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Items: 26

1.

Prostatectomy-based validation of combined urine and plasma test for predicting high grade prostate cancer.

Albitar M, Ma W, Lund L, Shahbaba B, Uchio E, Feddersen S, Moylan D, Wojno K, Shore N.

Prostate. 2018 Mar;78(4):294-299. doi: 10.1002/pros.23473. Epub 2018 Jan 8.

PMID:
29315679
2.

Geodesic Lagrangian Monte Carlo over the space of positive definite matrices: with application to Bayesian spectral density estimation.

Holbrook A, Lan S, Vandenberg-Rodes A, Shahbaba B.

J Stat Comput Simul. 2018;88(5):982-1002. doi: 10.1080/00949655.2017.1416470. Epub 2017 Dec 27.

3.

Hamiltonian Monte Carlo acceleration using surrogate functions with random bases.

Zhang C, Shahbaba B, Zhao H.

Stat Comput. 2017 Nov;27(6):1473-1490. doi: 10.1007/s11222-016-9699-1. Epub 2016 Sep 13.

4.

A Multi-Center Prospective Study to Validate an Algorithm Using Urine and Plasma Biomarkers for Predicting Gleason ≥3+4 Prostate Cancer on Biopsy.

Albitar M, Ma W, Lund L, Shahbaba B, Uchio E, Feddersen S, Moylan D, Wojno K, Shore N.

J Cancer. 2017 Aug 2;8(13):2554-2560. doi: 10.7150/jca.20031. eCollection 2017.

5.

A Bayesian supervised dual-dimensionality reduction model for simultaneous decoding of LFP and spike train signals.

Holbrook A, Vandenberg-Rodes A, Fortin N, Shahbaba B.

Stat (Int Stat Inst). 2017;6(1):53-67. doi: 10.1002/sta4.137. Epub 2017 Feb 7.

6.

A Dynamic Bayesian Model for Characterizing Cross-Neuronal Interactions During Decision-Making.

Zhou B, Moorman DE, Behseta S, Ombao H, Shahbaba B.

J Am Stat Assoc. 2016;111(514):459-471. Epub 2016 Aug 18.

7.

What time is it? Deep learning approaches for circadian rhythms.

Agostinelli F, Ceglia N, Shahbaba B, Sassone-Corsi P, Baldi P.

Bioinformatics. 2016 Oct 1;32(19):3051. doi: 10.1093/bioinformatics/btw504. Epub 2016 Aug 19. No abstract available.

8.

What time is it? Deep learning approaches for circadian rhythms.

Agostinelli F, Ceglia N, Shahbaba B, Sassone-Corsi P, Baldi P.

Bioinformatics. 2016 Jun 15;32(12):i8-i17. doi: 10.1093/bioinformatics/btw243. Erratum in: Bioinformatics. 2016 Oct 1;32(19):3051.

9.

Maternal Exposure to Childhood Trauma Is Associated During Pregnancy With Placental-Fetal Stress Physiology.

Moog NK, Buss C, Entringer S, Shahbaba B, Gillen DL, Hobel CJ, Wadhwa PD.

Biol Psychiatry. 2016 May 15;79(10):831-839. doi: 10.1016/j.biopsych.2015.08.032. Epub 2015 Sep 3.

10.

Markov Chain Monte Carlo from Lagrangian Dynamics.

Lan S, Stathopoulos V, Shahbaba B, Girolami M.

J Comput Graph Stat. 2015 Apr 1;24(2):357-378.

11.

An efficient Bayesian inference framework for coalescent-based nonparametric phylodynamics.

Lan S, Palacios JA, Karcher M, Minin VN, Shahbaba B.

Bioinformatics. 2015 Oct 15;31(20):3282-9. doi: 10.1093/bioinformatics/btv378. Epub 2015 Jun 20.

12.

Maternal Folate Concentration in Early Pregnancy and Newborn Telomere Length.

Entringer S, Epel ES, Lin J, Blackburn EH, Buss C, Shahbaba B, Gillen DL, Venkataramanan R, Simhan HN, Wadhwa PD.

Ann Nutr Metab. 2015;66(4):202-8. doi: 10.1159/000381925. Epub 2015 Jun 9.

13.

Spherical Hamiltonian Monte Carlo for Constrained Target Distributions.

Lan S, Zhou B, Shahbaba B.

JMLR Workshop Conf Proc. 2014 Jun 18;32:629-637.

14.

Wormhole Hamiltonian Monte Carlo.

Lan S, Streets J, Shahbaba B.

Proc Conf AAAI Artif Intell. 2014 Jul 31;2014:1953-1959.

15.

Neural function, injury, and stroke subtype predict treatment gains after stroke.

Burke Quinlan E, Dodakian L, See J, McKenzie A, Le V, Wojnowicz M, Shahbaba B, Cramer SC.

Ann Neurol. 2015 Jan;77(1):132-45. doi: 10.1002/ana.24309. Epub 2014 Dec 4.

16.

A semiparametric Bayesian model for detecting synchrony among multiple neurons.

Shahbaba B, Zhou B, Lan S, Ombao H, Moorman D, Behseta S.

Neural Comput. 2014 Sep;26(9):2025-51. doi: 10.1162/NECO_a_00631. Epub 2014 Jun 12.

17.

Genetic variation in the human brain dopamine system influences motor learning and its modulation by L-Dopa.

Pearson-Fuhrhop KM, Minton B, Acevedo D, Shahbaba B, Cramer SC.

PLoS One. 2013 Apr 17;8(4):e61197. doi: 10.1371/journal.pone.0061197. Print 2013.

18.

A hierarchical modeling approach to data analysis and study design in a multi-site experimental fMRI study.

Zhou B, Konstorum A, Duong T, Tieu KH, Wells WM, Brown GG, Stern HS, Shahbaba B.

Psychometrika. 2013 Apr;78(2):260-78. doi: 10.1007/s11336-012-9298-9. Epub 2012 Nov 28.

19.

Maternal psychosocial stress during pregnancy is associated with newborn leukocyte telomere length.

Entringer S, Epel ES, Lin J, Buss C, Shahbaba B, Blackburn EH, Simhan HN, Wadhwa PD.

Am J Obstet Gynecol. 2013 Feb;208(2):134.e1-7. doi: 10.1016/j.ajog.2012.11.033. Epub 2012 Nov 27.

20.

Bayesian nonparametric variable selection as an exploratory tool for discovering differentially expressed genes.

Shahbaba B, Johnson WO.

Stat Med. 2013 May 30;32(12):2114-26. doi: 10.1002/sim.5680. Epub 2012 Nov 22.

PMID:
23172736
21.

Maternal cortisol over the course of pregnancy and subsequent child amygdala and hippocampus volumes and affective problems.

Buss C, Davis EP, Shahbaba B, Pruessner JC, Head K, Sandman CA.

Proc Natl Acad Sci U S A. 2012 May 15;109(20):E1312-9. doi: 10.1073/pnas.1201295109. Epub 2012 Apr 23.

22.

Quantitative proteomic profiling identifies protein correlates to EGFR kinase inhibition.

Kani K, Faca VM, Hughes LD, Zhang W, Fang Q, Shahbaba B, Luethy R, Erde J, Schmidt J, Pitteri SJ, Zhang Q, Katz JE, Gross ME, Plevritis SK, McIntosh MW, Jain A, Hanash S, Agus DB, Mallick P.

Mol Cancer Ther. 2012 May;11(5):1071-81. doi: 10.1158/1535-7163.MCT-11-0852. Epub 2012 Mar 12.

23.

A pathway analysis method for genome-wide association studies.

Shahbaba B, Shachaf CM, Yu Z.

Stat Med. 2012 May 10;31(10):988-1000. doi: 10.1002/sim.4477. Epub 2012 Feb 3.

PMID:
22302470
24.

Bayesian gene set analysis for identifying significant biological pathways.

Shahbaba B, Tibshirani R, Shachaf CM, Plevritis SK.

J R Stat Soc Ser C Appl Stat. 2011 Aug 1;60(4):541-557.

25.

A pluripotency signature predicts histologic transformation and influences survival in follicular lymphoma patients.

Gentles AJ, Alizadeh AA, Lee SI, Myklebust JH, Shachaf CM, Shahbaba B, Levy R, Koller D, Plevritis SK.

Blood. 2009 Oct 8;114(15):3158-66. doi: 10.1182/blood-2009-02-202465. Epub 2009 Jul 27.

26.

Gene function classification using Bayesian models with hierarchy-based priors.

Shahbaba B, Neal RM.

BMC Bioinformatics. 2006 Oct 12;7:448.

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