OpenSPIM: an open-access light-sheet microscopy platform

PG Pitrone, J Schindelin, L Stuyvenberg, S Preibisch…�- Nature�…, 2013 - nature.com
The analysis highlighted an important role of chemokine signaling in colorectal cancer
progression and revealed previously undiscovered dynamic gene-expression patterns that�…

PhenoRipper: software for rapidly profiling microscopy images

S Rajaram, B Pavie, LF Wu, SJ Altschuler�- Nature methods, 2012 - nature.com
Next we reanalyzed a data set (~ 105 three-channel images) whose scale and complexity is
representative of highthroughput screens, which typically require dedicated image analysis�…

Inducible mouse models of colon cancer for the analysis of sporadic and inflammation-driven tumor progression and lymph node metastasis

C Neufert, C Heichler, T Brabletz, K Scheibe…�- Nature�…, 2021 - nature.com
Despite advances in the detection and therapy of colorectal cancer (CRC) in recent years,
CRC has remained a major challenge in clinical practice. Although alternative methods for�…

ClearVolume: open-source live 3D visualization for light-sheet microscopy

LA Royer, M Weigert, U G�nther, N Maghelli, F Jug…�- Nature�…, 2015 - nature.com
To the Editor: Current state-of-the-art light-sheet microscopes rely on sophisticated control
software to perform the acquisition of gigabytes of image data per second over the course of�…

In vivo measurement of gene expression, angiogenesis and physiological function in tumors using multiphoton laser scanning microscopy

EB Brown, RB Campbell, Y Tsuzuki, L Xu…�- Nature medicine, 2001 - nature.com
Intravital microscopy coupled with chronic animal window models has provided stunning
insight into tumor pathophysiology, including gene expression, angiogenesis, cell adhesion�…

Reducing background fluorescence reveals adhesions in 3D matrices

KE Kubow, AR Horwitz�- Nature cell biology, 2011 - nature.com
To the editor: Adhesion complexes in cells growing on planar substrates have been studied
for over three decades. From these studies, several classes of adhesions have been�…

[HTML][HTML] Label-free colorectal cancer screening using deep learning and spatial light interference microscopy (SLIM)

JK Zhang, YR He, N Sobh, G Popescu�- APL photonics, 2020 - pubs.aip.org
Current pathology workflow involves staining of thin tissue slices, which otherwise would be
transparent, followed by manual investigation under the microscope by a trained pathologist�…

Pycro-Manager: open-source software for customized and reproducible microscope control

H Pinkard, N Stuurman, IE Ivanov, NM Anthony…�- Nature�…, 2021 - nature.com
To the Editor—Cutting-edge innovations in biological microscopy are increasingly blurring
the line between data acquisition and data analysis. Computational microscopy and�…

High-speed light-sheet microscopy for the in-situ acquisition of volumetric histological images of living tissue

KB Patel, W Liang, MJ Casper, V Voleti, W Li…�- Nature Biomedical�…, 2022 - nature.com
Histological examinations typically require the excision of tissue, followed by its fixation,
slicing, staining, mounting and imaging, with timeframes ranging from minutes to days. This�…

[HTML][HTML] Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples

N Vladimirov, FF Voigt, T Naert, GR Araujo…�- Nature�…, 2024 - nature.com
In 2015, we launched the mesoSPIM initiative, an open-source project for making light-sheet
microscopy of large cleared tissues more accessible. Meanwhile, the demand for imaging�…