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Items: 1 to 50 of 115

1.

Can One Concurrently Record Electrical Spikes from Every Neuron in a Mammalian Brain?

Kleinfeld D, Luan L, Mitra PP, Robinson JT, Sarpeshkar R, Shepard K, Xie C, Harris TD.

Neuron. 2019 Aug 30. pii: S0896-6273(19)30695-6. doi: 10.1016/j.neuron.2019.08.011. [Epub ahead of print]

PMID:
31495645
2.

Relation of koniocellular layers of dorsal lateral geniculate to inferior pulvinar nuclei in common marmosets.

Huo BX, Zeater N, Lin MK, Takahashi YS, Hanada M, Nagashima J, Lee BC, Hata J, Zaheer A, Grünert U, Miller MI, Rosa MGP, Okano H, Martin PR, Mitra PP.

Eur J Neurosci. 2019 Jul 25. doi: 10.1111/ejn.14529. [Epub ahead of print]

PMID:
31344282
3.

An active texture-based digital atlas enables automated mapping of structures and markers across brains.

Chen Y, McElvain LE, Tolpygo AS, Ferrante D, Friedman B, Mitra PP, Karten HJ, Freund Y, Kleinfeld D.

Nat Methods. 2019 Apr;16(4):341-350. doi: 10.1038/s41592-019-0328-8. Epub 2019 Mar 11.

PMID:
30858600
4.

On variational solutions for whole brain serial-section histology using a Sobolev prior in the computational anatomy random orbit model.

Lee BC, Tward DJ, Mitra PP, Miller MI.

PLoS Comput Biol. 2018 Dec 26;14(12):e1006610. doi: 10.1371/journal.pcbi.1006610. eCollection 2018 Dec.

5.

Unidirectional monosynaptic connections from auditory areas to the primary visual cortex in the marmoset monkey.

Majka P, Rosa MGP, Bai S, Chan JM, Huo BX, Jermakow N, Lin MK, Takahashi YS, Wolkowicz IH, Worthy KH, Rajan R, Reser DH, Wójcik DK, Okano H, Mitra PP.

Brain Struct Funct. 2019 Jan;224(1):111-131. doi: 10.1007/s00429-018-1764-4. Epub 2018 Oct 4.

6.

Towards a comprehensive atlas of cortical connections in a primate brain: Mapping tracer injection studies of the common marmoset into a reference digital template.

Majka P, Chaplin TA, Yu HH, Tolpygo A, Mitra PP, Wójcik DK, Rosa MG.

J Comp Neurol. 2016 Aug 1;524(11):2161-81. doi: 10.1002/cne.24023.

7.

Comparative three-dimensional connectome map of motor cortical projections in the mouse brain.

Jeong M, Kim Y, Kim J, Ferrante DD, Mitra PP, Osten P, Kim D.

Sci Rep. 2016 Feb 2;6:20072. doi: 10.1038/srep20072.

8.

Conventions and nomenclature for double diffusion encoding NMR and MRI.

Shemesh N, Jespersen SN, Alexander DC, Cohen Y, Drobnjak I, Dyrby TB, Finsterbusch J, Koch MA, Kuder T, Laun F, Lawrenz M, Lundell H, Mitra PP, Nilsson M, Özarslan E, Topgaard D, Westin CF.

Magn Reson Med. 2016 Jan;75(1):82-7. doi: 10.1002/mrm.25901. Epub 2015 Sep 29. Review.

PMID:
26418050
9.

High-Throughput Method of Whole-Brain Sectioning, Using the Tape-Transfer Technique.

Pinskiy V, Jones J, Tolpygo AS, Franciotti N, Weber K, Mitra PP.

PLoS One. 2015 Jul 16;10(7):e0102363. doi: 10.1371/journal.pone.0102363. eCollection 2015.

10.

The circuit architecture of whole brains at the mesoscopic scale.

Mitra PP.

Neuron. 2014 Sep 17;83(6):1273-83. doi: 10.1016/j.neuron.2014.08.055. Review.

11.

Laboratory evolution of adenylyl cyclase independent learning in Drosophila and missing heritability.

Cressy M, Valente D, Altick A, Kockenmeister E, Honegger K, Qin H, Mitra PP, Dubnau J.

Genes Brain Behav. 2014 Jul;13(6):565-77. doi: 10.1111/gbb.12146. Epub 2014 Jun 19.

12.

Cell-type-based model explaining coexpression patterns of genes in the brain.

Grange P, Bohland JW, Okaty BW, Sugino K, Bokil H, Nelson SB, Ng L, Hawrylycz M, Mitra PP.

Proc Natl Acad Sci U S A. 2014 Apr 8;111(14):5397-402. doi: 10.1073/pnas.1312098111. Epub 2014 Mar 25.

13.

NSF workshop report: discovering general principles of nervous system organization by comparing brain maps across species.

Striedter GF, Belgard TG, Chen CC, Davis FP, Finlay BL, Güntürkün O, Hale ME, Harris JA, Hecht EE, Hof PR, Hofmann HA, Holland LZ, Iwaniuk AN, Jarvis ED, Karten HJ, Katz PS, Kristan WB, Macagno ER, Mitra PP, Moroz LL, Preuss TM, Ragsdale CW, Sherwood CC, Stevens CF, Stüttgen MC, Tsumoto T, Wilczynski W.

Brain Behav Evol. 2014;83(1):1-8. doi: 10.1159/000360152. Epub 2014 Feb 28.

14.

NSF workshop report: discovering general principles of nervous system organization by comparing brain maps across species.

Striedter GF, Belgard TG, Chen CC, Davis FP, Finlay BL, Güntürkün O, Hale ME, Harris JA, Hecht EE, Hof PR, Hofmann HA, Holland LZ, Iwaniuk AN, Jarvis ED, Karten HJ, Katz PS, Kristan WB, Macagno ER, Mitra PP, Moroz LL, Preuss TM, Ragsdale CW, Sherwood CC, Stevens CF, Stüttgen MC, Tsumoto T, Wilczynski W.

J Comp Neurol. 2014 May 1;522(7):1445-53. doi: 10.1002/cne.23568.

PMID:
24596113
15.

Spectral methods for functional brain imaging.

Kleinfeld D, Mitra PP.

Cold Spring Harb Protoc. 2014 Mar 1;2014(3):248-62. doi: 10.1101/pdb.top081075.

PMID:
24591695
16.

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.

17.

The challenge of connecting the dots in the B.R.A.I.N.

Devor A, Bandettini PA, Boas DA, Bower JM, Buxton RB, Cohen LB, Dale AM, Einevoll GT, Fox PT, Franceschini MA, Friston KJ, Fujimoto JG, Geyer MA, Greenberg JH, Halgren E, Hämäläinen MS, Helmchen F, Hyman BT, Jasanoff A, Jernigan TL, Judd LL, Kim SG, Kleinfeld D, Kopell NJ, Kutas M, Kwong KK, Larkum ME, Lo EH, Magistretti PJ, Mandeville JB, Masliah E, Mitra PP, Mobley WC, Moskowitz MA, Nimmerjahn A, Reynolds JH, Rosen BR, Salzberg BM, Schaffer CB, Silva GA, So PT, Spitzer NC, Tootell RB, Van Essen DC, Vanduffel W, Vinogradov SA, Wald LL, Wang LV, Weber B, Yodh AG.

Neuron. 2013 Oct 16;80(2):270-4. doi: 10.1016/j.neuron.2013.09.008.

18.

Co-expression profiling of autism genes in the mouse brain.

Menashe I, Grange P, Larsen EC, Banerjee-Basu S, Mitra PP.

PLoS Comput Biol. 2013;9(7):e1003128. doi: 10.1371/journal.pcbi.1003128. Epub 2013 Jul 25.

19.

Digital atlas of the zebra finch (Taeniopygia guttata) brain: a high-resolution photo atlas.

Karten HJ, Brzozowska-Prechtl A, Lovell PV, Tang DD, Mello CV, Wang H, Mitra PP.

J Comp Neurol. 2013 Nov;521(16):3702-15. doi: 10.1002/cne.23443.

20.

Panoptic neuroanatomy: digital microscopy of whole brains and brain-wide circuit mapping.

Mitra PP, Rosa MG, Karten HJ.

Brain Behav Evol. 2013;81(4):203-5. doi: 10.1159/000350241. Epub 2013 Jun 14. No abstract available.

21.

A low-cost technique to cryo-protect and freeze rodent brains, precisely aligned to stereotaxic coordinates for whole-brain cryosectioning.

Pinskiy V, Tolpygo AS, Jones J, Weber K, Franciotti N, Mitra PP.

J Neurosci Methods. 2013 Sep 15;218(2):206-13. doi: 10.1016/j.jneumeth.2013.03.004. Epub 2013 Mar 29.

22.

Drug discovery in tuberculosis: a molecular approach.

Mitra PP.

Indian J Tuberc. 2012 Oct;59(4):194-206. Review.

PMID:
23342539
23.

Computational methods and challenges for large-scale circuit mapping.

Helmstaedter M, Mitra PP.

Curr Opin Neurobiol. 2012 Feb;22(1):162-9. doi: 10.1016/j.conb.2011.11.010. Epub 2012 Jan 3. Review.

24.

Chronux: a platform for analyzing neural signals.

Bokil H, Andrews P, Kulkarni JE, Mehta S, Mitra PP.

J Neurosci Methods. 2010 Sep 30;192(1):146-51. doi: 10.1016/j.jneumeth.2010.06.020. Epub 2010 Jul 15.

25.

An assay for social interaction in Drosophila fragile X mutants.

Bolduc FV, Valente D, Nguyen AT, Mitra PP, Tully T.

Fly (Austin). 2010 Jul-Sep;4(3):216-25. doi: 10.4161/fly.4.3.12280. Epub 2010 Jul 1.

26.

Compressed Genotyping.

Erlich Y, Gordon A, Brand M, Hannon GJ, Mitra PP.

IEEE Trans Inf Theory. 2010 Feb;56(2):706-723.

27.

Characterization of trial-to-trial fluctuations in local field potentials recorded in cerebral cortex of awake behaving macaque.

Menzer DL, Bokil H, Ryou JW, Schiff ND, Purpura KP, Mitra PP.

J Neurosci Methods. 2010 Feb 15;186(2):250-61. doi: 10.1016/j.jneumeth.2009.11.012. Epub 2009 Dec 1.

28.

The brain atlas concordance problem: quantitative comparison of anatomical parcellations.

Bohland JW, Bokil H, Allen CB, Mitra PP.

PLoS One. 2009 Sep 29;4(9):e7200. doi: 10.1371/journal.pone.0007200.

29.

Clustering of spatial gene expression patterns in the mouse brain and comparison with classical neuroanatomy.

Bohland JW, Bokil H, Pathak SD, Lee CK, Ng L, Lau C, Kuan C, Hawrylycz M, Mitra PP.

Methods. 2010 Feb;50(2):105-12. doi: 10.1016/j.ymeth.2009.09.001. Epub 2009 Sep 3.

PMID:
19733241
30.

Yeast artificial chromosomes employed for random assembly of biosynthetic pathways and production of diverse compounds in Saccharomyces cerevisiae.

Naesby M, Nielsen SV, Nielsen CA, Green T, Tange TO, Simón E, Knechtle P, Hansson A, Schwab MS, Titiz O, Folly C, Archila RE, Maver M, van Sint Fiet S, Boussemghoune T, Janes M, Kumar AS, Sonkar SP, Mitra PP, Benjamin VA, Korrapati N, Suman I, Hansen EH, Thybo T, Goldsmith N, Sorensen AS.

Microb Cell Fact. 2009 Aug 13;8:45. doi: 10.1186/1475-2859-8-45.

31.

De novo establishment of wild-type song culture in the zebra finch.

Fehér O, Wang H, Saar S, Mitra PP, Tchernichovski O.

Nature. 2009 May 28;459(7246):564-8. doi: 10.1038/nature07994. Epub 2009 May 3.

32.

A proposal for a coordinated effort for the determination of brainwide neuroanatomical connectivity in model organisms at a mesoscopic scale.

Bohland JW, Wu C, Barbas H, Bokil H, Bota M, Breiter HC, Cline HT, Doyle JC, Freed PJ, Greenspan RJ, Haber SN, Hawrylycz M, Herrera DG, Hilgetag CC, Huang ZJ, Jones A, Jones EG, Karten HJ, Kleinfeld D, Kötter R, Lester HA, Lin JM, Mensh BD, Mikula S, Panksepp J, Price JL, Safdieh J, Saper CB, Schiff ND, Schmahmann JD, Stillman BW, Svoboda K, Swanson LW, Toga AW, Van Essen DC, Watson JD, Mitra PP.

PLoS Comput Biol. 2009 Mar;5(3):e1000334. doi: 10.1371/journal.pcbi.1000334. Epub 2009 Mar 27.

33.

An anatomic gene expression atlas of the adult mouse brain.

Ng L, Bernard A, Lau C, Overly CC, Dong HW, Kuan C, Pathak S, Sunkin SM, Dang C, Bohland JW, Bokil H, Mitra PP, Puelles L, Hohmann J, Anderson DJ, Lein ES, Jones AR, Hawrylycz M.

Nat Neurosci. 2009 Mar;12(3):356-62. doi: 10.1038/nn.2281. Epub 2009 Feb 15.

PMID:
19219037
34.

Alta-Cyclic: a self-optimizing base caller for next-generation sequencing.

Erlich Y, Mitra PP, delaBastide M, McCombie WR, Hannon GJ.

Nat Methods. 2008 Aug;5(8):679-82. doi: 10.1038/nmeth.1230. Epub 2008 Jul 6.

35.

An analysis of the abstracts presented at the annual meetings of the Society for Neuroscience from 2001 to 2006.

Lin JM, Bohland JW, Andrews P, Burns GA, Allen CB, Mitra PP.

PLoS One. 2008 Apr 30;3(4):e2052. doi: 10.1371/journal.pone.0002052.

36.

A technique for characterizing the development of rhythms in bird song.

Saar S, Mitra PP.

PLoS One. 2008 Jan 23;3(1):e1461. doi: 10.1371/journal.pone.0001461.

37.

High-resolution zero-dispersion wavelength mapping in single-mode fiber.

Brener I, Mitra PP, Lee DD, Thomson DJ, Philen DL.

Opt Lett. 1998 Oct 1;23(19):1520-2.

PMID:
18091833
38.

Analysis of the trajectory of Drosophila melanogaster in a circular open field arena.

Valente D, Golani I, Mitra PP.

PLoS One. 2007 Oct 24;2(10):e1083.

39.

NIH Conference on Knowledge Environments for Biomedical Research (December 11-12, 2006).

Mitra PP.

Neuroinformatics. 2007 Summer;5(2):139-40. No abstract available.

PMID:
17873375
40.

Concentration maximization and local basis expansions (LBEX) for linear inverse problems.

Mitra PP, Maniar H.

IEEE Trans Biomed Eng. 2006 Sep;53(9):1775-82.

PMID:
16941833
41.

A method for detection and classification of events in neural activity.

Bokil HS, Pesaran B, Andersen RA, Mitra PP.

IEEE Trans Biomed Eng. 2006 Aug;53(8):1678-87.

PMID:
16916103
42.

Dynamic phenotypes: time series analysis techniques for characterizing neuronal and behavioral dynamics.

Bokil H, Tchernichovsky O, Mitra PP.

Neuroinformatics. 2006 Winter;4(1):119-28. Review.

PMID:
16595862
43.

Gamma-band synchronization in visual cortex predicts speed of change detection.

Womelsdorf T, Fries P, Mitra PP, Desimone R.

Nature. 2006 Feb 9;439(7077):733-6. Epub 2005 Dec 21.

PMID:
16372022
44.

How sleep affects the developmental learning of bird song.

Derégnaucourt S, Mitra PP, Fehér O, Pytte C, Tchernichovski O.

Nature. 2005 Feb 17;433(7027):710-6.

PMID:
15716944
45.

Song development: in search of the error-signal.

Derégnaucourt S, Mitra PP, Fehér O, Maul KK, Lints TJ, Tchernichovski O.

Ann N Y Acad Sci. 2004 Jun;1016:364-76. Review.

PMID:
15313785
46.

Studying the song development process: rationale and methods.

Tchernichovski O, Lints TJ, Deregnaucourt S, Cimenser A, Mitra PP.

Ann N Y Acad Sci. 2004 Jun;1016:348-63. Review.

PMID:
15313784
47.

Multiple neural spike train data analysis: state-of-the-art and future challenges.

Brown EN, Kass RE, Mitra PP.

Nat Neurosci. 2004 May;7(5):456-61. Review.

PMID:
15114358
48.

Effect of chromatic dispersion on nonlinear phase noise.

Green AG, Mitra PP, Wegener LG.

Opt Lett. 2003 Dec 15;28(24):2455-7.

PMID:
14690113
49.

Neural prosthetic control signals from plan activity.

Shenoy KV, Meeker D, Cao S, Kureshi SA, Pesaran B, Buneo CA, Batista AP, Mitra PP, Burdick JW, Andersen RA.

Neuroreport. 2003 Mar 24;14(4):591-6.

PMID:
12657892
50.

Towards quantification of vocal imitation in the zebra finch.

Tchernichovski O, Mitra PP.

J Comp Physiol A Neuroethol Sens Neural Behav Physiol. 2002 Dec;188(11-12):867-78. Epub 2002 Nov 20.

PMID:
12471487

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