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SAFIR specifications


Unique identifier OMICS_33319
Alternative name Small-Angle scattering data FItting with Rigid bodies
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data A protein structure.
Input format PDB
Operating system Unix/Linux
Computer skills Advanced
Version 1.2
Stability Stable
Maintained Yes


No version available


  • person_outline Andreas Hofmann
  • person_outline Andrew Whitten

Publication for Small-Angle scattering data FItting with Rigid bodies

SAFIR citations


Axon Axon Interactions Regulate Topographic Optic Tract Sorting via CYFIP2 Dependent WAVE Complex Function

PMCID: 5855093
PMID: 29518358
DOI: 10.1016/j.neuron.2018.01.027

[…] ade transport in the 50 μm segment proximal to, and reaching, the growth cone was manually counted over the 10 min recording. For presentation clarity, images in B, 4C, E, and B were denoised with ND-SAFIR (). […]


RFA Guardian: Comprehensive Simulation of Radiofrequency Ablation Treatment of Liver Tumors

Sci Rep
PMCID: 5768804
PMID: 29335429
DOI: 10.1038/s41598-017-18899-2

[…] anner software solution for cryotherapy and its extension to RFA. Further applications for RFA treatment planning exist utilizing different parameters spaces exist; e.g. RF-Sim tool, MAXIO, Robio and SAFIR,. GoSmart also features RFA simulations, but focuses more on providing a testbed for developers of hardware and software components and offering a communication platform between clinical and tec […]


Efficacy of histology agnostic and molecularly driven HER2 inhibitors for refractory cancers

PMCID: 5839398
PMID: 29515767
DOI: 10.18632/oncotarget.24188

[…] ULTIPLI program should help in this direction.In addition to molecular screening programs, the access to targeted treatment should be reinforced in personalized medicine trials as suggested in SHIVA, SAFIR, MOSCATO and NCI-MATCH trials [, –]. Furthermore, for relatively frequent alterations across tumors such as ERBB2, umbrella or basket designs may be proposed such as in the Acsé programs in Fran […]


Impact of multi gene mutational profiling on clinical trial outcomes in metastatic breast cancer

Breast Cancer Res Treat
PMCID: 5847065
PMID: 29177603
DOI: 10.1007/s10549-017-4580-2

[…] had improved response rates, longer time to treatment failure (TTF), and longer survival than non-matched patients. However, only 16 patients in this study had MBC. In breast cancer-specific studies, SAFIR01 study used comparative genomic hybridization (CGH) array and Sanger sequencing to identify molecular alterations and match patients to targeted therapies []. Only 9% of patients matched to tar […]


A role for Tau protein in maintaining ribosomal DNA stability and cytidine deaminase deficient cell survival

Nat Commun
PMCID: 5612969
PMID: 28947735
DOI: 10.1038/s41467-017-00633-1

[…] roscope equipped with a piezoelectric translator (PIFOC; PI) using a×100 or ×63 objective, and were collected as a stack of 0.2 µm increments on the z-axis (Metamorph software; Molecular Devices). ND_Safir software was used for noise reduction. Images are presented as maximum intensity projections, generated with ImageJ software, from stacks deconvolved with an extension of Metamorph software. γ-H […]


Small‐molecule inhibition of MuRF1 attenuates skeletal muscle atrophy and dysfunction in cardiac cachexia

PMCID: 5700443
PMID: 28887874
DOI: 10.1002/jcsm.12233

[…] ) were incubated with reaction buffer (0.05 mol/L Tris–HCl, pH 8.0, 0.5 mmol/L EDTA) and the labelled peptide (40 μmol/L), with the kinetics of the reaction recorded using a spectrofluorometer (Tecan Safir 2, Tecan, Crailsheim, Germany) at an excitation of 380 nm and emission at 440 nm. Only the proportion of the reaction that could be inhibited by MG132 (20 μmol/L, Sigma, Taufkirchen, Germany) wa […]


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SAFIR institution(s)
Structural Chemistry Program, Eskitis Institute, Griffith University, Nathan, QLD, Australia; Faculty of Veterinary Science, The University of Melbourne, Parkville, VIC, Australia; Institute for Molecular Biosciences, University of Queensland, St Lucia, QLD, Australia
SAFIR funding source(s)
Supported by the National Health and Medical Research Council (1002898, 1044022) and the Australian Research Council (LE120100071, DP140100599); and an NHMRC Peter Doherty Fellowship (569864).

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