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Journal Article
McKinney SA, Murphy CS, Hazelwood KL, Davidson MW, Looger LL.  2009.  A bright and photostable photoconvertible fluorescent protein.. Nature Methods. 6(2):131-3.
Abdelfattah AS, Kawashima T, Singh A, Novak O, Liu H, Shuai Y, Huang Y-C, Campagnola L, Seeman SC, Yu J et al..  2019.  Bright and photostable chemigenetic indicators for extended in vivo voltage imaging.. Science. 365(6454):699-704.
Zarowny L, Aggarwal A, Rutten VMS, Kolb I, Patel R, Huang H-Y, Chang Y-F, Phan T, Kanyo R, Ahrens MB et al..  2020.  Bright and high-performance genetically encoded Ca indicator based on mNeonGreen fluorescent protein.. ACS Sensors.
Hoeller J, Zhong L, Pachitariu M, Romani S.  2024.  Bridging tuning and invariance with equivariant neuronal representations. bioRxiv.
Lippincott-Schwartz J.  2011.  Bridging structure and process in developmental biology through new imaging technologies.. Developmental cell. 21(1):5-10.
Schnoes AM, Green NH, Nguyen TA, Vale RD, Goodwin SS, Behrman SL.  2024.  Bridging gaps in traditional research training with iBiology Courses.. PLoS Biology. 22(1):e3002458.
Si K, Fiolka R, Cui M.  2012.  Breaking the spatial resolution barrier via iterative sound-light interaction in deep tissue microscopy.. Scientific Reports. 2:748.
Gao L, R Cooks G, Ouyang Z.  2008.  Breaking the pumping speed barrier in mass spectrometry: discontinuous atmospheric pressure interface.. Analytical Chemistry. 80(11):4026-32.
Betzig E, Trautman JK, Harris TD, Weiner JS, Kostelak RL.  1991.  Breaking the diffraction barrier: optical microscopy on a nanometric scale. (With commentary). Science. 251(5000):1468-70.
Betzig E, Trautman JK, Harris TD, Weiner JS, Kostelak RL.  1991.  Breaking the diffraction barrier: optical microscopy on a nanometric scale.. Science. 251(5000):1468-70.
Xie L, Dong P, Qi Y, Hsieh T-HS, English BP, Jung S, Chen X, De Marzio M, Casellas R, Chang HY et al..  2022.  BRD2 compartmentalizes the accessible genome.. Nature Genetics. 54(4):481-491.
Mu Y, Narayan S, Mensh BD, Ahrens MB.  2020.  Brain-wide, scale-wide physiology underlying behavioral flexibility in zebrafish.. Current Opinion in Neurobiology. 64:151-160.
Chen X, Mu Y, Hu Y, Kuan AT, Nikitchenko M, Randlett O, Chen AB, Gavornik JP, Sompolinsky H, Engert F et al..  2018.  Brain-wide organization of neuronal activity and convergent sensorimotor transformations in larval zebrafish.. Neuron. 100(4):876-890.e5.
Ahrens MB, Li JM, Orger MB, Robson DN, Schier AF, Engert F, Portugues R.  2012.  Brain-wide neuronal dynamics during motor adaptation in zebrafish.. Nature. 485(7399):471-7.
Chen S, Liu Y, Wang Z, Colonell J, Liu LD, Hou H, Tien N-W, Wang T, Harris T, Druckmann S et al..  2023.  Brain-wide neural activity underlying memory-guided movement. bioRxiv.
Chen S, Liu Y, Wang ZAiden, Colonell J, Liu LD, Hou H, Tien N-W, Wang T, Harris T, Druckmann S et al..  2024.  Brain-wide neural activity underlying memory-guided movement.. Cell. 187(3):676-691.e16.
Mohar B, Grimm JB, Patel R, Brown TA, Tillberg P, Lavis LD, Spruston N, Svoboda K.  2022.  Brain-wide measurement of protein turnover with high spatial and temporal resolution. bioRxiv.
Dunn TW, Mu Y, Narayan S, Randlett O, Naumann EA, Yang C-T, Schier AF, Freeman J, Engert F, Ahrens MB.  2016.  Brain-wide mapping of neural activity controlling zebrafish exploratory locomotion.. eLife.
Vladimirov N, Wang C, Höckendorf B, Pujala A, Tanimoto M, Mu Y, Yang C-T, Wittenbach J, Freeman J, Preibisch S et al..  2018.  Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function.. Nature Methods. 15(12):1117-1125.
François A, Low SA, Sypek EI, Christensen AJ, Sotoudeh C, Beier KT, Ramakrishnan C, Ritola KD, Sharif-Naeini R, Deisseroth K et al..  2017.  A brainstem-spinal cord inhibitory circuit for mechanical pain modulation by GABA and Enkephalins.. Neuron. 93(4):822-39.
Yang E, Zwart MF, Rubinov M, James B, Wei Z, Narayan S, Vladimirov N, Mensh BD, Fitzgerald JE, Ahrens MB.  2022.  A brainstem integrator for self-localization and positional homeostasis. Cell. 185(26):5011-5027.e20.
Peng H, Chung P, Long F, Qu L, Jenett A, Seeds AM, Myers EW, Simpson JH.  2011.  BrainAligner: 3D registration atlases of Drosophila brains.. Nature Methods. 8:493-500.
Yoo J, Dombrovski M, Mirshahidi P, Nern A, LoCascio SA, S Zipursky L, Kurmangaliyev YZ.  2023.  Brain wiring determinants uncovered by integrating connectomes and transcriptomes.. Current Biology. 33(18):3998-3998.
Li Q, Gao Y, Li H, Liu H, Wang D, Pan W, Liu S, Xu Y.  2022.  Brain structure and synaptic protein expression alterations after antidepressant treatment in a Wistar-Kyoto rat model of depression.. Journal of Affective Disorders. 314:293-302.
Ji X, Ferreira T, Friedman B, Liu R, Liechty H, Bas E, Chandrashekar J, Kleinfeld D.  2021.  Brain microvasculature has a common topology with local differences in geometry that match metabolic load.. Neuron. 109(7):1168.