Waitt Advanced Biophotonics Center

Publications

Salk Institute for Biological Studies - Waitt Advanced Biophotonics Center - Publications

Publications 2016


Paquola ACM, Erwin JA, Gage FH.

Curr Opin Syst Biol. 2017 Feb;1:90-94. doi: 10.1016/j.coisb.2016.12.004. Epub 2016 Dec 9.

PMID: 29226270


Callaway EM.
In: Kennedy H, Van Essen DC, Christen Y, editors.

Micro-, Meso- and Macro-Connectomics of the Brain [Internet]. Cham (CH): Springer; 2016.

PMID: 28590675


Sejnowski TJ.
In: Kennedy H, Van Essen DC, Christen Y, editors.

Micro-, Meso- and Macro-Connectomics of the Brain [Internet]. Cham (CH): Springer; 2016.

PMID: 28590673


Han J, Gage FH.

Neurogenesis (Austin). 2016 Dec 5;3(1):e1251873. doi: 10.1080/23262133.2016.1251873. eCollection 2016.

PMID: 28405585


Adamowicz DH, Roy S, Salmon DP, Galasko DR, Hansen LA, Masliah E, Gage FH.

J Neurosci. 2017 Feb 15;37(7):1675-1684. doi: 10.1523/JNEUROSCI.3047-16.2016. Epub 2016 Dec 30.

PMID: 28039370


Williams AH, O'Donnell C, Sejnowski TJ, O'Leary T.

Elife. 2016 Dec 30;5. pii: e20556. doi: 10.7554/eLife.20556.

PMID: 28034367


van de Ven RA, de Groot JS, Park D, van Domselaar R, de Jong D, Szuhai K, van der Wall E, Rueda OM, Ali HR, Caldas C, van Diest PJ, Hetzer MW, Sahai E, Derksen PW.

Nat Commun. 2016 Dec 22;7:13874. doi: 10.1038/ncomms13874. Erratum in:  Nat Commun. 2017 Sep 06;8:16030

PMID: 28004812


Kuczala A, Sharpee TO.

Phys Rev E. 2016 Nov;94(5-1):050101. Epub 2016 Nov 17.

PMID: 27967175


Sharpee TO.

Neuron. 2016 Dec 7;92(5):935-936. doi: 10.1016/j.neuron.2016.11.042.

PMID: 27930907


Juavinett AL, Nauhaus I, Garrett ME, Zhuang J, Callaway EM.

Nat Protoc. 2017 Jan;12(1):32-43. doi: 10.1038/nprot.2016.158. Epub 2016 Dec 1.

PMID: 27906169


O'Donnell C, Gonçalves JT, Whiteley N, Portera-Cailliau C, Sejnowski TJ.

Neural Comput. 2017 Jan;29(1):50-93. doi: 10.1162/NECO_a_00910. Epub 2016 Nov 21.

PMID: 27870612


Muller L, Piantoni G, Koller D, Cash SS, Halgren E, Sejnowski TJ.

Elife. 2016 Nov 15;5. pii: e17267. doi: 10.7554/eLife.17267.

PMID: 27855061


Suzuki K, Tsunekawa Y, Hernandez-Benitez R, Wu J, Zhu J, Kim EJ, Hatanaka F, Yamamoto M, Araoka T, Li Z, Kurita M, Hishida T, Li M, Aizawa E, Guo S, Chen S, Goebl A, Soligalla RD, Qu J, Jiang T, Fu X, Jafari M, Esteban CR, Berggren WT, Lajara J, Nuñez-Delicado E, Guillen P, Campistol JM, Matsuzaki F, Liu GH, Magistretti P, Zhang K, Callaway EM, Zhang K, Belmonte JC.

Nature. 2016 Dec 1;540(7631):144-149. doi: 10.1038/nature20565. Epub 2016 Nov 16.

PMID: 27851729


Gonçalves JT, Schafer ST, Gage FH.

Cell. 2016 Nov 3;167(4):897-914. doi: 10.1016/j.cell.2016.10.021. Review.

PMID: 27814520


Ibarra A, Benner C, Tyagi S, Cool J, Hetzer MW.

Genes Dev. 2016 Oct 15;30(20):2253-2258. Epub 2016 Nov 2.

PMID: 27807035


Dimidschstein J, Chen Q, Tremblay R, Rogers SL, Saldi GA, Guo L, Xu Q, Liu R, Lu C, Chu J, Grimley JS, Krostag AR, Kaykas A, Avery MC, Rashid MS, Baek M, Jacob AL, Smith GB, Wilson DE, Kosche G, Kruglikov I, Rusielewicz T, Kotak VC, Mowery TM, Anderson SA, Callaway EM, Dasen JS, Fitzpatrick D, Fossati V, Long MA, Noggle S, Reynolds JH, Sanes DH, Rudy B, Feng G, Fishell G.

Nat Neurosci. 2016 Dec;19(12):1743-1749. doi: 10.1038/nn.4430. Epub 2016 Oct 31. Update in:  Nat Neurosci. 2017 Jun 27;20(7):1033 . Erratum in:  Nat Neurosci. 2017 Jun 27;20(7):1033

PMID: 27798629


Erwin JA, Paquola AC, Singer T, Gallina I, Novotny M, Quayle C, Bedrosian TA, Alves FI, Butcher CR, Herdy JR, Sarkar A, Lasken RS, Muotri AR, Gage FH.

Nat Neurosci. 2016 Dec;19(12):1583-1591. doi: 10.1038/nn.4388. Epub 2016 Sep 12. Erratum in:  Nat Neurosci. 2017 Sep 28;20(10 ):1427 . Nat Neurosci. 2018 Apr 27;:

PMID: 27618310


Churchland PS, Sejnowski TJ.

Nat Rev Neurosci. 2016 Nov;17(11):667-668. doi: 10.1038/nrn.2016.114. Epub 2016 Sep 9.

PMID: 30283241


Vadodaria KC, Marchetto MC, Mertens J, Gage FH.

Bioessays. 2016 Nov;38(11):1123-1129. doi: 10.1002/bies.201600127. Epub 2016 Sep 22. Review.

PMID: 27716980


Xu C, Krabbe S, Gründemann J, Botta P, Fadok JP, Osakada F, Saur D, Grewe BF, Schnitzer MJ, Callaway EM, Lüthi A.

Cell. 2016 Nov 3;167(4):961-972.e16. doi: 10.1016/j.cell.2016.09.051. Epub 2016 Oct 20.

PMID: 27773481


Peterson DA, Littlewort GC, Bartlett MS, Macerollo A, Perlmutter JS, Jinnah HA, Hallett M, Sejnowski TJ.

Neurology. 2016 Nov 15;87(20):2146-2153. Epub 2016 Oct 21.

PMID: 27770067


Bardy C, van den Hurk M, Kakaradov B, Erwin JA, Jaeger BN, Hernandez RV, Eames T, Paucar AA, Gorris M, Marchand C, Jappelli R, Barron J, Bryant AK, Kellogg M, Lasken RS, Rutten BP, Steinbusch HW, Yeo GW, Gage FH.

Mol Psychiatry. 2016 Nov;21(11):1573-1588. doi: 10.1038/mp.2016.158. Epub 2016 Oct 4.

PMID: 27698428


Hatch EM, Hetzer MW.

J Cell Biol. 2016 Oct 10;215(1):27-36. Epub 2016 Oct 3.

PMID: 27697922


Tian J, Huang R, Cohen JY, Osakada F, Kobak D, Machens CK, Callaway EM, Uchida N, Watabe-Uchida M.

Neuron. 2016 Sep 21;91(6):1374-1389. doi: 10.1016/j.neuron.2016.08.018. Epub 2016 Sep 8.

PMID: 27618675


Barth L, Burkhalter A, Callaway EM, Connors BW, Cauli B, DeFelipe J, Feldmeyer D, Freund T, Kawaguchi Y, Kisvarday Z, Kubota Y, McBain C, Oberlaender M, Rossier J, Rudy B, Staiger JF, Somogyi P, Tamas G, Yuste R.

Science. 2016 Sep 9;353(6304):1108. doi: 10.1126/science.aaf5663. Erratum in:  Science. 2016 Sep 23;353(6306):

PMID: 27609882


Sharpee TO.

Front Synaptic Neurosci. 2016 Aug 23;8:26. doi: 10.3389/fnsyn.2016.00026. eCollection 2016.

PMID: 27601991


Du H, Deng W, Aimone JB, Ge M, Parylak S, Walch K, Zhang W, Cook J, Song H, Wang L, Gage FH, Mu Y.

Proc Natl Acad Sci U S A. 2016 Sep 13;113(37):E5501-10. doi: 10.1073/pnas.1606951113. Epub 2016 Aug 29.

PMID: 27573822


Grillner S, Ip N, Koch C, Koroshetz W, Okano H, Polachek M, Poo MM, Sejnowski TJ.

Nat Neurosci. 2016 Aug 26;19(9):1118-22. doi: 10.1038/nn.4371. Review. No abstract available. 

PMID: 27571190


Smith JB, Klug JR, Ross DL, Howard CD, Hollon NG, Ko VI, Hoffman H, Callaway EM, Gerfen CR, Jin X.

Neuron. 2016 Sep 7;91(5):1069-1084. doi: 10.1016/j.neuron.2016.07.046. Epub 2016 Aug 25.

PMID: 27568516


Kosik KS, Sejnowski TJ, Raichle ME, Ciechanover A, Baltimore D.

Science. 2016 Aug 26;353(6302):872-3. doi: 10.1126/science.aai7622. No abstract available. 

PMID: 27563087


Nauhaus I, Nielsen KJ, Callaway EM.

Neuron. 2016 Aug 17;91(4):893-904. doi: 10.1016/j.neuron.2016.07.015. Epub 2016 Aug 4.

PMID: 27499086


Reddy G, Celani A, Sejnowski TJ, Vergassola M.

Proc Natl Acad Sci U S A. 2016 Aug 16;113(33):E4877-84. doi: 10.1073/pnas.1606075113. Epub 2016 Aug 1.

PMID: 27482099


Hilde KL, Levine AJ, Hinckley CA, Hayashi M, Montgomery JM, Gullo M, Driscoll SP, Grosschedl R, Kohwi Y, Kohwi-Shigematsu T, Pfaff SL.

Neuron. 2016 Aug 17;91(4):763-776. doi: 10.1016/j.neuron.2016.07.014. Epub 2016 Jul 28.

PMID: 27478017


van den Hurk M, Kenis G, Bardy C, van den Hove DL, Gage FH, Steinbusch HW, Rutten BP.

Epigenomics. 2016 Aug;8(8):1131-49. doi: 10.2217/epi-2016-0032. Epub 2016 Jul 15. Review.

PMID: 27419933


Huh D, Sejnowski TJ.

Proc Natl Acad Sci U S A. 2016 Aug 2;113(31):8831-6. doi: 10.1073/pnas.1608724113. Epub 2016 Jul 14. Erratum in:  Proc Natl Acad Sci U S A. 2016 Sep 13;113(37):E5539

PMID: 27418602


Padmanabhan K, Osakada F, Tarabrina A, Kizer E, Callaway EM, Gage FH, Sejnowski TJ.

J Neurosci. 2016 Jul 13;36(28):7535-45. doi: 10.1523/JNEUROSCI.3358-15.2016.

PMID: 27413162


Ruiz-Martinez A, Bartol TM, Sejnowski TJ, Tartakovsky DM.

Biophys J. 2016 Jul 12;111(1):185-96. doi: 10.1016/j.bpj.2016.05.022.

PMID: 27410746


Gage FH, Guarente LP, Wagers AJ.

Trends Mol Med. 2016 Aug;22(8):633-634. doi: 10.1016/j.molmed.2016.06.011. Epub 2016 Jul 5. No abstract available. 

PMID: 27396512


Han J, Kim HJ, Schafer ST, Paquola A, Clemenson GD, Toda T, Oh J, Pankonin AR, Lee BS, Johnston ST, Sarkar A, Denli AM, Gage FH.

Neuron. 2016 Jul 6;91(1):79-89. doi: 10.1016/j.neuron.2016.05.034.

PMID: 27387650


Marchetto MC, Belinson H, Tian Y, Freitas BC, Fu C, Vadodaria K, Beltrao-Braga P, Trujillo CA, Mendes APD, Padmanabhan K, Nunez Y, Ou J, Ghosh H, Wright R, Brennand K, Pierce K, Eichenfield L, Pramparo T, Eyler L, Barnes CC, Courchesne E, Geschwind DH, Gage FH, Wynshaw-Boris A, Muotri AR.

Mol Psychiatry. 2017 Jun;22(6):820-835. doi: 10.1038/mp.2016.95. Epub 2016 Jul 5.

PMID: 27378147


Faget L, Osakada F, Duan J, Ressler R, Johnson AB, Proudfoot JA, Yoo JH, Callaway EM, Hnasko TS.

Cell Rep. 2016 Jun 21;15(12):2796-808. doi: 10.1016/j.celrep.2016.05.057. Epub 2016 Jun 9.

PMID: 27292633


Zheng X, Boyer L, Jin M, Mertens J, Kim Y, Ma L, Ma L, Hamm M, Gage FH, Hunter T.

Elife. 2016 Jun 10;5. pii: e13374. doi: 10.7554/eLife.13374.

PMID: 27282387


Bedrosian TA, Linker S, Gage FH.

Genome Med. 2016 May 23;8(1):58. doi: 10.1186/s13073-016-0317-9.

PMID: 27215330


Franks TM, Benner C, Narvaiza I, Marchetto MC, Young JM, Malik HS, Gage FH, Hetzer MW.

Genes Dev. 2016 May 15;30(10):1155-71. doi: 10.1101/gad.280941.116. Epub 2016 May 19. Erratum in:  Genes Dev. 2017 Apr 15;31(8):845

PMID: 27198230


Poo MM, Pignatelli M, Ryan TJ, Tonegawa S, Bonhoeffer T, Martin KC, Rudenko A, Tsai LH, Tsien RW, Fishell G, Mullins C, Gonçalves JT, Shtrahman M, Johnston ST, Gage FH, Dan Y, Long J, Buzsáki G, Stevens C.

BMC Biol. 2016 May 19;14:40. doi: 10.1186/s12915-016-0261-6.

PMID: 27197636


Mertens J, Marchetto MC, Bardy C, Gage FH.

Nat Rev Neurosci. 2016 Jul;17(7):424-37. doi: 10.1038/nrn.2016.46. Epub 2016 May 19. Review.

PMID: 27194476


Oedegaard KJ, Alda M, Anand A, Andreassen OA, Balaraman Y, Berrettini WH, Bhattacharjee A, Brennand KJ, Burdick KE, Calabrese JR, Calkin CV, Claasen A, Coryell WH, Craig D, DeModena A, Frye M, Gage FH, Gao K, Garnham J, Gershon E, Jakobsen P, Leckband SG, McCarthy MJ, McInnis MG, Maihofer AX, Mertens J, Morken G, Nievergelt CM, Nurnberger J, Pham S, Schoeyen H, Shekhtman T, Shilling PD, Szelinger S, Tarwater B, Yao J, Zandi PP, Kelsoe JR.

BMC Psychiatry. 2016 May 5;16:129. doi: 10.1186/s12888-016-0732-x.

PMID: 27150464


Kim EJ, Jacobs MW, Ito-Cole T, Callaway EM.

Cell Rep. 2016 Apr 26;15(4):692-699. doi: 10.1016/j.celrep.2016.03.067. Epub 2016 Apr 14.

PMID: 27149846


Ori A, Toyama BH, Harris MS, Bock T, Iskar M, Bork P, Ingolia NT, Hetzer MW, Beck M.

Cell Syst. 2015 Sep 23;1(3):224-37. doi: 10.1016/j.cels.2015.08.012. Epub 2015 Sep 17.

PMID: 27135913


Gonçalves JT, Bloyd CW, Shtrahman M, Johnston ST, Schafer ST, Parylak SL, Tran T, Chang T, Gage FH.

Nat Neurosci. 2016 Jun;19(6):788-91. doi: 10.1038/nn.4301. Epub 2016 May 2.

PMID: 27135217


Sharpee TO.

Elife. 2016 Apr 29;5. pii: e16209. doi: 10.7554/eLife.16209.

PMID: 27128377


Sekiguchi KJ, Shekhtmeyster P, Merten K, Arena A, Cook D, Hoffman E, Ngo A, Nimmerjahn A.

Nat Commun. 2016 Apr 28;7:11450. doi: 10.1038/ncomms11450.

PMID: 27121084


Topol A, Zhu S, Hartley BJ, English J, Hauberg ME, Tran N, Rittenhouse CA, Simone A, Ruderfer DM, Johnson J, Readhead B, Hadas Y, Gochman PA, Wang YC, Shah H, Cagney G, Rapoport J, Gage FH, Dudley JT, Sklar P, Mattheisen M, Cotter D, Fang G, Brennand KJ.

Cell Rep. 2016 May 3;15(5):1024-1036. doi: 10.1016/j.celrep.2016.03.090. Epub 2016 Apr 21. Erratum in:  Cell Rep. 2017 Sep 5;20(10):2525

PMID: 27117414


Lacar B, Linker SB, Jaeger BN, Krishnaswami SR, Barron JJ, Kelder MJE, Parylak SL, Paquola ACM, Venepally P, Novotny M, O'Connor C, Fitzpatrick C, Erwin JA, Hsu JY, Husband D, McConnell MJ, Lasken R, Gage FH.

Nat Commun. 2016 Apr 19;7:11022. doi: 10.1038/ncomms11022. Erratum in:  Nat Commun. 2016 Jun 14;7:12020 . Nat Commun. 2017 Mar 17;8:15047

PMID: 27090946


Harrison BJ, Venkat G, Lamb JL, Hutson TH, Drury C, Rau KK, Bunge MB, Mendell LM, Gage FH, Johnson RD, Hill CE, Rouchka EC, Moon LD, Petruska JC.

J Neurosci. 2016 Apr 13;36(15):4259-75. doi: 10.1523/JNEUROSCI.2423-15.2016.

PMID: 27076424


Zhang Y, Sharpee TO.

PLoS Comput Biol. 2016 Apr 11;12(4):e1004850. doi: 10.1371/journal.pcbi.1004850. eCollection 2016 Apr.

PMID: 27065441


Ettle B, Kerman BE, Valera E, Gillmann C, Schlachetzki JC, Reiprich S, Büttner C, Ekici AB, Reis A, Wegner M, Bäuerle T, Riemenschneider MJ, Masliah E, Gage FH, Winkler J.

Acta Neuropathol. 2016 Jul;132(1):59-75. doi: 10.1007/s00401-016-1572-y. Epub 2016 Apr 8.

PMID: 27059609


Wall NR, De La Parra M, Sorokin JM, Taniguchi H, Huang ZJ, Callaway EM.

J Neurosci. 2016 Apr 6;36(14):4000-9. doi: 10.1523/JNEUROSCI.3967-15.2016.

PMID: 27053207


Fourgeaud L, Través PG, Tufail Y, Leal-Bailey H, Lew ED, Burrola PG, Callaway P, Zagórska A, Rothlin CV, Nimmerjahn A, Lemke G.

Nature. 2016 Apr 14;532(7598):240-244. doi: 10.1038/nature17630. Epub 2016 Apr 6.

PMID: 27049947


Otani T, Marchetto MC, Gage FH, Simons BD, Livesey FJ.

Cell Stem Cell. 2016 Apr 7;18(4):467-80. doi: 10.1016/j.stem.2016.03.003. Epub 2016 Mar 31.

PMID: 27049876


Briggs F, Kiley CW, Callaway EM, Usrey WM.

Neuron. 2016 Apr 20;90(2):388-99. doi: 10.1016/j.neuron.2016.02.038. Epub 2016 Mar 31.

PMID: 27041497


Zheng X, Boyer L, Jin M, Kim Y, Fan W, Bardy C, Berggren T, Evans RM, Gage FH, Hunter T.

Elife. 2016 Mar 23;5. pii: e13378. doi: 10.7554/eLife.13378.

PMID: 27008180


Aljadeff J, Renfrew D, Vegué M, Sharpee TO.

Phys Rev E. 2016 Feb;93(2):022302. doi: 10.1103/PhysRevE.93.022302. Epub 2016 Feb 5.

PMID: 26986347


Mishra HK, Prots I, Havlicek S, Kohl Z, Perez-Branguli F, Boerstler T, Anneser L, Minakaki G, Wend H, Hampl M, Leone M, Brückner M, Klucken J, Reis A, Boyer L, Schuierer G, Behrens J, Lampert A, Engel FB, Gage FH, Winkler J, Winner B.

Ann Neurol. 2016 May;79(5):826-840. doi: 10.1002/ana.24633.

PMID: 26971897


Sejnowski TJ.

Daedalus. 2015 Winter;144(1):123-132.

PMID: 26900168


Krishnaswami SR, Grindberg RV, Novotny M, Venepally P, Lacar B, Bhutani K, Linker SB, Pham S, Erwin JA, Miller JA, Hodge R, McCarthy JK, Kelder M, McCorrison J, Aevermann BD, Fuertes FD, Scheuermann RH, Lee J, Lein ES, Schork N, McConnell MJ, Gage FH, Lasken RS.

Nat Protoc. 2016 Mar;11(3):499-524. doi: 10.1038/nprot.2016.015. Epub 2016 Feb 18.

PMID: 26890679


Weissman IL, Gage FH.

Cell. 2016 Feb 11;164(4):593-5. doi: 10.1016/j.cell.2016.01.048.

PMID: 26871622


Rodrigues S, Desroches M, Krupa M, Cortes JM, Sejnowski TJ, Ali AB.

Proc Natl Acad Sci U S A. 2016 Feb 23;113(8):E1108-15. doi: 10.1073/pnas.1525591113. Epub 2016 Feb 8.

PMID: 26858411


Tuncdemir SN, Wamsley B, Stam FJ, Osakada F, Goulding M, Callaway EM, Rudy B, Fishell G.

Neuron. 2016 Feb 3;89(3):521-35. doi: 10.1016/j.neuron.2015.11.020.

PMID: 26844832


Wasson JA, Simon AK, Myrick DA, Wolf G, Driscoll S, Pfaff SL, Macfarlan TS, Katz DJ.

Elife. 2016 Jan 27;5. pii: e08848. doi: 10.7554/eLife.08848.

PMID: 26814574


O'Donnell C, Sejnowski TJ.

Cell. 2016 Jan 14;164(1-2):13-15. doi: 10.1016/j.cell.2015.12.051.

PMID: 26771481


Tang X, Kim J, Zhou L, Wengert E, Zhang L, Wu Z, Carromeu C, Muotri AR, Marchetto MC, Gage FH, Chen G.

Proc Natl Acad Sci U S A. 2016 Jan 19;113(3):751-6. doi: 10.1073/pnas.1524013113. Epub 2016 Jan 5.

PMID: 26733678