Bo Huang, PhD
Professor
Pharmaceutical Chemistry
School of Pharmacy

We are particularly interested in the following problems:

(1) Physical organization and dynamics of the genome, (2) Architecture of large protein complexes such as the centrosome, and (3) Spatial distribution of membrane proteins, particularly G-protein coupled receptors and neuron adhesion molecules, and how this distribution defines their signaling specificity.

In order to study these systems, we are developing the following microscopy technologies: (1) Super-resolution and light-sheet microscopes that can visualize subcellular structures at a higher spatial resolution, record long term cell behavior, and track cells in intact animals, and (2) New fluorescent probes based on fluorescent proteins, nanobodies and aptamers so that biological questions can be converted into "imageable" ones.

• High activity and high functional connectivity are mutually exclusive in resting state zebrafish and human brains.
  BMC biology 2022 Zarei M, Xie D, Jiang F, Bagirov A, Huang B, Raj A, Nagarajan S, Guo S
• In Vivo Dopamine Neuron Imaging-Based Small Molecule Screen Identifies Novel Neuroprotective Compounds and Targets.
  Frontiers in pharmacology 2022 Kim GJ, Mo H, Liu H, Okorie M, Chen S, Zheng J, Li H, Arkin M, Huang B, Guo S
• OpenCell: Endogenous tagging for the cartography of human cellular organization.
  Science (New York, N.Y.) 2022 Cho NH, Cheveralls KC, Brunner AD, Kim K, Michaelis AC, Raghavan P, Kobayashi H, Savy L, Li JY, Canaj H, Kim JYS, Stewart EM, Gnann C, McCarthy F, Cabrera JP, Brunetti RM, Chhun BB, Dingle G, Hein MY,…
• Image denoising for fluorescence microscopy by supervised to self-supervised transfer learning
  Optics Express 2021 Y. Wang, H. Pinkard, E. Khwaja, S. Zhou, L. Waller, B. Huang
• A zebrafish screen reveals Renin-angiotensin system inhibitors as neuroprotective via mitochondrial restoration in dopamine neurons.
  eLife 2021 Kim GJ, Mo H, Liu H, Wu Z, Chen S, Zheng J, Zhao X, Nucum D, Shortland J, Peng L, Elepano M, Tang B, Olson S, Paras N, Li H, Renslo AR, Arkin MR, Huang B, Lu B, Sirota M, Guo S
• A ciliopathy complex builds distal appendages to initiate ciliogenesis.
  The Journal of cell biology 2021 Kumar D, Rains A, Herranz-Pérez V, Lu Q, Shi X, Swaney DL, Stevenson E, Krogan NJ, Huang B, Westlake C, Garcia-Verdugo JM, Yoder BK, Reiter JF
• Label-retention expansion microscopy.
  The Journal of cell biology 2021 Shi X, Li Q, Dai Z, Tran AA, Feng S, Ramirez AD, Lin Z, Wang X, Chow TT, Chen J, Kumar D, McColloch AR, Reiter JF, Huang EJ, Seiple IB, Huang B
• Polarized endosome dynamics engage cytoplasmic Par-3 that recruits dynein during asymmetric cell division.
  Science advances 2021 Zhao X, Garcia JQ, Tong K, Chen X, Yang B, Li Q, Dai Z, Shi X, Seiple IB, Huang B, Guo S
• Kinase-mediated RAS signaling via membraneless cytoplasmic protein granules.
  Cell 2021 Tulpule A, Guan J, Neel DS, Allegakoen HR, Lin YP, Brown D, Chou YT, Heslin A, Chatterjee N, Perati S, Menon S, Nguyen TA, Debnath J, Ramirez AD, Shi X, Yang B, Feng S, Makhija S, Huang B, Bivona TG
• Versatile Labeling and Detection of Endogenous Proteins Using Tag-Assisted Split Enzyme Complementation.
  ACS chemical biology 2021 Makhija S, Brown D, Rudlaff RM, Doh JK, Bourke S, Wang Y, Zhou S, Cheloor-Kovilakam R, Huang B
• HP1 proteins compact DNA into mechanically and positionally stable phase separated domains.
  eLife 2021 Keenen MM, Brown D, Brennan LD, Renger R, Khoo H, Carlson CR, Huang B, Grill SW, Narlikar GJ, Redding S
• Spatial decoding of endosomal cAMP signals by a metastable cytoplasmic PKA network.
  Nature chemical biology 2021 Peng GE, Pessino V, Huang B, von Zastrow M
• Improved yellow-green split fluorescent proteins for protein labeling and signal amplification.
  PloS one 2020 Zhou S, Feng S, Brown D, Huang B
• Nanotopography Enhances Dynamic Remodeling of Tight Junction Proteins through Cytosolic Liquid Complexes.
  ACS nano 2020 Huang X, Shi X, Hansen ME, Setiady I, Nemeth CL, Celli A, Huang B, Mauro T, Koval M, Desai TA
• Neurotoxic microglia promote TDP-43 proteinopathy in progranulin deficiency.
  Nature 2020 Zhang J, Velmeshev D, Hashimoto K, Huang YH, Hofmann JW, Shi X, Chen J, Leidal AM, Dishart JG, Cahill MK, Kelley KW, Liddelow SA, Seeley WW, Miller BL, Walther TC, Farese RV, Taylor JP, Ullian EM, …
• A molecular mechanism for probabilistic bet hedging and its role in viral latency.
  Proceedings of the National Academy of Sciences of the United States of America 2020 Chaturvedi S, Klein J, Vardi N, Bolovan-Fritts C, Wolf M, Du K, Mlera L, Calvert M, Moorman NJ, Goodrum F, Huang B, Weinberger LS
• Bright split red fluorescent proteins for the visualization of endogenous proteins and synapses.
  Communications biology 2019 Feng S, Varshney A, Coto Villa D, Modavi C, Kohler J, Farah F, Zhou S, Ali N, Müller JD, Van Hoven MK, Huang B
• Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity.
  eLife 2019 Alexander JM, Guan J, Li B, Maliskova L, Song M, Shen Y, Huang B, Lomvardas S, Weiner OD
• Epi-illumination SPIM for volumetric imaging with high spatial-temporal resolution.
  Nature methods 2019 Yang B, Chen X, Wang Y, Feng S, Pessino V, Stuurman N, Cho NH, Cheng KW, Lord SJ, Xu L, Xie D, Mullins RD, Leonetti MD, Huang B
• The Extracellular RNA Communication Consortium: Establishing Foundational Knowledge and Technologies for Extracellular RNA Research.
  Cell 2019 Das S, Extracellular RNA Communication Consortium, Ansel KM, Bitzer M, Breakefield XO, Charest A, Galas DJ, Gerstein MB, Gupta M, Milosavljevic A, McManus MT, Patel T, Raffai RL, Rozowsky J, Roth ME, …
• Deformed alignment of super-resolution images for semi-flexible structures.
  PloS one 2019 Shi X, Garcia G, Wang Y, Reiter JF, Huang B
• Multicolor fluorescent imaging by space-constrained computational spectral imaging.
  Optics express 2019 Wang Y, Yang B, Feng S, Pessino V, Huang B
• Efficient labeling and imaging of protein-coding genes in living cells using CRISPR-Tag.
  Nature communications 2018 Chen B, Zou W, Xu H, Liang Y, Huang B
• Local enrichment of HP1alpha at telomeres alters their structure and regulation of telomere protection.
  Nature communications 2018 Chow TT, Shi X, Wei JH, Guan J, Stadler G, Huang B, Blackburn EH
• A LINE1-Nucleolin Partnership Regulates Early Development and ESC Identity.
  Cell 2018 Percharde M, Lin CJ, Yin Y, Guan J, Peixoto GA, Bulut-Karslioglu A, Biechele S, Huang B, Shen X, Ramalho-Santos M
• Autoinhibition of kinesin-1 is essential to the dendrite-specific localization of Golgi outposts.
  The Journal of cell biology 2018 Kelliher MT, Yue Y, Ng A, Kamiyama D, Huang B, Verhey KJ, Wildonger J
• Co-translational protein targeting facilitates centrosomal recruitment of PCNT during centrosome maturation in vertebrates.
  eLife 2018 Sepulveda G, Antkowiak M, Brust-Mascher I, Mahe K, Ou T, Castro NM, Christensen LN, Cheung L, Jiang X, Yoon D, Huang B, Jao LE
• Correlation analysis framework for localization-based superresolution microscopy.
  Proceedings of the National Academy of Sciences of the United States of America 2018 Schnitzbauer J, Wang Y, Zhao S, Bakalar M, Nuwal T, Chen B, Huang B
• 2-Hydroxyglutarate-Mediated Autophagy of the Endoplasmic Reticulum Leads to an Unusual Downregulation of Phospholipid Biosynthesis in Mutant IDH1 Gliomas.
  Cancer research 2018 Viswanath P, Radoul M, Izquierdo-Garcia JL, Ong WQ, Luchman HA, Cairncross JG, Huang B, Pieper RO, Phillips JJ, Ronen SM
• The centrosomin CM2 domain is a multi-functional binding domain with distinct cell cycle roles.
  PloS one 2018 Citron YR, Fagerstrom CJ, Keszthelyi B, Huang B, Rusan NM, Kelly MJS, Agard DA
• Improved split fluorescent proteins for endogenous protein labeling.
  Nature communications 2017 Feng S, Sekine S, Pessino V, Li H, Leonetti MD, Huang B
• Super-resolution microscopy reveals that disruption of ciliary transition-zone architecture causes Joubert syndrome.
  Nature cell biology 2017 Shi X, Garcia G, Van De Weghe JC, McGorty R, Pazour GJ, Doherty D, Huang B, Reiter JF
• High-NA open-top selective-plane illumination microscopy for biological imaging.
  Optics express 2017 Mcgorty R, Xie D, Huang B
• Covalent Protein Labeling by SpyTag-SpyCatcher in Fixed Cells for Super-Resolution Microscopy.
  Chembiochem : a European journal of chemical biology 2017 Pessino V, Citron YR, Feng S, Huang B
• Functional selectivity of GPCR-directed drug action through location bias.
  Nature chemical biology 2017 Irannejad R, Pessino V, Mika D, Huang B, Wedegaertner PB, Conti M, von Zastrow M
• Tracking Multiple Genomic Elements Using Correlative CRISPR Imaging and Sequential DNA FISH.
  Biophysical journal 2017 Guan J, Liu H, Shi X, Feng S, Huang B
• EGF and NRG induce phosphorylation of HER3/ERBB3 by EGFR using distinct oligomeric mechanisms.
  Proceedings of the National Academy of Sciences of the United States of America 2017 van Lengerich B, Agnew C, Puchner EM, Huang B, Jura N
• Live Cell Imaging of Endogenous mRNA Using RNA-Based Fluorescence "Turn-On" Probe.
  ACS chemical biology 2016 Ong WQ, Citron YR, Sekine S, Huang B
• A microscopic view of the cell.
  Molecular biology of the cell 2016 Huang B
• A High-Content Larval Zebrafish Brain Imaging Method for Small Molecule Drug Discovery.
  PloS one 2016 Liu H, Chen S, Huang K, Kim J, Mo H, Iovine R, Gendre J, Pascal P, Li Q, Sun Y, Dong Z, Arkin M, Guo S, Huang B
• Identification of environmental stressors and validation of light preference as a measure of anxiety in larval zebrafish.
  BMC neuroscience 2016 Bai Y, Liu H, Huang B, Wagle M, Guo S
• A scalable strategy for high-throughput GFP tagging of endogenous human proteins.
  Proceedings of the National Academy of Sciences of the United States of America 2016 Leonetti MD, Sekine S, Kamiyama D, Weissman JS, Huang B
• Imaging Specific Genomic DNA in Living Cells.
  Annual review of biophysics 2016 Chen B, Guan J, Huang B
• Versatile protein tagging in cells with split fluorescent protein.
  Nature communications 2016 Kamiyama D, Sekine S, Barsi-Rhyne B, Hu J, Chen B, Gilbert LA, Ishikawa H, Leonetti MD, Marshall WF, Weissman JS, Huang B
• Force Feedback Controls Motor Activity and Mechanical Properties of Self-Assembling Branched Actin Networks.
  Cell 2016 Bieling P, Li TD, Weichsel J, McGorty R, Jreij P, Huang B, Fletcher DA, Mullins RD
• Expanding the CRISPR imaging toolset with Staphylococcus aureus Cas9 for simultaneous imaging of multiple genomic loci.
  Nucleic acids research 2016 Chen B, Hu J, Almeida R, Liu H, Balakrishnan S, Covill-Cooke C, Lim WA, Huang B
• Specification of Dendritogenesis Site in Drosophila aCC Motoneuron by Membrane Enrichment of Pak1 through Dscam1.
  Developmental cell 2015 Kamiyama D, McGorty R, Kamiyama R, Kim MD, Chiba A, Huang B
• Heavy water: a simple solution to increasing the brightness of fluorescent proteins in super-resolution imaging.
  Chemical communications (Cambridge, England) 2015 Ong WQ, Citron YR, Schnitzbauer J, Kamiyama D, Huang B
• Biogenesis, delivery, and function of extracellular RNA.
  Journal of extracellular vesicles 2015 Patton JG, Franklin JL, Weaver AM, Vickers K, Zhang B, Coffey RJ, Ansel KM, Blelloch R, Goga A, Huang B, L'Etoille N, Raffai RL, Lai CP, Krichevsky AM, Mateescu B, Greiner VJ, Hunter C, Voinnet O, …
• Open-top selective plane illumination microscope for conventionally mounted specimens.
  Optics express 2015 McGorty R, Liu H, Kamiyama D, Dong Z, Guo S, Huang B
• Single molecule techniques--applications in biology.
  FEBS letters 2014 Puchner EM, Huang B, Gaub HE
• Localization events-based sample drift correction for localization microscopy with redundant cross-correlation algorithm.
  Optics express 2014 Wang Y, Schnitzbauer J, Hu Z, Li X, Cheng Y, Huang ZL, Huang B
• Surface-chemistry effect on cellular response of luminescent plasmonic silver nanoparticles.
  Bioconjugate chemistry 2014 Sun S, Zhou C, Chen S, Liu J, Yu J, Chilek J, Zhao L, Yu M, Vinluan R, Huang B, Zheng J
• Correction of depth-dependent aberrations in 3D single-molecule localization and super-resolution microscopy.
  Optics letters 2014 McGorty R, Schnitzbauer J, Zhang W, Huang B
• Imaging genomic elements in living cells using CRISPR/Cas9.
  Methods in enzymology 2014 Chen B, Huang B
• Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system.
  Cell 2013 Chen B, Gilbert LA, Cimini BA, Schnitzbauer J, Zhang W, Li GW, Park J, Blackburn EH, Weissman JS, Qi LS, Huang B
• Amorphous no more: subdiffraction view of the pericentriolar material architecture.
  Trends in cell biology 2013 Mennella V, Agard DA, Huang B, Pelletier L
• Counting molecules in single organelles with superresolution microscopy allows tracking of the endosome maturation trajectory.
  Proceedings of the National Academy of Sciences of the United States of America 2013 Puchner EM, Walter JM, Kasper R, Huang B, Lim WA
• 4Pi fluorescence detection and 3D particle localization with a single objective.
  Optics express 2013 Schnitzbauer J, McGorty R, Huang B
• TMEM16C facilitates Na(+)-activated K+ currents in rat sensory neurons and regulates pain processing.
  Nature neuroscience 2013 Huang F, Wang X, Ostertag EM, Nuwal T, Huang B, Jan YN, Basbaum AI, Jan LY
• Active Microscope Stabilization in Three Dimensions Using Image Correlation.
  Optical nanoscopy 2013 McGorty R, Kamiyama D, Huang B
• Conformational biosensors reveal GPCR signalling from endosomes.
  Nature 2013 Irannejad R, Tomshine JC, Tomshine JR, Chevalier M, Mahoney JP, Steyaert J, Rasmussen SG, Sunahara RK, El-Samad H, Huang B, von Zastrow M
• Single cell optical imaging and spectroscopy.
  Chemical reviews 2013 Stender AS, Marchuk K, Liu C, Sander S, Meyer MW, Smith EA, Neupane B, Wang G, Li J, Cheng JX, Huang B, Fang N
• Development in the STORM.
  Developmental cell 2012 Kamiyama D, Huang B
• Subdiffraction-resolution fluorescence microscopy reveals a domain of the centrosome critical for pericentriolar material organization.
  Nature cell biology 2012 Mennella V, Keszthelyi B, McDonald KL, Chhun B, Kan F, Rogers GC, Huang B, Agard DA
• Super-resolution fluorescence imaging of organelles in live cells with photoswitchable membrane probes.
  Proceedings of the National Academy of Sciences of the United States of America 2012 Shim SH, Xia C, Zhong G, Babcock HP, Vaughan JC, Huang B, Wang X, Xu C, Bi GQ, Zhuang X
• Faster STORM using compressed sensing.
  Nature methods 2012 Zhu L, Zhang W, Elnatan D, Huang B
• Afadin, a Ras/Rap effector that controls cadherin function, promotes spine and excitatory synapse density in the hippocampus.
  The Journal of neuroscience : the official journal of the Society for Neuroscience 2012 Beaudoin GM, Schofield CM, Nuwal T, Zang K, Ullian EM, Huang B, Reichardt LF
• SnapShot: Light microscopy.
  Cell 2011 Kasper R, Huang B
• An in-depth view.
  Nature methods 2011 Huang B
• Breaking the diffraction barrier: super-resolution imaging of cells.
  Cell 2010 Huang B, Babcock H, Zhuang X
• Superresolution imaging of chemical synapses in the brain.
  Neuron 2010 Dani A, Huang B, Bergan J, Dulac C, Zhuang X
• Coupling between clathrin-dependent endocytic budding and F-BAR-dependent tubulation in a cell-free system.
  Nature cell biology 2010 Wu M, Huang B, Graham M, Raimondi A, Heuser JE, Zhuang X, De Camilli P
• New resolving power for light microscopy: applications to neurobiology.
  Current opinion in neurobiology 2010 Dani A, Huang B
• Super-resolution optical microscopy: multiple choices.
  Current opinion in chemical biology 2009 Huang B
• Super-resolution fluorescence microscopy.
  Annual review of biochemistry 2009 Huang B, Bates M, Zhuang X
• Whole-cell 3D STORM reveals interactions between cellular structures with nanometer-scale resolution.
  Nature methods 2008 Huang B, Jones SA, Brandenburg B, Zhuang X
• Super-resolution microscopy by nanoscale localization of photo-switchable fluorescent probes.
  Current opinion in chemical biology 2008 Bates M, Huang B, Zhuang X
• Three-dimensional super-resolution imaging by stochastic optical reconstruction microscopy.
  Science (New York, N.Y.) 2008 Huang B, Wang W, Bates M, Zhuang X
• Microfluidic separation and capture of analytes for single-molecule spectroscopy.
  Lab on a chip 2007 Kim S, Huang B, Zare RN
• Use of a mixture of n-dodecyl-beta-D-maltoside and sodium dodecyl sulfate in poly(dimethylsiloxane) microchips to suppress adhesion and promote separation of proteins.
  Analytical chemistry 2007 Huang B, Kim S, Wu H, Zare RN
• Multicolor super-resolution imaging with photo-switchable fluorescent probes.
  Science (New York, N.Y.) 2007 Bates M, Huang B, Dempsey GT, Zhuang X
• A monomeric G protein-coupled receptor isolated in a high-density lipoprotein particle efficiently activates its G protein.
  Proceedings of the National Academy of Sciences of the United States of America 2007 Whorton MR, Bokoch MP, Rasmussen SG, Huang B, Zare RN, Kobilka B, Sunahara RK
• Surface plasmon resonance imaging using a high numerical aperture microscope objective.
  Analytical chemistry 2007 Huang B, Yu F, Zare RN
• Counting low-copy number proteins in a single cell.
  Science (New York, N.Y.) 2007 Huang B, Wu H, Bhaya D, Grossman A, Granier S, Kobilka BK, Zare RN
• Controlling electroosmotic flow in poly(dimethylsiloxane) separation channels by means of prepolymer additives.
  Analytical chemistry 2006 Luo Y, Huang B, Wu H, Zare RN
• Generation of complex, static solution gradients in microfluidic channels.
  Journal of the American Chemical Society 2006 Wu H, Huang B, Zare RN
• Phospholipid biotinylation of polydimethylsiloxane (PDMS) for protein immobilization.
  Lab on a chip 2006 Huang B, Wu H, Kim S, Kobilka BK, Zare RN
• Construction of microfluidic chips using polydimethylsiloxane for adhesive bonding.
  Lab on a chip 2005 Wu H, Huang B, Zare RN
• Coating of poly(dimethylsiloxane) with n-dodecyl-beta-D-maltoside to minimize nonspecific protein adsorption.
  Lab on a chip 2005 Huang B, Wu H, Kim S, Zare RN
• Effect of bin time on the photon counting histogram for one-photon excitation.
  Chemphyschem : a European journal of chemical physics and physical chemistry 2005 Perroud TD, Huang B, Zare RN
• Photon counting histogram: one-photon excitation.
  Chemphyschem : a European journal of chemical physics and physical chemistry 2004 Huang B, Perroud TD, Zare RN
• Photon counting histogram for one-photon excitation.
  Chemphyschem : a European journal of chemical physics and physical chemistry 2003 Perroud TD, Huang B, Wallace MI, Zare RN
• Analysis of biomolecular interactions using a miniaturized surface plasmon resonance sensor.
  Analytical chemistry 2002 Whelan RJ, Wohland T, Neumann L, Huang B, Kobilka BK, Zare RN
• Fluorescence emission and absorption spectra of single Anabaena sp. strain PCC7120 cells.
  Photochemistry and photobiology 2002 Ying L, Huang X, Huang B, Xie J, Zhao J, Zhao XS