Scholler J, Jonsson J, Jordá-Siquier T, Gantar I, Batti L, Cheeseman BL, Pagès S, Sbalzarini IF, Lamy CM.
APR-native processing through pAPRica enables massive ClearScope datasets to be compressed, segmented and analyzed rapidly and accurately on standard hardware, supporting scalable whole-organ histopathology.... Read More
Dayton H, Kiss J, Wei M, Chauhan S, LaMarre E, Cornell WC, Morgan CJ, Janakiraman A, Min W, Tomer R, Price-Whelan A, Nirody JA, Dietrich LEP.
Aligned clonal architectures within P. aeruginosa biofilms define nutrient flow, metabolic zoning and antibiotic tolerance. Mutants with disrupted pili or O-antigen features lose this organization and exhibit heightened sensitivity to tobramycin.... Read More
Datta MS, Chen Y, Chauhan S, Zhang J, De La Cruz ED, Gong C, Tomer R.
Chronic ketamine induces widespread, region-specific changes in TH+ neurons and their projections, enhancing dopaminergic input to associative cortex while diminishing signaling to sensory and striatal regions.... Read More
Fay MG, Lang PJ, Denu DS, O'Connor NJ, Haydock B, Blaisdell J, Roussel N, Wilson A, Aronson SM, Angstman PJ, Gong C, Butola T, Devinsky O, Basu J, Tomer R, Glaser JR.
A fully integrated LSTM platform, ClearScope provides sub-cellular lateral resolution and uniform axial performance across large cleared specimens, independent of their XY dimensions. Automated index correction and guided scanning workflows support high-quality... Read More
Migliori B, Datta MS, Dupre C, Apak MC, Asano S, Gao R, Boyden ES, Hermanson O, Yuste R, Tomer R.
A non-orthogonal illumination design combined with synchronized light-sheet and focal-plane scanning allows LSTM to achieve deep, uniform, high-resolution imaging in large intact tissues, outperforming traditional LSFM in clarity and coverage.... Read More
Chen Y, Chauhan S, Gong C, Dayton H, Xu C, De La Cruz ED, Tsai YW, Datta MS, Rosoklija GB, Dwork AJ, Mann JJ, Boldrini M, Leong KW, Dietrich LEP, Tomer R.
A low-cost, modular LSFM system generates high-resolution single-pixel light sheets and supports scalable, multi-color imaging of cleared tissues, organoids, and live biofilms, matching the performance of commercial platforms.... Read More
Ryan MB, Girasole AE, Flores AJ, Twedell EL, McGregor MM, Brakaj R, Paletzki RF, Hnasko TS, Gerfen CR, Nelson AB.
A specific group of striatal direct-pathway neurons becomes hyperactive during levodopa-induced dyskinesia. Enhanced excitatory inputs and heightened D1 receptor sensitivity cause excessive firing, identifying a key circuit element that drives dyskinesia.... Read More
Eastwood BS, Hooks BM, Paletzki RF, O’Connor NJ, Glaser JR, Gerfen CR.
Serial-section images aligned to a reference atlas enables accurate, brain-wide quantification of labeled neurons and axons. Using automated detection and multistage registration, this approach yields high-precision whole-brain maps from standard histology.... Read More
Winter, C.C., Jacobi, A., Su, J. et al.
Single-nucleus sequencing, spatial transcriptomics, and whole-brain reconstructions reveal 76 distinct spinal-projecting neuron types. Defined by transcriptional signatures, anatomy, and physiology, these subclasses link molecular identity to specialized roles in descending motor control.... Read More
Tappan SJ, Eastwood BS, O’Connor N, Wang Q, Ng L, Feng D, Hooks BM, Gerfen CR, Hof PR, Schmitz C, Glaser JR.
NeuroInfo uses multi-stage 3D registration to align mouse brain sections to the Allen CCF v3 with expert-level accuracy. Tested across labs and imaging modalities, it provides a fast, objective, and reproducible solution for identifying brain regions. ... Read More