Waitt Advanced Biophotonics Center

Publications

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

Publications 2019


Zhu Z, Mesci P, Bernatchez JA, Gimple RC, Wang X, Schafer ST, Wettersten HI, Beck S, Clark AE, Wu Q, Prager BC, Kim LJY, Dhanwani R, Sharma S, Garancher A, Weis SM, Mack SC, Negraes PD, Trujillo CA, Penalva LO, Feng J, Lan Z, Zhang R, Wessel AW, Dhawan S, Diamond MS, Chen CC, Wechsler-Reya RJ, Gage FH, Hu H, Siqueira-Neto JL, Muotri AR, Cheresh DA, Rich JN.

Cell Stem Cell. 2019 Dec 31. pii: S1934-5909(19)30471-0. doi: 10.1016/j.stem.2019.11.016.]

PMID: 31956038


Ruiz-Martínez Á, Bartol TM, Sejnowski TJ, Tartakovsky DM.

J Chem Phys. 2019 Dec 28;151(24):244117. doi: 10.1063/1.5125022.

PMID: 31893874


Pharris MC, Patel NM, VanDyk TG, Bartol TM, Sejnowski TJ, Kennedy MB, Stefan MI, Kinzer-Ursem TL.

PLoS Comput Biol. 2019 Dec 23;15(12):e1006941. doi: 10.1371/journal.pcbi.1006941. eCollection 2019 Dec. PMID: 31869343


Reichenstein I, Eitan C, Diaz-Garcia S, Haim G, Magen I, Siany A, Hoye ML, Rivkin N, Olender T, Toth B, Ravid R, Mandelbaum AD, Yanowski E, Liang J, Rymer JK, Levy R, Beck G, Ainbinder E, Farhan SMK, Lennox KA, Bode NM, Behlke MA, Möller T, Saxena S, Moreno CAM, Costaguta G, van Eijk KR, Phatnani H, Al-Chalabi A, Ba┼čak AN, van den Berg LH, Hardiman O, Landers JE, Mora JS, Morrison KE, Shaw PJ, Veldink JH, Pfaff SL, Yizhar O, Gross C, Brown RH Jr, Ravits JM, Harms MB, Miller TM, Hornstein E.

Sci Transl Med. 2019 Dec 18;11(523). pii: eaav5264. doi: 10.1126/scitranslmed.aav5264.

PMID: 31852800


Fischer KB, Collins HK, Callaway EM.

Proc Natl Acad Sci U S A. 2019 Dec 16. pii: 201915974. doi: 10.1073/pnas.1915974116. [Epub ahead of print] PMID: 31843925


Jullié D, Stoeber M, Sibarita JB, Zieger HL, Bartol TM, Arttamangkul S, Sejnowski TJ, Hosy E, von Zastrow M.

Neuron. 2019 Dec 5. pii: S0896-6273(19)30979-1. doi: 10.1016/j.neuron.2019.11.016.

PMID: 31837915


Garcia GC, Bartol TM, Phan S, Bushong EA, Perkins G, Sejnowski TJ, Ellisman MH, Skupin A.

Sci Rep. 2019 Dec 4;9(1):18306. doi: 10.1038/s41598-019-54159-1.

PMID: 31797946


Marsala M, Kamizato K, Tadokoro T, Navarro M, Juhas S, Juhasova J, Marsala S, Studenovska H, Proks V, Hazel T, Johe K, Kakinohana M, Driscoll S, Glenn T, Pfaff S, Ciacci J.

Stem Cells Transl Med. 2019 Dec 4. doi: 10.1002/sctm.19-0156. PMID: 31800978


Lainscsek C, Rungratsameetaweemana N, Cash SS, Sejnowski TJ.

Chaos. 2019 Dec;29(12):121106. doi: 10.1063/1.5139654.

PMID: 31893650


Zheng B, Nimmerjahn A.

Exp Neurol. 2019 Dec;322:113038. doi: 10.1016/j.expneurol.2019.113038. Epub 2019 Aug 20. No abstract available. 

PMID: 31698157


Patriarchi T, Cho JR, Merten K, Marley A, Broussard GJ, Liang R, Williams J, Nimmerjahn A, von Zastrow M, Gradinaru V, Tian L.

Nat Protoc. 2019 Dec;14(12):3471-3505. doi: 10.1038/s41596-019-0239-2. Epub 2019 Nov 15.

PMID: 31732722


Nott A, Holtman IR, Coufal NG, Schlachetzki JCM, Yu M, Hu R, Han CZ, Pena M, Xiao J, Wu Y, Keulen Z, Pasillas MP, O'Connor C, Nickl CK, Schafer ST, Shen Z, Rissman RA, Brewer JB, Gosselin D, Gonda DD, Levy ML, Rosenfeld MG, McVicker G, Gage FH, Ren B, Glass CK.

Science. 2019 Nov 29;366(6469):1134-1139. doi: 10.1126/science.aay0793. Epub 2019 Nov 14.

PMID: 31727856


Vadodaria KC, Jones JR, Linker S, Gage FH.

Cold Spring Harb Perspect Biol. 2019 Nov 25. pii: a035659. doi: 10.1101/cshperspect.a035659.

PMID: 31767646


Paixão S, Loschek L, Gaitanos L, Alcalà Morales P, Goulding M, Klein R.

Neuron. 2019 Nov 20;104(4):749-764.e6. doi: 10.1016/j.neuron.2019.08.029. Epub 2019 Oct 2.

PMID: 31586516


Siddharth S, Jung TP, Sejnowski TJ.

Sci Rep. 2019 Nov 8;9(1):16295. doi: 10.1038/s41598-019-52891-2.

PMID: 31705031


De la Fuente IM, Bringas C, Malaina I, Regner B, Pérez-Samartín A, Boyano MD, Fedetz M, López JI, Pérez-Yarza G, Cortes JM, Sejnowski T.

Sci Rep. 2019 Nov 8;9(1):16369. doi: 10.1038/s41598-019-52716-2.

PMID: 31704992


Kim R, Li Y, Sejnowski TJ.

Proc Natl Acad Sci U S A. 2019 Nov 5;116(45):22811-22820. doi: 10.1073/pnas.1905926116. Epub 2019 Oct 21. PMID: 31636215


Chu Q, Martinez TF, Novak SW, Donaldson CJ, Tan D, Vaughan JM, Chang T, Diedrich JK, Andrade L, Kim A, Zhang T, Manor U, Saghatelian A.

Nat Commun. 2019 Oct 25;10(1):4883. doi: 10.1038/s41467-019-12816-z. PMID: 31653868


Litvina E, Adams A, Barth A, Bruchez M, Carson J, Chung JE, Dupre KB, Frank LM, Gates KM, Harris KM, Joo H, William Lichtman J, Ramos KM, Sejnowski T, Trimmer JS, White S, Koroshetz W.

J Neurosci. 2019 Oct 16;39(42):8275-8284. doi: 10.1523/JNEUROSCI.1169-19.2019. Erratum in:  J Neurosci. 2020 Jan 8;40(2):493 . PMID: 31619497


Buchwalter A, Schulte R, Tsai H, Capitanio J, Hetzer M.

Elife. 2019 Oct 10;8. pii: e49796. doi: 10.7554/eLife.49796. PMID: 31599721


Stern S, Sarkar A, Stern T, Mei A, Mendes APD, Stern Y, Goldberg G, Galor D, Nguyen T, Randolph-Moore L, Kim Y, Rouleau G, Bang A, Alda M, Santos R, Marchetto MC, Gage FH.

Biol Psychiatry. 2019 Oct 1. pii: S0006-3223(19)31743-3. doi: 10.1016/j.biopsych.2019.09.018. PMID: 31732108


Lainscsek C, Gonzalez CE, Sampson AL, Cash SS, Sejnowski TJ.

Chaos. 2019 Oct;29(10):101103. doi: 10.1063/1.5126125.

PMID: 31675829


Sharpee TO.

Curr Opin Neurobiol. 2019 Oct;58:101-104. doi: 10.1016/j.conb.2019.07.008. Epub 2019 Aug 30. Review. PMID: 31476550


Nelson NA, Wang X, Cook D, Carey EM, Nimmerjahn A.

Exp Neurol. 2019 Oct;320:112974. doi: 10.1016/j.expneurol.2019.112974. Epub 2019 Jun 6. Review. PMID: 31175843


Pinto-Duarte A, Roberts AJ, Ouyang K, Sejnowski TJ.

Glia. 2019 Oct;67(10):1976-1989. doi: 10.1002/glia.23679. Epub 2019 Jul 26.

PMID: 31348567


Wang HP, Garcia JW, Sabottke CF, Spencer DJ, Sejnowski TJ.

J Neurosci. 2019 Sep 25;39(39):7674-7688. doi: 10.1523/JNEUROSCI.3165-17.2019. Epub 2019 Jul 3. PMID: 31270157


Hafner G, Witte M, Guy J, Subhashini N, Fenno LE, Ramakrishnan C, Kim YS, Deisseroth K, Callaway EM, Oberhuber M, Conzelmann KK, Staiger JF.

Cell Rep. 2019 Sep 24;28(13):3450-3461.e8. doi: 10.1016/j.celrep.2019.08.064.

PMID: 31553913


Quraishi IH, Stern S, Mangan KP, Zhang Y, Ali SR, Mercier MR, Marchetto MC, McLachlan MJ, Jones EM, Gage FH, Kaczmarek LK.

J Neurosci. 2019 Sep 11;39(37):7438-7449. doi: 10.1523/JNEUROSCI.1628-18.2019. Epub 2019 Jul 26. PMID: 31350261


Amatya DN, Linker SB, Mendes APD, Santos R, Erikson G, Shokhirev MN, Zhou Y, Sharpee T, Gage FH, Marchetto MC, Kim Y.

Stem Cell Reports. 2019 Sep 10;13(3):474-484. doi: 10.1016/j.stemcr.2019.08.001. Epub 2019 Aug 29. PMID: 31474529


Cugno A, Bartol TM, Sejnowski TJ, Iyengar R, Rangamani P.

Sci Rep. 2019 Aug 12;9(1):11676. doi: 10.1038/s41598-019-48028-0.

PMID: 31406140


Arrojo E Drigo R, Lev-Ram V, Tyagi S, Ramachandra R, Deerinck T, Bushong E, Phan S, Orphan V, Lechene C, Ellisman MH, Hetzer MW.

Cell Metab. 2019 Aug 6;30(2):343-351.e3. doi: 10.1016/j.cmet.2019.05.010. Epub 2019 Jun 6.

PMID: 31178361


Bell M, Bartol T, Sejnowski T, Rangamani P.

J Gen Physiol. 2019 Aug 5;151(8):1017-1034. doi: 10.1085/jgp.201812261. Epub 2019 Jul 19. Erratum in:  J Gen Physiol. 2019 Aug 2;:

PMID: 31324651


Kim Y, Vadodaria KC, Lenkei Z, Kato T, Gage FH, Marchetto MC, Santos R.

Antioxid Redox Signal. 2019 Aug 1;31(4):275-317. doi: 10.1089/ars.2018.7606. Epub 2019 Feb 1.

PMID: 30585734


Acton D, Ren X, Di Costanzo S, Dalet A, Bourane S, Bertocchi I, Eva C, Goulding M.

Cell Rep. 2019 Jul 16;28(3):625-639.e6. doi: 10.1016/j.celrep.2019.06.033.

PMID: 31315043


Zhou J, Ma J, Chen Y, Cheng C, Bao B, Peng J, Sejnowski TJ, Dixon JR, Ecker JR.

Proc Natl Acad Sci U S A. 2019 Jul 9;116(28):14011-14018. doi: 10.1073/pnas.1901423116. Epub 2019 Jun 24. PMID: 31235599


Das A, Sexton D, Lainscsek C, Cash SS, Sejnowski TJ.

Neural Comput. 2019 Jul;31(7):1271-1326. doi: 10.1162/neco_a_01205. Epub 2019 May 21.

PMID: 31113298


Garg AK, Li P, Rashid MS, Callaway EM.

Science. 2019 Jun 28;364(6447):1275-1279. doi: 10.1126/science.aaw5868.

PMID: 31249057


36.

Time-restricted feeding restores muscle function in Drosophila models of obesity and circadian-rhythm disruption. Villanueva JE, Livelo C, Trujillo AS, Chandran S, Woodworth B, Andrade L, Le HD, Manor U, Panda S, Melkani GC

Nat Commun. 2019 Jun 20;10(1):2700. doi: 10.1038/s41467-019-10563-9. PMID: 31221967


Oakley BA, Sejnowski TJ.

NPJ Sci Learn. 2019 Jun 14;4:7. doi: 10.1038/s41539-019-0046-0. eCollection 2019. Review.

PMID: 31240111


van den Hurk M, Erwin JA, Yeo GW, Gage FH, Bardy C.

Front Mol Neurosci. 2019 Jun 11;12:150. doi: 10.3389/fnmol.2019.00150. eCollection 2019.

PMID: 31244603


Osseward PJ 2nd, Pfaff SL.

Curr Opin Neurobiol. 2019 Jun;56:175-184. doi: 10.1016/j.conb.2019.03.003. Epub 2019 Apr 5. Review. PMID: 30954861


Gatto G, Smith KM, Ross SE, Goulding M.

Curr Opin Neurobiol. 2019 Jun;56:167-174. doi: 10.1016/j.conb.2019.03.002. Epub 2019 Apr 4. Review. PMID: 30953870


Vadodaria KC, Ji Y, Skime M, Paquola AC, Nelson T, Hall-Flavin D, Heard KJ, Fredlender C, Deng Y, Elkins J, Dani K, Le AT, Marchetto MC, Weinshilboum R, Gage FH.

Mol Psychiatry. 2019 Jun;24(6):808-818. doi: 10.1038/s41380-019-0377-5. Epub 2019 Mar 22.

PMID: 30903001


Vadodaria KC, Ji Y, Skime M, Paquola A, Nelson T, Hall-Flavin D, Fredlender C, Heard KJ, Deng Y, Le AT, Dave S, Fung L, Li X, Marchetto MC, Weinshilboum R, Gage FH.

Mol Psychiatry. 2019 Jun;24(6):795-807. doi: 10.1038/s41380-019-0363-y. Epub 2019 Jan 30.

PMID: 30700803


Berkowitz JA, Sharpee TO.

Neural Comput. 2019 Jun;31(6):1015-1047. doi: 10.1162/neco_a_01193. Epub 2019 Apr 12.

PMID: 30979352


Ernst OK, Bartol TM, Sejnowski TJ, Mjolsness E.

Phys Rev E. 2019 Jun;99(6-1):063315. doi: 10.1103/PhysRevE.99.063315.

PMID: 31330605


Gage FH.

Science. 2019 May 31;364(6443):827-828. doi: 10.1126/science.aav6885. PMID: 31147506


McBride EG, Lee SJ, Callaway EM.

Curr Biol. 2019 May 20;29(10):1592-1605.e5. doi: 10.1016/j.cub.2019.03.065. Epub 2019 May 2.

PMID: 31056388


Herdy J, Schafer S, Kim Y, Ansari Z, Zangwill D, Ku M, Paquola A, Lee H, Mertens J, Gage FH.

Elife. 2019 May 17;8. pii: e41356. doi: 10.7554/eLife.41356. PMID: 31099332


Bonanomi D, Valenza F, Chivatakarn O, Sternfeld MJ, Driscoll SP, Aslanian A, Lettieri K, Gullo M, Badaloni A, Lewcock JW, Hunter T, Pfaff SL.

Neuron. 2019 May 8;102(3):602-620.e9. doi: 10.1016/j.neuron.2019.02.034. Epub 2019 Mar 19.

PMID: 30902550


Shi Y, Gao W, Lytle NK, Huang P, Yuan X, Dann AM, Ridinger-Saison M, DelGiorno KE, Antal CE, Liang G, Atkins AR, Erikson G, Sun H, Meisenhelder J, Terenziani E, Woo G, Fang L, Santisakultarm TP, Manor U, Xu R, Becerra CR, Borazanci E, Von Hoff DD, Grandgenett PM, Hollingsworth MA, Leblanc M, Umetsu SE, Collisson EA, Scadeng M, Lowy AM, Donahue TR, Reya T, Downes M, Evans RM, Wahl GM, Pawson T, Tian R, Hunter T.

Nature. 2019 May;569(7754):131-135. doi: 10.1038/s41586-019-1130-6. Epub 2019 Apr 17.

PMID: 30996350


Bennett C, Gale SD, Garrett ME, Newton ML, Callaway EM, Murphy GJ, Olsen SR.

Neuron. 2019 Apr 17;102(2):477-492.e5. doi: 10.1016/j.neuron.2019.02.010. Epub 2019 Mar 5.

PMID: 30850257


Siddharth, Patel AN, Jung TP, Sejnowski TJ.

IEEE Trans Biomed Eng. 2019 Apr;66(4):1137-1147. doi: 10.1109/TBME.2018.2868759. Epub 2018 Sep 4. PMID: 30188809


Sampson AL, Lainscsek C, Gonzalez CE, Ulbert I, Devinsky O, Fabó D, Madsen JR, Halgren E, Cash SS, Sejnowski TJ.

J Neurosci Methods. 2019 Mar 15;316:12-21. doi: 10.1016/j.jneumeth.2019.01.009. Epub 2019 Jan 30. PMID: 30707917


Rosen BQ, Krishnan GP, Sanda P, Komarov M, Sejnowski T, Rulkov N, Ulbert I, Eross L, Madsen J, Devinsky O, Doyle W, Fabo D, Cash S, Bazhenov M, Halgren E.

J Neurosci Methods. 2019 Mar 15;316:46-57. doi: 10.1016/j.jneumeth.2018.10.002. Epub 2018 Oct 6. PMID: 30300700


Bohaciakova D, Hruska-Plochan M, Tsunemoto R, Gifford WD, Driscoll SP, Glenn TD, Wu S, Marsala S, Navarro M, Tadokoro T, Juhas S, Juhasova J, Platoshyn O, Piper D, Sheckler V, Ditsworth D, Pfaff SL, Marsala M.

Stem Cell Res Ther. 2019 Mar 12;10(1):83. doi: 10.1186/s13287-019-1163-7.

PMID: 30867054


Wang M, Zhang L, Gage FH.

Nat Neurosci. 2019 Mar;22(3):333-334. doi: 10.1038/s41593-019-0343-1. No abstract available. 

PMID: 30796420


Yetman MJ, Washburn E, Hyun JH, Osakada F, Hayano Y, Zeng H, Callaway EM, Kwon HB, Taniguchi H.

Nat Neurosci. 2019 Mar;22(3):492-502. doi: 10.1038/s41593-018-0322-y. Epub 2019 Jan 28.

PMID: 30692688


Farrelly LA, Thompson RE, Zhao S, Lepack AE, Lyu Y, Bhanu NV, Zhang B, Loh YE, Ramakrishnan A, Vadodaria KC, Heard KJ, Erikson G, Nakadai T, Bastle RM, Lukasak BJ, Zebroski H 3rd, Alenina N, Bader M, Berton O, Roeder RG, Molina H, Gage FH, Shen L, Garcia BA, Li H, Muir TW, Maze I.

Nature. 2019 Mar;567(7749):535-539. doi: 10.1038/s41586-019-1024-7. Epub 2019 Mar 13.

PMID: 30867594


Lainscsek C, Sampson AL, Kim R, Thomas ML, Man K, Lainscsek X; COGS Investigators, Swerdlow NR, Braff DL, Sejnowski TJ, Light GA.

Proc Natl Acad Sci U S A. 2019 Feb 26;116(9):3847-3852. doi: 10.1073/pnas.1810572116. Epub 2019 Feb 11. PMID: 30808768


Aimon S, Katsuki T, Jia T, Grosenick L, Broxton M, Deisseroth K, Sejnowski TJ, Greenspan RJ.

PLoS Biol. 2019 Feb 15;17(2):e2006732. doi: 10.1371/journal.pbio.2006732. eCollection 2019 Feb.

PMID: 30768592


Marchetto MC, Hrvoj-Mihic B, Kerman BE, Yu DX, Vadodaria KC, Linker SB, Narvaiza I, Santos R, Denli AM, Mendes AP, Oefner R, Cook J, McHenry L, Grasmick JM, Heard K, Fredlender C, Randolph-Moore L, Kshirsagar R, Xenitopoulos R, Chou G, Hah N, Muotri AR, Padmanabhan K, Semendeferi K, Gage FH.

Elife. 2019 Feb 7;8. pii: e37527. doi: 10.7554/eLife.37527. PMID: 30730291


Toyama BH, Arrojo E Drigo R, Lev-Ram V, Ramachandra R, Deerinck TJ, Lechene C, Ellisman MH, Hetzer MW.

J Cell Biol. 2019 Feb 4;218(2):433-444. doi: 10.1083/jcb.201809123. Epub 2018 Dec 14.

PMID: 30552100


Schafer ST, Paquola ACM, Stern S, Gosselin D, Ku M, Pena M, Kuret TJM, Liyanage M, Mansour AA, Jaeger BN, Marchetto MC, Glass CK, Mertens J, Gage FH.

Nat Neurosci. 2019 Feb;22(2):243-255. doi: 10.1038/s41593-018-0295-x. Epub 2019 Jan 7.

PMID: 30617258


McCarthy MJ, Wei H, Nievergelt CM, Stautland A, Maihofer AX, Welsh DK, Shilling P, Alda M, Alliey-Rodriguez N, Anand A, Andreasson OA, Balaraman Y, Berrettini WH, Bertram H, Brennand KJ, Calabrese JR, Calkin CV, Claasen A, Conroy C, Coryell WH, Craig DW, D'Arcangelo N, Demodena A, Djurovic S, Feeder S, Fisher C, Frazier N, Frye MA, Gage FH, Gao K, Garnham J, Gershon ES, Glazer K, Goes F, Goto T, Harrington G, Jakobsen P, Kamali M, Karberg E, Kelly M, Leckband SG, Lohoff F, McInnis MG, Mondimore F, Morken G, Nurnberger JI, Obral S, Oedegaard KJ, Ortiz A, Ritchey M, Ryan K, Schinagle M, Schoeyen H, Schwebel C, Shaw M, Shekhtman T, Slaney C, Stapp E, Szelinger S, Tarwater B, Zandi PP, Kelsoe JR.

Neuropsychopharmacology. 2019 Feb;44(3):620-628. doi: 10.1038/s41386-018-0273-8. Epub 2018 Nov 16. PMID: 30487653


Linker SB, Hsu JY, Pfaff A, Amatya D, Ko SM, Voter S, Wong Q, Gage FH.

Bioinformatics. 2019 Jan 15;35(2):343-345. doi: 10.1093/bioinformatics/bty618.

PMID: 30010719


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

Front Neuroanat. 2019 Jan 7;12:115. doi: 10.3389/fnana.2018.00115. eCollection 2018.

PMID: 30666191


Lucassen PJ, Toni N, Kempermann G, Frisen J, Gage FH, Swaab DF.

Mol Psychiatry. 2019 Jan 7. doi: 10.1038/s41380-018-0337-5. [Epub ahead of print] No abstract available. PMID: 30617274


Dhande OS, Stafford BK, Franke K, El-Danaf R, Percival KA, Phan AH, Li P, Hansen BJ, Nguyen PL, Berens P, Taylor WR, Callaway E, Euler T, Huberman AD.

J Neurosci. 2019 Jan 2;39(1):78-95. doi: 10.1523/JNEUROSCI.1784-18.2018. Epub 2018 Oct 30.

PMID: 30377226


Tapia JJ, Saglam AS, Czech J, Kuczewski R, Bartol TM, Sejnowski TJ, Faeder JR.

Methods Mol Biol. 2019;1945:203-229. doi: 10.1007/978-1-4939-9102-0_9.

PMID: 30945248


Toda T, Parylak SL, Linker SB, Gage FH.

Mol Psychiatry. 2019 Jan;24(1):67-87. doi: 10.1038/s41380-018-0036-2. Epub 2018 Apr 20. Review.

PMID: 29679070


Buchwalter A, Kaneshiro JM, Hetzer MW.

Nat Rev Genet. 2019 Jan;20(1):39-50. doi: 10.1038/s41576-018-0063-5. Review.

PMID: 30356165


Huang T, Lin SH, Malewicz NM, Zhang Y, Zhang Y, Goulding M, LaMotte RH, Ma Q.

Nature. 2019 Jan;565(7737):86-90. doi: 10.1038/s41586-018-0793-8. Epub 2018 Dec 10.

PMID: 30532001