a Recurrent Gene Fusion in Serous Ovarian Carcinoma. PLoS Biology, 9(9). http://www.plosbiology.org/article/fetchObject.action?uri=info:doi/10.1371/journal.pbio.1001156&representation=PDF

J. Salzman, H. Jiang, and W. Wong (2011). Statistical Modeling of RNA-Seq Data. Statistical Science. 26 (1). http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3846358/pdf/nihms498524.pdf

D. T. Pride, C. Sun, J. Salzman, N. Rao, P. Loomer, G. C. Armitage, J. Banfield, and D. A. Relman (2010). Analysis of Streptococcal CRISPRs from Human Saliva Reveals Substantial Sequence Diversity Within and Between Subjects Over Time. Genome Research. 21. http://genome.cshlp.org/content/21/1/126.full.pdf

N. Tsvetanova, D. Klass, J. Salzman and P.O. Brown (2010). Proteome-Wide Search Reveals Unexpected RNA-Binding Proteins in Saccharomyces Cerevisiae. PLoS One. 5(9). http://www.plosone.org/article/fetchObject.action?uri=info:doi/10.1371/journal.pone.0012671&representation=PDF

M. Rabinowitz, D.S. Johnson, J. Salzman, M. Banjevic, C. Cinnioglu, B. Behr (2008). Reliable Concurrent Calling of Multiple Genetic Alleles and 24-Chromosome Ploidy Without Embryo Freezing Using Parental Support Technology (PS). Fertility and Sterility, Volume 90, Page S23. http://www.fertstert.org/article/S0015-0282(08)01600-2/pdf

A. Nayak and J. Salzman (2006). Limits on the Ability of Quantum States to Convey Classical Messages. Journal of the ACM. 52, No. 1, 184-206. http://dl.acm.org/ft_gateway.cfm?id=1120587&ftid=353283&dwn=1&CFID=509095916&CFTOKEN=80803184

P. Diaconis and J. Salzman (2006). Projection Pursuit for Discrete Data. Festschrift for David Freedman, IMS Lecture Notes. http://projecteuclid.org/download/pdf_1/euclid.imsc/1207580088

M. Jablonski, J. Salzman, A. Wierman and A. P. Godbole (2004). An Improved Upper Bound for the Pebbling Threshold of the n-path. Discrete Mathematics. 275, 367-373. http://ac.els-cdn.com/S0012365X03004679/1-s2.0-S0012365X03004679-main.pdf?_tid=de05f1a2-f2ae-11e4-912b-00000aacb360&acdnat=1430779539_6f7d9ea10c7b95135b2441c8b0dfde46


Refereed Conference Proceedings
Ashwin Nayak and Julia Salzman (2002). “On Communication Over an Entanglement-Assisted Quantum Channel”. In Proceedings of the Thirty-Fourth Annual ACM Symposium on the Theory of Computing, pages 698-704. In the joint session with the 17th Annual IEEE Conference on Computational Comp lexity, 2002. http://delivery.acm.org/10.1145/520000/510007/p698-nayak.pdf?ip=171.65.22.166&id=510007&acc=ACTIVE%20SERVICE&key=AA86BE8B6928DDC7%2E0AF80552DEC4BA76%2E4D4702B0C3E38B35%2E4D4702B0C3E38B35&CFID=509095916&CFTOKEN=80803184&__acm__=1430779959_e70c78e2701085db5331a92ac0e7aee2


Theses
J. Salzman (2007). “Spectral Analysis with Markov Chains." Ph. D. Dissertation, Department of Statistics, Stanford University. http://www.stat.columbia.edu/~jsalzman/thesis.pdf

J. Salzman (2002). “Distinct knots with the same Jones Polynomial.” Princeton University Underdergraduate Thesis.