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Early Signs of Pathological Cognitive Aging in Mice Lacking High-Affinity Nicotinic Receptors.

Konsolaki E, Tsakanikas P, Polissidis AV, Stamatakis A, Skaliora I.

Front Aging Neurosci. 2016 Apr 27;8:91. doi: 10.3389/fnagi.2016.00091. eCollection 2016.


Phylogeny-aware identification and correction of taxonomically mislabeled sequences.

Kozlov AM, Zhang J, Yilmaz P, Glöckner FO, Stamatakis A.

Nucleic Acids Res. 2016 Jun 20;44(11):5022-33. doi: 10.1093/nar/gkw396. Epub 2016 May 10.


Does the choice of nucleotide substitution models matter topologically?

Hoff M, Orf S, Riehm B, Darriba D, Stamatakis A.

BMC Bioinformatics. 2016 Mar 24;17:143. doi: 10.1186/s12859-016-0985-x.


Computing the Internode Certainty and Related Measures from Partial Gene Trees.

Kobert K, Salichos L, Rokas A, Stamatakis A.

Mol Biol Evol. 2016 Jun;33(6):1606-17. doi: 10.1093/molbev/msw040. Epub 2016 Feb 25.


Loss of UBE3A from TH-expressing neurons suppresses GABA co-release and enhances VTA-NAc optical self-stimulation.

Berrios J, Stamatakis AM, Kantak PA, McElligott ZA, Judson MC, Aita M, Rougie M, Stuber GD, Philpot BD.

Nat Commun. 2016 Feb 12;7:10702. doi: 10.1038/ncomms10702.


Lateral Hypothalamic Area Glutamatergic Neurons and Their Projections to the Lateral Habenula Regulate Feeding and Reward.

Stamatakis AM, Van Swieten M, Basiri ML, Blair GA, Kantak P, Stuber GD.

J Neurosci. 2016 Jan 13;36(2):302-11. doi: 10.1523/JNEUROSCI.1202-15.2016.


Prediction of missing sequences and branch lengths in phylogenomic data.

Darriba D, Weiß M, Stamatakis A.

Bioinformatics. 2016 May 1;32(9):1331-7. doi: 10.1093/bioinformatics/btv768. Epub 2016 Jan 5.


Neural stem/progenitor cells differentiate into oligodendrocytes, reduce inflammation, and ameliorate learning deficits after transplantation in a mouse model of traumatic brain injury.

Koutsoudaki PN, Papastefanaki F, Stamatakis A, Kouroupi G, Xingi E, Stylianopoulou F, Matsas R.

Glia. 2016 May;64(5):763-79. doi: 10.1002/glia.22959. Epub 2015 Dec 29.


The levels of the GluN2A NMDA receptor subunit are modified in both the neonatal and adult rat brain by an early experience involving denial of maternal contact.

Manatos V, Stylianopoulou F, Stamatakis A.

Neurosci Lett. 2016 Jan 26;612:98-103. doi: 10.1016/j.neulet.2015.12.005. Epub 2015 Dec 8.


Exposure to a mildly aversive early life experience leads to prefrontal cortex deficits in the rat.

Stamatakis A, Manatos V, Kalpachidou T, Stylianopoulou F.

Brain Struct Funct. 2015 Dec 7. [Epub ahead of print]


Tag1 deficiency results in olfactory dysfunction through impaired migration of mitral cells.

Bastakis GG, Savvaki M, Stamatakis A, Vidaki M, Karagogeos D.

Development. 2015 Dec 15;142(24):4318-28. doi: 10.1242/dev.123943. Epub 2015 Nov 2.


Using RAxML to Infer Phylogenies.

Stamatakis A.

Curr Protoc Bioinformatics. 2015 Sep 3;51:6.14.1-14. doi: 10.1002/0471250953.bi0614s51.


Effects of a Neonatal Experience Involving Reward Through Maternal Contact on the Noradrenergic System of the Rat Prefrontal Cortex.

Kalpachidou T, Raftogianni A, Melissa P, Kollia AM, Stylianopoulou F, Stamatakis A.

Cereb Cortex. 2015 Aug 26. pii: bhv192. [Epub ahead of print]


An Efficient Independence Sampler for Updating Branches in Bayesian Markov chain Monte Carlo Sampling of Phylogenetic Trees.

Aberer AJ, Stamatakis A, Ronquist F.

Syst Biol. 2016 Jan;65(1):161-76. doi: 10.1093/sysbio/syv051. Epub 2015 Jul 30.


INSECT PHYLOGENOMICS. Response to Comment on "Phylogenomics resolves the timing and pattern of insect evolution".

Kjer KM, Ware JL, Rust J, Wappler T, Lanfear R, Jermiin LS, Zhou X, Aspöck H, Aspöck U, Beutel RG, Blanke A, Donath A, Flouri T, Frandsen PB, Kapli P, Kawahara AY, Letsch H, Mayer C, McKenna DD, Meusemann K, Niehuis O, Peters RS, Wiegmann BM, Yeates DK, von Reumont BM, Stamatakis A, Misof B.

Science. 2015 Jul 31;349(6247):487. doi: 10.1126/science.aaa7136.


Short Tree, Long Tree, Right Tree, Wrong Tree: New Acquisition Bias Corrections for Inferring SNP Phylogenies.

Leaché AD, Banbury BL, Felsenstein J, de Oca AN, Stamatakis A.

Syst Biol. 2015 Nov;64(6):1032-47. doi: 10.1093/sysbio/syv053. Epub 2015 Jul 29.


Impacts of Terraces on Phylogenetic Inference.

Sanderson MJ, McMahon MM, Stamatakis A, Zwickl DJ, Steel M.

Syst Biol. 2015 Sep;64(5):709-26. doi: 10.1093/sysbio/syv024. Epub 2015 May 20.


ExaML version 3: a tool for phylogenomic analyses on supercomputers.

Kozlov AM, Aberer AJ, Stamatakis A.

Bioinformatics. 2015 Aug 1;31(15):2577-9. doi: 10.1093/bioinformatics/btv184. Epub 2015 Mar 29.


Phylogenomic analyses data of the avian phylogenomics project.

Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SY, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Alfaro-Núñez A, Narula N, Liu L, Burt D, Ellegren H, Edwards SV, Stamatakis A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MT, Zhang G; Avian Phylogenomics Consortium.

Gigascience. 2015 Feb 12;4:4. doi: 10.1186/s13742-014-0038-1. eCollection 2015.


Visualizing hypothalamic network dynamics for appetitive and consummatory behaviors.

Jennings JH, Ung RL, Resendez SL, Stamatakis AM, Taylor JG, Huang J, Veleta K, Kantak PA, Aita M, Shilling-Scrivo K, Ramakrishnan C, Deisseroth K, Otte S, Stuber GD.

Cell. 2015 Jan 29;160(3):516-27. doi: 10.1016/j.cell.2014.12.026.

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