Appion statistics

info info

Citations per year

info

Popular tool citations

chevron_left Image-analysis libraries Image segmentation chevron_right
info

Tool usage distribution map

Tool usage distribution map
info info

Associated diseases

Associated diseases
Want to access the full stats & trends on this tool?

Appion specifications

Information


Unique identifier OMICS_15599
Name Appion
Software type Pipeline/Workflow
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
Database management system MySQL
License Apache License version 2.0
Computer skills Medium
Version 3.3
Stability Stable
Source code URL http://emg.nysbc.org/redmine/projects/appion/files
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Gabriel Lander <>

Publications for Appion

Appion citations

 (98)
library_books

Structure of a cleavage independent HIV Env recapitulates the glycoprotein architecture of the native cleaved trimer

2018
PMCID: 5955915
PMID: 29769533
DOI: 10.1038/s41467-018-04272-y

[…] all of the collected frames were aligned prior to processing. ctf estimation was carried out using ctffind3, and particles were picked using an automated particle-picking program implemented in the appion software package. particles were stacked using a box size of 256 × 256 pixels at 1.31 å/pix in eman boxer.py via appion. three rounds of reference-free 2d classification were carried out using […]

library_books

Glycosylation of Human IgA Directly Inhibits Influenza A and Other Sialic Acid Binding Viruses

2018
PMCID: 5905402
PMID: 29617676
DOI: 10.1016/j.celrep.2018.03.027

[…] acquisition software leginon (), and images were acquired on a tietz 4k cmos detector at a magnification of 52,000× and a final pixel size of 2.05 ǻ. raw images were automatically uploaded into the appion database (). particles were individually picked from raw images using dog picker (), placed into a stack, and binned by 2. reference-free two-dimensional classification was done using […]

library_books

Rational design of a trispecific antibody targeting the HIV 1 Env with elevated anti viral activity

2018
PMCID: 5830440
PMID: 29491415
DOI: 10.1038/s41467-018-03335-4

[…] grids and stained with 2% uranyl formate. negative stain em images were taken on a 120 kv tecnai spirit microscope with a lab6 filament. raw micrographs were collected using leginon and deposited in appion. dog picker was performed to select particles in stain. those particles were stacked and aligned using iterative msa/mra. 2d classes representing the complex are shown in fig. […]

library_books

Initiation, extension, and termination of RNA synthesis by a paramyxovirus polymerase

2018
PMCID: 5823471
PMID: 29425244
DOI: 10.1371/journal.ppat.1006889

[…] image acquisition software package leginon []. the images were acquired at a nominal underfocus of -0.9 μm to -1.8 μm and electron doses of ~25 e-/å2., image processing was performed using the appion software package[]. contrast transfer functions of the images were corrected using ctffind4 []. individual particles in the 67,000× images were selected using automated picking protocols […]

library_books

The peroxisomal AAA ATPase Pex1/Pex6 unfolds substrates by processive threading

2018
PMCID: 5762779
PMID: 29321502
DOI: 10.1038/s41467-017-02474-4

[…] and a nominal defocus range between 0.5 and 1.5 µm., a total of 1097 micrographs were collected for the complex. initial steps of data processing and 2d analyses were performed using the appion image processing pipeline. the contrast transfer function (ctf) of each micrograph was determined using ctffind v3 implemented within appion. particles were selected from micrographs using […]

library_books

Fab based inhibitors reveal ubiquitin independent functions for HIV Vif neutralization of APOBEC3 restriction factors

2018
PMCID: 5773222
PMID: 29304101
DOI: 10.1371/journal.ppat.1006830

[…] to have a mean of 0 and a standard deviation of 1. particles were subject to two-dimensional classification using relion []. for 3d reconstruction experimental data were processed using the appion software package [], which interfaces with the leginon database infrastructure. the contrast transfer function for each micrograph was estimated using ctffind4 []. initial particle picking […]


Want to access the full list of citations?
Appion institution(s)
National Resource for Automated Molecular Microscopy, The Scripps Institute, La Jolla, CA, USA; Institute of Molecular Biophysics, Department of Chemistry and Biochemistry, Florida State University, Tallahasse, FL, USA
Appion funding source(s)
This project was primarily funded by grants from the National Institutes of Health (NIH) through the National Center for Research Resources’ P41 program (grants RR17573, RR023093), and additionally by a fellowship from the ARCS foundation.

Appion reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Appion