Google Scholar Profile
  1. An interactive framework for whole-brain maps at cellular resolution.
    Fürth D, Vaissière T, Tzortzi O, Xuan Y, Märtin A, Lazaridis I, Spigolon G, Fisone G, Tomer R, Deisseroth K, Carlén M, Miller CA, Rumbaugh G, Meletis K
    Nature Neuroscience. Dec 04, 2017. doi:10.1038/s41593-017-0027-7. [ Link ]
  2. Whole-tissue biopsy phenotyping of three-dimensional tumours reveals patterns of cancer heterogeneity.
    Tanaka N, Kanatani S, Tomer R, Sahlgren C, Kronqvist P , Kaczynska D, Louhivuori L, Kis L,  Lindh C, Mitura P, Stepulak A , Corvigno S, Hartman J, Micke P, Mezheyeuski A, Strell C, Carlson JW , Fernández C, Dahlstrand H, Östman A, Matsumoto K, Wiklund P, Oya M, Miyakawa A, Deisseroth K, Uhlén P.
    Nature Biomedical Engg. Oct 02, 2017 AOP. doi:10.1038/s41551-017-0139-0. [ Link ]
  3. Light Sheet Theta Microscopy for High-resolution Quantitative Imaging of Large Biological Systems.
    Migliori B, Datta MS, Apak MC, Tomer R.
    bioRxiv 119289, Mar 22, 2017; doi: https://doi.org/10.1101/119289. [ bioRxiv link ] Updated: Light Sheet Theta Microscopy for High-resolution Quantitative Imaging of Large Biological Systems.
    Migliori B, Datta MS, Dupre C, Apak MC, Asano S, Gao R, Boyden ES, Hermanson O, Yuste R, Tomer R.
    bioRxiv 119289, Aug 30, 2017; doi: https://doi.org/10.1101/119289. [ bioRxiv link ]
  4. CLARITY reveals dynamics of ovarian follicular architecture and vasculature in three-dimensions.
    Feng Y, Cui P, Lu X, Hsueh B, Möller Billig F, Zarnescu Yanez L, Tomer R, Boerboom D, Carmeliet P, Deisseroth K, Hsueh AJ.
    Sci Rep. 2017 Mar 23;7:44810. doi:10.1038/srep44810. [ Link ]
  5. Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes.
    Romanov RA, Zeisel A, Bakker J, Girach F, Hellysaz A, Tomer R, Alpár A, Mulder J, Clotman F, Keimpema E, Hsueh B, Crow AK, Martens H, Schwindling C, Calvigioni D, Bains JS, Máté Z, Szabó G, Yanagawa Y, Zhang M, Rendeiro A, Farlik M, Uhlén M, Wulff P, Bock C, Broberger C, Deisseroth D, Hökfelt T, Linnarsson S, Horvath TL, Harkany T.
    Nature Neuroscience, AOP (19 Dec 2016). doi:10.1038/nn.4462 [ Pdf ]

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  6. Advanced light microscopy enables rapid mapping of brain structure and function in high resolution.
    Migliori B, Datta MS, Tomer R.
    Laser Focus World, 52, 12, 47-52 (Dec. 2016). [Link] [Pdf] [High-res Fig01Fig02, Fig03, Fig04, Fig05]
  7. SPED light sheet microscopy: fast mapping of biological system structure and function.
    Tomer R, Lovett-Barron M, Kauvar I, Andalman A, Burns VM, Sethuraman S, Grosenick L, Broxton M, Yang S, Deisseroth K.
    Cell. Dec 17, 2015. [ Pdf ]
  8. Intact-Brain Analyses Reveal Distinct Information Carried by SNc Dopamine Subcircuits.
    Lerner TN, Shilyansky C, Davidson TJ, Evans KE, Beier KT, Zalocusky KA, Crow AK, Malenka R, Luo L, Tomer R, Deisseroth K.
    Cell. Jul 30, 2015. [ Pdf ]
  9. Rapid High-resolution Brain Mapping with CLARITY Optimized Light Sheet Microscopy (COLM).
    Tomer R, Deisseroth K.
    Microscopy and Microanalysis. 21(Suppl. 3), pp717-718, 2015. [ Pdf ]
  10. Identifying cell types from spatially referenced single-cell expression datasets.
    Pettit J*, Tomer R*, Achim K, Richardson S, Azizi L, Marioni J.
    PLoS Comp. Bio. Sep 25, 2014. * equal contributions [ Pdf ]
  11. Development of the annelid axochord: insights into notochord evolution.
    Lauri A, Brunet T, Handberg-Thorsager M, Fischer AHL, Simakov O, Steinmetz PRH, Tomer R, Keller PJ, and Arendt D.
    Science. Sep 12, 2014. [ Pdf ]
  12. Advanced CLARITY Methods for Rapid and High-Resolution Imaging of Intact Tissues.
    Tomer R, Deisseroth K.
    SfN 2014. [ Pdf ]
  13. Advanced CLARITY for rapid and high-resolution imaging of large intact tissues.
    Tomer R, Ye L, Hseuh B, Lei A, Deisseroth K.
    Nature Protocols. Jul, 2014. [ Pdf ]
  14. Neuronal calcium-binding proteins 1/2 localize to dorsal root ganglia and excitatory spinal neurons and are regulated by nerve injury.
    Zhang MD, Tortoriello G, Hsueh B, Tomer R, Ye L, Mitsios N, Borgius L, Grant G, Kiehn O, Watanabe M, Uhlen M, Mulder J, Deisseroth K, Harkany T, Hoekfelt TG.
    Proc Natl Acad Sci USA. Mar 10, 2014. [ Pdf ]
  15. Larval body patterning and apical organs are conserved in animal evolution.
    Marlow H, Tosches MA, Tomer R, Steinmetz PR, Lauri A, Larsson T, Arendt D.
    BMC Biology. Jan 29, 2014. [ Pdf ]
  16. Quantitative High-Speed Imaging of Entire Developing Embryos with Simultaneous Multi-View Light Sheet Microscopy.
    Tomer R, Khairy K, Amat F, Keller PJ.
    Nature Methods. July, 2012. [ Pdf ]
  17. A computational statistics approach for estimating the spatial range of morphogen gradients.
    Kanodia JS, Kim Y, Tomer R, Khan Z, Chung K, Storey JD, Lu H, Keller PJ, Shvartsman SY.
    Development. Nov, 2011. [ Pdf ]
  18. Shedding light on the system: studying embryonic development with light sheet microscopy.
    Tomer R*, Khairy K, Keller PJ*.
    Curr Opin Genet Dev. Oct, 2011. *Co-Corresponding authors. [ Pdf ]
  19. Profiling by image registration reveals common origin of annelid mushroom bodies and vertebrate pallium.
    Tomer R*, Denes AS, Tessmar-Raible K, Arendt D*.
    Cell. Sep 3, 2010. *Co-Corresponding authors. [ Pdf ]
  20. Ancient animal microRNAs and the evolution of tissue identity.
    Christodoulou F, Raible F, Tomer R, Simakov O, Trachana K, Klaus S, Snyman H, Hannon GJ, Bork P, Arendt D.
    Nature. Feb 25, 2010. [ Pdf ]
  21. Pre-PhD work
  22. A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome.
    Pfeiffer V, Sittka A, Tomer R, Tedin K, Brinkmann V, Vogel J.
    Mol Microbiol. Oct 29, 2007. [ Pdf ]
  23. A physicochemical model for analyzing DNA sequences.
    Dutta S*, Singhal P*, Agrawal P*, Tomer R*, Kritee K*, Khurana E, Jayaram B.
    J Chem Inf Model. 2006. * equal contributions [ Pdf ]
  24. Tumor-associated E-cadherin mutations do not induce Wnt target gene expression, but affect E-cadherin repressors.
    Laux H, Tomer R, Mader MT, Smida J, Budczies J, Kappler R, Hahn H, Bloechinger M, Schnitzbauer U, Eckardt-Schupp F, Hoefler H, Becker KF.
    Lab Invest. Aug 16, 2004. [ Pdf ]
  25. Different mechanisms of cyclin D1 overexpression in multiple myeloma revealed by fluorescence in situ hybridization and quantitative analysis of mRNA levels.
    Specht K, Haralambieva E, Bink K, Kremer M, Mandl-Weber S, Koch I, Tomer R, Hofler H, Schuuring E, Kluin PM, Fend F, Quintanilla-Martinez L.
    Blood. Aug 15, 2004. [ Pdf ]