Cell biology graphic software

Oligo 7. Oligo 6. Primer D'Signer 1. Array Designer 4. Beacon Designer 7. Beacon Designer 5. Primer Analysis Software. FastPCR 6. OligoMaster 1. PerlPrimer v1. AmplifX 1. AutoDimer 1. MutaPrimer 1. ORFprimer 1. Java Application for automatical primer design. Primer Prim'er 5. PCR Analyzer v 1. Sequence Format Conversion.

SeqCorator 2. A powerful sketchpad to decorate your sequence. Visual Sequence Editor. ForCon 1. SeqVerter 2. GeneStudio Pro 2. RevComp 2. BioCocoa 2. APSC 1. Advanced Protein Sequence Converter. Readseq 2. DNAsmac 1. Sequence Manager And Converter. DataConvert 1. Fasta2MultiFasta v Convertrix 1. Phylogenetic Analysis. Phylogenetic Analysis Using Parsimony. Paup Windows Interface software. Phylip 3. TreeView 1. GeneTree 1.

NDE 0. TreeMap 1. Phyltools 1. Archaeopteryx 0. NJplot 2. MEGA 5. Molecular Evolutionary Genetics Analysis. TreeSAAP 3. Selection on Amino Acid Properties.

PAL 1. Analysis Library A Java library for molecular evolution and phylogenetics. Vanilla 1. SplitsTree 4. TCS 1. RDP 3b Recombination detection program.

FastME 1. T-REX 4. Tree and Reticulogram reconstruction. FSTAT 2. ProfDist 0. A tool for the construction of large phylogenetic trees based on profile distances. STC 1. Phylogenetic Visualization tool. PHASE 2. BAMBE 2. Bayesian Analysis in Molecular Biology and Evolution. MTgui 1.

Clann 3. Phylogenetic Independence 2. Jevtrace2 v3. NimbleTree 2. Phyl-O-Gen 1. BEAST 1. MESA 1. TreeJuxtaposer 2. Compare phylogenetic evolutionary trees interactively and automatically.

TreeExplorer 2. Genie 3. Genealogy Interval Explorer. Pebble v1. PhyloDraw 0. MrBayes 3. Network 4. PhyDE 0. Phylogenetic Data Editor. PRAP 2. CopyCat 1. Dendroscope 2. An interactive viewer for large phylogenetic trees. TreeGraph 2. A graphical editor for phylogenetic trees. SeqState 1. Primer design and sequence statistics for phylogenetic DNA data sets. CDTree 3. TreeDyn Dnamic graphics and annotations for phylogenetic or classification trees analyses. Baobab 3. An editor for large phylogenetic trees written in Java.

Bosque 1. A graphycal software to perform phylogenetic analyses. DoubleTree 0. An application for comparing two trees using coupled interaction. PoInTree 1. An application that allows to build, visualize and customize phylogenetic trees. A graphical viewer of phylogenetic trees. DensiTree 1. A program for qualitative analysis of sets of trees. Plasmid Map. NoeClone 2. Virtual cloning laboratory. Scientific software for the molecular biologist.

Visual Cloning 3. CloneMap 2. SimVector 4. ApE 1. A Plasmid Editor. BVTech Plasmid 4. DNA plasmid drawing software. Plasm 1. A plasmid drawing software. XPlasMap 0. Circular Genome Viewer. PlasmaDNA 1. Online Tools. PlasMapper 2.

Online Plasmid map drawing. Savvy v0. Draw plasmid map tool. Image Analysis. ImageTool IT 3. ImageJ 1. Java image processing program. Fiji An image processing package. Cross Checker 2. Band Leader 3. Image analysis software for Gel Electrophoresis samples.

Scion Image 4. Melanie Viewer 7. TotalLab QuantiScan 3. Engauge Digitizer 4. Graph Digitizer 2. Peak Explorer 2. Volocity LE 5. A feature-filled, user friendly software product, provided free of charge to scientists. GetData 2. Bersoft Image Measurement 6. DigitizeIt 1. CellC v1. Grid cell counter Display a grid over your image.

BioImageXD Beta r CoPlot 6. Program for making publication-quality 2D and 3D scientific graphs. Gel Analyzer TMAJ 3. GelQuest 2. Software for the analysis of DNA fingerprints. TinyQuant v1. A miniature utility for gel image analysis. V3D 2. AxonTracker 1. Sequence Alignment Analysis. Geneious 4. MACAW 2. Clustal W 2. FASTA GeneDoc 2. BLAST 2. Just try it, you will love it! True Romance from Edraw. Start Now. Super easy-to-use biology diagram software to draw biological diagrams and illustrations.

Start from high-quality biology diagram examples to facilitate your biology drawing. Free Download. Support to insert hyperlinks, attachments, and notes at one click. Abundant and exquisite built-in biology symbols and predesigned examples. Handy basic tools for auto layout and alignment. Versatile drawing tools to edit built-in elements or draw personalized biology symbols. Free Biology Mind Map Templates. Advances in cryo-electron tomography and subtomogram averaging and classification.

Kaplan, M. In situ imaging and structure determination of biomolecular complexes using electron cryo-tomography. Methods Mol. Turk, M. The promise and the challenges of cryo-electron tomography. FEBS Lett. Mahamid, J. Visualizing the molecular sociology at the HeLa cell nuclear periphery. Science , — Forster, F.

Structure determination in situ by averaging of tomograms. Methods Cell Biol. Bykov, Y. The structure of the COPI coat determined within the cell. Zhang, Y. Molecular architecture of the luminal ring of the Xenopus laevis nuclear pore complex. Cell Res. Pfeffer, S. Structure of the native Sec61 protein-conducting channel. Cassidy, C. CryoEM and computer simulations reveal a novel kinase conformational switch in bacterial chemotaxis signaling.

Dodonova, S. Natl Acad. USA , — Mattei, S. The structure and flexibility of conical HIV-1 capsids determined within intact virions. Dick, R. PLoS Pathog. Schur, F. Qu, K. Structure and architecture of immature and mature murine leukemia virus capsids.

USA , E—E In situ structure of an intact lipopolysaccharide-bound bacterial surface layer. Cell , — e Google Scholar. Tegunov, D. Multi-particle cryo-EM refinement with M visualizes ribosome-antibiotic complex at 3. Methods 18 , — Lucic, V. Cryo-electron tomography: the challenge of doing structural biology in situ. Cell Biol. Wan, W. Cryo-electron tomography and subtomogram averaging.

Methods Enzymol. Turonova, B. Heumann, J. Clustering and variance maps for cryo-electron tomography using wedge-masked differences. Nicastro, D. The molecular architecture of axonemes revealed by cryoelectron tomography. Chen, M. Convolutional neural networks for automated annotation of cellular cryo-electron tomograms. Methods 14 , — Galaz-Montoya, J. Single particle tomography in EMAN2. Alignment algorithms and per-particle CTF correction for single particle cryo-electron tomography.

Bharat, T. Advances in single-particle electron cryomicroscopy structure determination applied to sub-tomogram averaging. Structure 23 , — Castano-Diez, D. Dynamo: a flexible, user-friendly development tool for subtomogram averaging of cryo-EM data in high-performance computing environments.

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Structure 21 , — Classification of cryo-electron sub-tomograms using constrained correlation. Hrabe, T. PyTom: a python-based toolbox for localization of macromolecules in cryo-electron tomograms and subtomogram analysis.

Winkler, H. Himes, B. Methods 15 , — Liu, C. Structure 28 , — e Watanabe, R. Sutton, G. Assembly intermediates of orthoreovirus captured in the cell. Tan, T. Capsid protein structure in Zika virus reveals the flavivirus assembly process. Unchwaniwala, N. Subdomain cryo-EM structure of nodaviral replication protein A crown complex provides mechanistic insights into RNA genome replication. Gibson, K. An asymmetric sheath controls flagellar supercoiling and motility in the leptospira spirochete.

Structure and dynamics of the E. Rohou, A. Scheres, S. Prevention of overfitting in cryo-EM structure determination. Methods 9 , — Rosenthal, P. Optimal determination of particle orientation, absolute hand, and contrast loss in single-particle electron cryomicroscopy.

Mastronarde, D. Automated tilt series alignment and tomographic reconstruction in IMOD. Grant, T. Heymann, J. Guidelines for using Bsoft for high resolution reconstruction and validation of biomolecular structures from electron micrographs. Protein Sci. Mendonca, L. Download references. We are grateful to Y. Zhu for discussion and critical reading of the manuscript. You can also search for this author in PubMed Google Scholar. Correspondence to Peijun Zhang.

Nature Protocols thanks Peter J. Peters and the other, anonymous, reviewer s for their contribution to the peer review of this work. Structure 28 , — Cell , — Eisenstein, F. Reprints and Permissions. Ni, T. High-resolution in situ structure determination by cryo-electron tomography and subtomogram averaging using emClarity.

Nat Protoc Download citation. Received : 23 February Accepted : 08 October Published : 12 January Anyone you share the following link with will be able to read this content:. Sorry, a shareable link is not currently available for this article. Provided by the Springer Nature SharedIt content-sharing initiative. By submitting a comment you agree to abide by our Terms and Community Guidelines. If you find something abusive or that does not comply with our terms or guidelines please flag it as inappropriate.

Advanced search. Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily. Skip to main content Thank you for visiting nature. Download PDF. Subjects Cryoelectron microscopy Cryoelectron tomography. Abstract Cryo-electron tomography and subtomogram averaging STA has developed rapidly in recent years. Introduction Cryo-electron tomography cryoET has gained increasing importance in the study of molecular architectures of viruses, bacteria and cellular components in situ 1 , 2 , 3.

Overview of emClarity pipeline emClarity streamlines all steps in the pipeline Fig. Full size image. Table 1 CryoET data collection and processing details Full size table.