Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy

J.M. de la Rosa-Trevín, Adrián Quintana, Laura del Caño, +17

Journal of Structural Biology

Electron MicroscopyMicroscopyMicroscopy MethodScanning Probe MicroscopyBiomedical Imaging +5

A pattern matching approach to the automatic selection of particles from low-contrast electron micrographs

Vahid Abrishami, A. Zaldívar-Peraza, J.M. de la Rosa-Trevín, +6

Bioinformatics

Tox_(R)CNN: Deep learning-based nuclei profiling tool for drug toxicity screening

Daniel Jiménez‐Carretero, Vahid Abrishami, Laura Fernández-de-Manúel, +5

PLoS Computational Biology

Convolutional Neural NetworkDrug TargetEngineeringMachine LearningNuclei Images +26

Alignment of direct detection device micrographs using a robust Optical Flow approach

Vahid Abrishami, Javier Vargas, Xueming Li, +4

Journal of Structural Biology

Machine VisionImage AnalysisEngineeringMicroscopyMicroscope Image Processing +7

Fast and accurate conversion of atomic models into electron density maps

Carlos Óscar S. Sorzano, Javier Vargas, Vahid Abrishami, +6

AIMS Biophysics

Electron ScatteringEngineeringMicroscopyMolecular BiologyElectron Diffraction +19

Structures of Human Peroxiredoxin 3 Suggest Self-Chaperoning Assembly that Maintains Catalytic State

N. Amy Yewdall, Hariprasad Venugopal, Ambroise Desfosses, +7

Structure

BiochemistryProtein AssemblyProtein FoldingMaintains Catalytic StateNatural Sciences +8

Particle quality assessment and sorting for automatic and semiautomatic particle-picking techniques

Javier Vargas, Vahid Abrishami, R. Marabini, +4

Journal of Structural Biology

Particle Quality AssessmentSemiautomatic Particle-picking TechniquesParticle MethodParticle TechnologyOptical Particle Sizing +1

A statistical approach to the initial volume problem in Single Particle Analysis by Electron Microscopy

Carlos Óscar S. Sorzano, Javier Vargas, J.M. de la Rosa-Trevín, +6

Journal of Structural Biology

EngineeringElectron MicroscopyPhysicsMicroscopyNumerical Simulation +10

Signal peptide mimicry primes Sec61 for client-selective inhibition

Shahid Rehan, Dale Tranter, Phillip P. Sharp, +18

Nature Chemical Biology

A fast iterative convolution weighting approach for gridding-based direct Fourier three-dimensional reconstruction with correction for the contrast transfer function

Vahid Abrishami, J.R. Bilbao-Castro, Javier Vargas, +3

Ultramicroscopy

Fast Iterative ConvolutionImage ReconstructionRadiologyImage AnalysisMedical Imaging +10