Journal ArticleDOI
High-throughput fluorescence microscopy for systems biology
Rainer Pepperkok,Jan Ellenberg +1 more
TLDR
Fluorescence microscopy is making the transition to a quantitative and high-throughput technology to enable these techniques to be applied to functional genomics experiments.Abstract:
Fluorescence microscopy is a powerful tool to assay biological processes in intact living cells. Now, fluorescence microscopy is becoming a quantitative and high-throughput technology that can be applied to functional genomics experiments and can provide data for systems-biology approaches. In this post-genomic era, we need to define gene function on a genome-wide scale for model organisms and humans. The fundamental unit of biological processes is the cell. Among the most powerful tools to assay such processes in the physiological context of intact living cells are fluorescence microscopy and related imaging techniques. To enable these techniques to be applied to functional genomics experiments, fluorescence microscopy is making the transition to a quantitative and high-throughput technology.read more
Citations
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Journal ArticleDOI
Highly fluorescent semiconducting polymer dots for biology and medicine.
Changfeng Wu,Daniel T. Chiu +1 more
TL;DR: Recent findings of the photophysical properties of Pdots which speak to the merits of these entities as fluorescent labels are summarized and the relationship between the physical properties and performance is discussed.
Journal ArticleDOI
Miniaturized integration of a fluorescence microscope
Kunal K. Ghosh,Laurie D. Burns,Eric D. Cocker,Axel Nimmerjahn,Yaniv Ziv,Abbas El Gamal,Mark J. Schnitzer,Mark J. Schnitzer +7 more
TL;DR: A miniature (1.9 g) integrated fluorescence microscope made from mass-producible parts, including a semiconductor light source and sensor enables high-speed cellular imaging across ∼0.5 mm2 areas in active mice and allows concurrent tracking of Ca2+ spiking in >200 Purkinje neurons across nine cerebellar microzones.
Journal ArticleDOI
BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals.
Ina Poser,Mihail Sarov,Mihail Sarov,James R. A. Hutchins,Jean-Karim Hériché,Yusuke Toyoda,Andrei Pozniakovsky,Daniela Weigl,Anja Nitzsche,Björn Hegemann,Alexander W. Bird,Laurence Pelletier,Laurence Pelletier,Ralf Kittler,Ralf Kittler,Sujun Hua,Ronald Naumann,Martina Augsburg,Martina M. Sykora,Helmut Hofemeister,Youming Zhang,Kim Nasmyth,Kevin P. White,Steffen Dietzel,Karl Mechtler,Richard Durbin,A. Francis Stewart,Jan-Michael Peters,Frank Buchholz,Anthony A. Hyman +29 more
TL;DR: A fast and reliable pipeline to study protein function in mammalian cells based on protein tagging in bacterial artificial chromosomes (BACs) is described and it is shown that BAC transgenes can be rapidly and reliably generated using 96-well-format recombineering.
Journal ArticleDOI
Dynamic proteomics of individual cancer cells in response to a drug.
Ariel Cohen,Naama Geva-Zatorsky,Eran Eden,Milana Frenkel-Morgenstern,Irina Issaeva,Alex Sigal,Ron Milo,Cellina Cohen-Saidon,Yuvalal Liron,Zvi Kam,Lydia Cohen,Tamar Danon,Natalie Perzov,Uri Alon +13 more
TL;DR: A dynamic-proteomics approach is presented that measures the levels and locations of nearly 1000 different endogenously tagged proteins in individual living cells at high temporal resolution, and identifies proteins whose dynamics differ widely between cells, in a way that corresponds to the outcomes—cell death or survival.
Journal ArticleDOI
Stochastic modelling for quantitative description of heterogeneous biological systems
TL;DR: Stochastic models are being used increasingly in preference to deterministic models to describe biochemical network dynamics at the single-cell level to adequately describe observed noise, variability and heterogeneity of biological systems over a range of scales of biological organization.
References
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BookDOI
Handbook of biological confocal microscopy
TL;DR: Methods for Three-Dimensional Imaging and Tutorial on Practical Confocal Microscopy and Use of the Confocal Test Specimen.
Journal ArticleDOI
Finishing the euchromatic sequence of the human genome
Chris P. Ponting,Daniel Barker +1 more
TL;DR: The current human genome sequence (Build 35) as discussed by the authors contains 2.85 billion nucleotides interrupted by only 341 gaps and is accurate to an error rate of approximately 1 event per 100,000 bases.
Patent
High throughput screen
TL;DR: In this paper, a high throughput screen for determining the effect of test compounds on ion channel or transporter activity was proposed, and a method for monitoring ion channel activity in a membrane.
Journal ArticleDOI
A Lentiviral RNAi Library for Human and Mouse Genes Applied to an Arrayed Viral High-Content Screen
Jason Moffat,Dorre A. Grueneberg,Xiaoping Yang,So Young Kim,So Young Kim,Angela M. Kloepfer,Gregory Hinkle,Gregory Hinkle,Bruno Piqani,Thomas Eisenhaure,Biao Luo,Jennifer K. Grenier,Anne E. Carpenter,Shi Yin Foo,Sheila A. Stewart,Brent R. Stockwell,Nir Hacohen,Nir Hacohen,William C. Hahn,William C. Hahn,Eric S. Lander,David M. Sabatini,David M. Sabatini,David E. Root +23 more
TL;DR: A screen based on high-content imaging was developed to identify genes required for mitotic progression in human cancer cells and applied to an arrayed set of 5,000 unique shRNA-expressing lentiviruses that target 1,028 human genes, providing a widely applicable resource for loss-of-function screens.
Journal ArticleDOI
Small Molecule Inhibitor of Mitotic Spindle Bipolarity Identified in a Phenotype-Based Screen
Thomas U. Mayer,Tarun M. Kapoor,Stephen J. Haggarty,Stephen J. Haggarty,Randall W. King,Stuart L. Schreiber,Stuart L. Schreiber,Timothy J. Mitchison +7 more
TL;DR: In vitro, monastrol specifically inhibited the motility of the mitotic kinesin Eg5, a motor protein required for spindle bipolarity, and will therefore be a particularly useful tool for studying mitotic mechanisms.