Automated De Novo Identification of Repeat Sequence Families in Sequenced Genomes

Zhirong Bao, Sean R. Eddy

Genome Research

The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics

Lincoln Stein, Zhirong Bao, Darin Blasiar, +33

PLoS Biology

Comparative GenomicsGeneticsNematode GenomesMolecular GeneticsGenomics +18

Pack-MULE transposable elements mediate gene evolution in plants

Ning Jiang, Zhirong Bao, Xiaoyu Zhang, +2

Nature

Plant GeneticsGeneticsEvolutionary BiologyPlant ReproductionGenetic Variation +2

Fast, high-contrast imaging of animal development with scanned light sheet–based structured-illumination microscopy

Philipp Keller, Annette D. Schmidt, Anthony Santella, +4

Nature Methods

Tissue ImagingDevelopmental BiologyEngineeringMedical ImagingMicroscopy +11

An active DNA transposon family in rice

Ning Jiang, Zhirong Bao, Xiaoyu Zhang, +4

Nature

Plant GeneticsNatural SciencesGeneticsMolecular BiologyDna Replication +4

Automated cell lineage tracing in <i>Caenorhabditis elegans</i>

Zhirong Bao, John I. Murray, Thomas Boyle, +3

Proceedings of the National Academy of Sciences

Spatially isotropic four-dimensional imaging with dual-view plane illumination microscopy

Yicong Wu, Peter Wawrzusin, Justin Senseney, +10

Nature Biotechnology

EngineeringMicroscopyMicroscopy MethodBiomedical ImagingComputational Imaging +4

Inverted selective plane illumination microscopy ( <i>i</i> SPIM) enables coupled cell identity lineaging and neurodevelopmental imaging in <i>Caenorhabditis elegans</i>

Yicong Wu, Alireza Ghitani, Ryan Christensen, +6

Proceedings of the National Academy of Sciences

Dual-view plane illumination microscopy for rapid and spatially isotropic imaging

Abhishek Kumar, Yicong Wu, Ryan Christensen, +9

Nature Protocols

EngineeringMedical ImagingMicroscopyMicroscopy MethodMicroscope Image Processing +10

Automated analysis of embryonic gene expression with cellular resolution in C. elegans

John I. Murray, Zhirong Bao, Thomas J. Boyle, +6

Nature Methods

Cell LineageDevelopmental BiologyFunctional GenomicsComputational BiologyMorphogenesis +9