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Hierarchical Data-Driven Analysis of Clinical Symptoms Among Patients With Parkinson's Disease.

Kozlovski T, Mitelpunkt A, Thaler A, Gurevich T, Orr-Urtreger A, Gana-Weisz M, Shachar N, Galili T, Marcus-Kalish M, Bressman S, Marder K, Giladi N, Benjamini Y, Mirelman A.

Front Neurol. 2019 May 21;10:531. doi: 10.3389/fneur.2019.00531. eCollection 2019.


Current and Potential Approaches for Defining Disease Signatures: a Systematic Review.

Stemmer A, Galili T, Kozlovski T, Zeevi Y, Marcus-Kalish M, Benjamini Y, Mitelpunkt A.

J Mol Neurosci. 2019 Apr;67(4):550-558. doi: 10.1007/s12031-019-01269-0. Epub 2019 Feb 18.


The Importance of Nonlinear Transformations Use in Medical Data Analysis.

Shachar N, Mitelpunkt A, Kozlovski T, Galili T, Frostig T, Brill B, Marcus-Kalish M, Benjamini Y.

JMIR Med Inform. 2018 May 11;6(2):e27. doi: 10.2196/medinform.7992.


Vertical exploration and dimensional modularity in mice.

Wexler Y, Benjamini Y, Golani I.

R Soc Open Sci. 2018 Mar 14;5(3):180069. doi: 10.1098/rsos.180069. eCollection 2018 Mar.


Detection and accurate false discovery rate control of differentially methylated regions from whole genome bisulfite sequencing.

Korthauer K, Chakraborty S, Benjamini Y, Irizarry RA.

Biostatistics. 2019 Jul 1;20(3):367-383. doi: 10.1093/biostatistics/kxy007.


Comments on the Spinal Cord Ability Ruler.

Catz A, Tesio L, Benjamini Y.

Spinal Cord. 2018 May;56(5):523-524. doi: 10.1038/s41393-018-0066-2. Epub 2018 Jan 31. No abstract available.


Reproducibility and replicability of rodent phenotyping in preclinical studies.

Kafkafi N, Agassi J, Chesler EJ, Crabbe JC, Crusio WE, Eilam D, Gerlai R, Golani I, Gomez-Marin A, Heller R, Iraqi F, Jaljuli I, Karp NA, Morgan H, Nicholson G, Pfaff DW, Richter SH, Stark PB, Stiedl O, Stodden V, Tarantino LM, Tucci V, Valdar W, Williams RW, Würbel H, Benjamini Y.

Neurosci Biobehav Rev. 2018 Apr;87:218-232. doi: 10.1016/j.neubiorev.2018.01.003. Epub 2018 Jan 31. Review.


Genetic variation and gene expression across multiple tissues and developmental stages in a nonhuman primate.

Jasinska AJ, Zelaya I, Service SK, Peterson CB, Cantor RM, Choi OW, DeYoung J, Eskin E, Fairbanks LA, Fears S, Furterer AE, Huang YS, Ramensky V, Schmitt CA, Svardal H, Jorgensen MJ, Kaplan JR, Villar D, Aken BL, Flicek P, Nag R, Wong ES, Blangero J, Dyer TD, Bogomolov M, Benjamini Y, Weinstock GM, Dewar K, Sabatti C, Wilson RK, Jentsch JD, Warren W, Coppola G, Woods RP, Freimer NB.

Nat Genet. 2017 Dec;49(12):1714-1721. doi: 10.1038/ng.3959. Epub 2017 Oct 30.


On relationship between patients' month of birth and the prevalence of chronic diseases.

Kozlovski T, Heller R, Benjamini Y.

Med Clin (Barc). 2018 Apr 13;150(7):e13. doi: 10.1016/j.medcli.2017.09.010. Epub 2017 Oct 18. English, Spanish. No abstract available.


Prevalence of sexual dimorphism in mammalian phenotypic traits.

Karp NA, Mason J, Beaudet AL, Benjamini Y, Bower L, Braun RE, Brown SDM, Chesler EJ, Dickinson ME, Flenniken AM, Fuchs H, Angelis MH, Gao X, Guo S, Greenaway S, Heller R, Herault Y, Justice MJ, Kurbatova N, Lelliott CJ, Lloyd KCK, Mallon AM, Mank JE, Masuya H, McKerlie C, Meehan TF, Mott RF, Murray SA, Parkinson H, Ramirez-Solis R, Santos L, Seavitt JR, Smedley D, Sorg T, Speak AO, Steel KP, Svenson KL; International Mouse Phenotyping Consortium, Wakana S, West D, Wells S, Westerberg H, Yaacoby S, White JK.

Nat Commun. 2017 Jun 26;8:15475. doi: 10.1038/ncomms15475.


Addressing reproducibility in single-laboratory phenotyping experiments.

Kafkafi N, Golani I, Jaljuli I, Morgan H, Sarig T, Würbel H, Yaacoby S, Benjamini Y.

Nat Methods. 2017 Apr 27;14(5):462-464. doi: 10.1038/nmeth.4259. No abstract available.


A powerful statistical framework for generalization testing in GWAS, with application to the HCHS/SOL.

Sofer T, Heller R, Bogomolov M, Avery CL, Graff M, North KE, Reiner AP, Thornton TA, Rice K, Benjamini Y, Laurie CC, Kerr KF.

Genet Epidemiol. 2017 Apr;41(3):251-258. doi: 10.1002/gepi.22029. Epub 2017 Jan 15.


Improving the Identification of Phenotypic Abnormalities and Sexual Dimorphism in Mice When Studying Rare Event Categorical Characteristics.

Karp NA, Heller R, Yaacoby S, White JK, Benjamini Y.

Genetics. 2017 Feb;205(2):491-501. doi: 10.1534/genetics.116.195388. Epub 2016 Dec 7.


Identifying the ligated amino acid of archaeal tRNAs based on positions outside the anticodon.

Galili T, Gingold H, Shaul S, Benjamini Y.

RNA. 2016 Oct;22(10):1477-91. doi: 10.1261/rna.053777.115. Epub 2016 Aug 11.


Psychophysiological whole-brain network clustering based on connectivity dynamics analysis in naturalistic conditions.

Raz G, Shpigelman L, Jacob Y, Gonen T, Benjamini Y, Hendler T.

Hum Brain Mapp. 2016 Dec;37(12):4654-4672. doi: 10.1002/hbm.23335. Epub 2016 Aug 1.


Weighted false discovery rate controlling procedures for clinical trials.

Benjamini Y, Cohen R.

Biostatistics. 2017 Jan;18(1):91-104. doi: 10.1093/biostatistics/kxw030. Epub 2016 Jul 21.


Generative rules of Drosophila locomotor behavior as a candidate homology across phyla.

Gomez-Marin A, Oron E, Gakamsky A, Dan Valente, Benjamini Y, Golani I.

Sci Rep. 2016 Jun 8;6:27555. doi: 10.1038/srep27555.


Characterization of Expression Quantitative Trait Loci in Pedigrees from Colombia and Costa Rica Ascertained for Bipolar Disorder.

Peterson CB, Service SK, Jasinska AJ, Gao F, Zelaya I, Teshiba TM, Bearden CE, Cantor RM, Reus VI, Macaya G, López-Jaramillo C, Bogomolov M, Benjamini Y, Eskin E, Coppola G, Freimer NB, Sabatti C.

PLoS Genet. 2016 May 13;12(5):e1006046. doi: 10.1371/journal.pgen.1006046. eCollection 2016 May.


TreeQTL: hierarchical error control for eQTL findings.

Peterson CB, Bogomolov M, Benjamini Y, Sabatti C.

Bioinformatics. 2016 Aug 15;32(16):2556-8. doi: 10.1093/bioinformatics/btw198. Epub 2016 Apr 19.


Coping with Space Neophobia in Drosophila melanogaster: The Asymmetric Dynamics of Crossing a Doorway to the Untrodden.

Cohen S, Benjamini Y, Golani I.

PLoS One. 2015 Dec 8;10(12):e0140207. doi: 10.1371/journal.pone.0140207. eCollection 2015.


Many Phenotypes Without Many False Discoveries: Error Controlling Strategies for Multitrait Association Studies.

Peterson CB, Bogomolov M, Benjamini Y, Sabatti C.

Genet Epidemiol. 2016 Jan;40(1):45-56. doi: 10.1002/gepi.21942. Epub 2015 Dec 2.


Cell lineage analysis in human brain using endogenous retroelements.

Evrony GD, Lee E, Mehta BK, Benjamini Y, Johnson RM, Cai X, Yang L, Haseley P, Lehmann HS, Park PJ, Walsh CA.

Neuron. 2015 Jan 7;85(1):49-59. doi: 10.1016/j.neuron.2014.12.028.


Deciding whether follow-up studies have replicated findings in a preliminary large-scale omics study.

Heller R, Bogomolov M, Benjamini Y.

Proc Natl Acad Sci U S A. 2014 Nov 18;111(46):16262-7. doi: 10.1073/pnas.1314814111. Epub 2014 Nov 3.


Selective correlations; not voodoo.

Rosenblatt JD, Benjamini Y.

Neuroimage. 2014 Dec;103:401-410. doi: 10.1016/j.neuroimage.2014.08.023. Epub 2014 Aug 19.


Sharing clinical trial data on patient level: opportunities and challenges.

Koenig F, Slattery J, Groves T, Lang T, Benjamini Y, Day S, Bauer P, Posch M.

Biom J. 2015 Jan;57(1):8-26. doi: 10.1002/bimj.201300283. Epub 2014 Jun 18. Review.


Investigating and correcting plasma DNA sequencing coverage bias to enhance aneuploidy discovery.

Chandrananda D, Thorne NP, Ganesamoorthy D, Bruno DL, Benjamini Y, Speed TP, Slater HR, Bahlo M.

PLoS One. 2014 Jan 29;9(1):e86993. doi: 10.1371/journal.pone.0086993. eCollection 2014.


The angular interval between the direction of progression and body orientation in normal, alcohol- and cocaine treated fruit flies.

Gakamsky A, Oron E, Valente D, Mitra PP, Segal D, Benjamini Y, Golani I.

PLoS One. 2013 Oct 16;8(10):e76257. doi: 10.1371/journal.pone.0076257. eCollection 2013.


Discussion: An estimate of the science-wise false discovery rate and applications to top medical journals by Jager and Leek.

Benjamini Y, Hechtlinger Y.

Biostatistics. 2014 Jan;15(1):13-6; discussion 39-45. doi: 10.1093/biostatistics/kxt032. Epub 2013 Sep 25. No abstract available.


Revisiting multi-subject random effects in fMRI: advocating prevalence estimation.

Rosenblatt JD, Vink M, Benjamini Y.

Neuroimage. 2014 Jan 1;84:113-21. doi: 10.1016/j.neuroimage.2013.08.025. Epub 2013 Aug 26.


Measuring behavior of animal models: faults and remedies.

Fonio E, Golani I, Benjamini Y.

Nat Methods. 2012 Dec;9(12):1167-70. doi: 10.1038/nmeth.2252.


Short and long term measures of anxiety exhibit opposite results.

Fonio E, Benjamini Y, Golani I.

PLoS One. 2012;7(10):e48414. doi: 10.1371/journal.pone.0048414. Epub 2012 Oct 31.


Summarizing and correcting the GC content bias in high-throughput sequencing.

Benjamini Y, Speed TP.

Nucleic Acids Res. 2012 May;40(10):e72. doi: 10.1093/nar/gks001. Epub 2012 Feb 9.


Non-linear formulas for the spinal cord injury ability realization measurement index.

Aidinoff E, Benjamini Y, Galili T, Polliack T, Front L, Bluvshtein V, Itzkovich M, Hart J, Catz A.

Spinal Cord. 2012 Apr;50(4):324-7. doi: 10.1038/sc.2011.145. Epub 2011 Nov 29.


Digital versus film stereo-photography for assessment of the optic nerve head in glaucoma and glaucoma suspect patients.

Hasanreisoglu M, Priel E, Naveh L, Lusky M, Weinberger D, Benjamini Y, Gaton DD.

J Glaucoma. 2013 Mar;22(3):238-42. doi: 10.1097/IJG.0b013e31823298da.


Reconstructing visual experiences from brain activity evoked by natural movies.

Nishimoto S, Vu AT, Naselaris T, Benjamini Y, Yu B, Gallant JL.

Curr Biol. 2011 Oct 11;21(19):1641-6. doi: 10.1016/j.cub.2011.08.031. Epub 2011 Sep 22.


A new grading for easy and concise description of functional status after spinal cord lesions.

Bluvshtein V, Front L, Itzkovich M, Benjamini Y, Galili T, Gelernter I, Aidinoff E, Hart J, Tesio L, Biering-Sorensen F, Weeks C, Laramee MT, Craven C, Hitzig SL, Glaser E, Zeilig G, Aito S, Scivoletto G, Mecci M, Chadwick RJ, El Masry WS, Osman A, Glass CA, Silva P, Soni BM, Gardner BP, Savic G, Bergström EM, Catz A.

Spinal Cord. 2012 Jan;50(1):42-50. doi: 10.1038/sc.2011.84. Epub 2011 Aug 2.


Quantifying the buildup in extent and complexity of free exploration in mice.

Benjamini Y, Fonio E, Galili T, Havkin GZ, Golani I.

Proc Natl Acad Sci U S A. 2011 Sep 13;108 Suppl 3:15580-7. doi: 10.1073/pnas.1014837108. Epub 2011 Mar 7. Erratum in: Proc Natl Acad Sci U S A. 2011 Sep 13;108(37):15534.


Simultaneous and selective inference: Current successes and future challenges.

Benjamini Y.

Biom J. 2010 Dec;52(6):708-21. doi: 10.1002/bimj.200900299. Epub 2010 Nov 19. Review.


Suppression of the oculocephalic reflex (doll's eyes phenomenon) in normal full-term babies.

Snir M, Hasanreisoglu M, Goldenberg-Cohen N, Friling R, Katz K, Nachum Y, Benjamini Y, Herscovici Z, Axer-Siegel R.

Curr Eye Res. 2010 May;35(5):370-4. doi: 10.3109/02713680903576708. Erratum in: Curr Eye Res. 2011 Sep;36(9):866. Hasanreisoglue, Murat [corrected to Hasanreisoglu, Murat].


Ten ways to improve the quality of descriptions of whole-animal movement.

Benjamini Y, Lipkind D, Horev G, Fonio E, Kafkafi N, Golani I.

Neurosci Biobehav Rev. 2010 Jul;34(8):1351-65. doi: 10.1016/j.neubiorev.2010.04.004. Epub 2010 Apr 24.


Revisiting the operational RNA code for amino acids: Ensemble attributes and their implications.

Shaul S, Berel D, Benjamini Y, Graur D.

RNA. 2010 Jan;16(1):141-53. doi: 10.1261/rna.1745910. Epub 2009 Dec 1.


Freedom of movement and the stability of its unfolding in free exploration of mice.

Fonio E, Benjamini Y, Golani I.

Proc Natl Acad Sci U S A. 2009 Dec 15;106(50):21335-40. doi: 10.1073/pnas.0812513106. Epub 2009 Nov 23.


Effect of intravitreal bevacizumab (avastin) on the growing rabbit eye.

Axer-Siegel R, Herscovici Z, Hasanreisoglu M, Kremer I, Benjamini Y, Snir M.

Curr Eye Res. 2009 Aug;34(8):660-5.


Selective inference in complex research.

Benjamini Y, Heller R, Yekutieli D.

Philos Trans A Math Phys Eng Sci. 2009 Nov 13;367(1906):4255-71. doi: 10.1098/rsta.2009.0127.


Mouse cognition-related behavior in the open-field: emergence of places of attraction.

Dvorkin A, Benjamini Y, Golani I.

PLoS Comput Biol. 2008 Feb 29;4(2):e1000027. doi: 10.1371/journal.pcbi.1000027.


Screening for partial conjunction hypotheses.

Benjamini Y, Heller R.

Biometrics. 2008 Dec;64(4):1215-22. doi: 10.1111/j.1541-0420.2007.00984.x. Epub 2008 Feb 6.


Associating quantitative behavioral traits with gene expression in the brain: searching for diamonds in the hay.

Reiner-Benaim A, Yekutieli D, Letwin NE, Elmer GI, Lee NH, Kafkafi N, Benjamini Y.

Bioinformatics. 2007 Sep 1;23(17):2239-46. Epub 2007 Sep 7.


Conjunction group analysis: an alternative to mixed/random effect analysis.

Heller R, Golland Y, Malach R, Benjamini Y.

Neuroimage. 2007 Oct 1;37(4):1178-85. Epub 2007 Jun 9.


Estimating wall guidance and attraction in mouse free locomotor behavior.

Horev G, Benjamini Y, Sakov A, Golani I.

Genes Brain Behav. 2007 Feb;6(1):30-41.


Coordination of steering in a free-trotting quadruped.

Gruntman E, Benjamini Y, Golani I.

J Comp Physiol A Neuroethol Sens Neural Behav Physiol. 2007 Mar;193(3):331-45. Epub 2006 Dec 5.


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