Taki, Waldemar Januszczak, John Pawsey, J Ware, Michael Prescott, John Dugdale, Jon Swain Mostar, Christopher Middleton, Barbara Hall, Judith O'Reilly Education Correspondent, Nigel Botherway, Lucas Hollweg, John Jay City Editor, Dan Pearson, John Peter, Lesley White, A S Byatt, John Jay, Sean O'Callaghan, Susan d'Arcy, Max Glaskin, Karin Pappenheim, Frank Whitford, John Karter Correspondent, Ferdinand Mount, Tony Marshallsay, Caldas da Rainha, Sally Payne, David Smith, Humphrey Carpenter, Steve Clarke, Nick Pitt, Nicki Pope, Penny Wark, Miles Harris, Andrew Sullivan, Clive Davis, Jonah Lomu, Edward Welsh, Mary Wilson, Karen Robinson, Patrick Masters, Stephen Grey Home Affairs Correspondent, Edward Platt, Tony Allen-Mills, Martin James, Robert Sandall, Anthony Sattin, Irwin Stelzer, Peter Wilson, Roger Anderson, Deryk Brown, Keith Malpas, Marian Phillips, David Dougill, S O'c, Peter Conradi Brussels, David Hewson, Randeep Ramesh, Hugh Canning, Margarette Driscoll, Hugh Mcllvanney, Alasdair Reid, Jeremy Clarkson, Stewart Lee, Edward Porter, Peter Conradi, Alan Brownjohn, Louise Taylor, Richard Fairbairn, David Cairns, Iain Sproat Mp, Minister of State, Robert Harris, Michael Jones, Alan Millard, George Perry, Kevin Connolly, Graham Otway, Marc Fallon, Nick Gardner, Shelley von Strunckel, Jilly Johnson, Ardyn Bernoth, Stewart Roberts, Rob Steen, Richard Johnson, Paul Ham, Ian MacKinnon, Norman Taylor, Derrek Hines, Guy Richards, Paul Donovan, Jack Millan, Sue Lawrence, Philip Craigie, Simon Mills, Philippa Forrester, Lynn Redgrave, Paul Driver, James Adams, Olga Craig, Simon Fanshawe, Boris Schapiro, Bryan McAlley, Nicholas Hellen, Caroline Scott, Ian Hawkey, Ian Chadband, Felipe Fernandez-Armesto, Tim Rayment, Jo Lloyd, Mark Edwards, Tom Shone, Rufus Olins, Alan Mattingly, Susan Clark, Stephen Amidon, David Lawrenson, Tung Chee-Hwa, Dave Thomas, James McGhee, Andy Goldberg, Phil Baker, Allstair Scott, John Harlow Arts Correspondent, Christina Lamb, Sue Reid, Raymond Keene, Jonathan Leake Environment Correspondent, John Karter, Gareth Huw Davies, Andrew Roberts, Marie Colvin, Colin Smith, Diana Wright, Debbie Hill, June Ducas, Ken Symon, Frank Kane, Stephen Jones, Nick Cain, Adrienne Connors, Andrew Smith, Tim Moorey, Andrew Grice, Hugh McManners, Steve Connor Science Correspondent, John Harlow Correspondent, Martin Searby, Claire Oldfield, Harvey Perlock, Ian Critchley, Caroline Gascoigne, Tubby tubs, Rasselas, Joe Orton Diaries, Trevor Lewis, Steven Haynes, Stephen McGinty, Swan Lake, Christopher Goodwin, Sheryl Garratt, Roland White, Randeep Ramesh Transport Correspondent, Gerd Junginger, Marcello Mega, Maurice Chittenden, James Keating, Andrew Lorenz Business Editor, Ray Hutton, Susan d'Archy, Rufus Olins Deputy City Editor, Peter Watts, David Fitch, Matthew Parris, Tara Palmer-Tomkinson, Michael Sheridan, Fay Weldon, John Harlow, Matthew Lynn, Godfrey Smith, Andrew Alderson, John Waples, Tim Furniss, A A Gill, Melanie Watson, Denis Walsh, John Carey, Kirsty Lang, Nadine Meisner, Robert Johnston, Stephen Pettitt, Tania Unsworth, Andrew Lorenz, Liam Clarke, Oliver Kamm, Silvia Rodgers, Roger Dobson, Helen Lee, P D Warren, Carey Scott Dzerzhinsk, Pam Barrell, Ms Marie McDougall, Mark Hodson, George Matthews, Peter Lindberg, Chris Lightbown, Rosie Atkinson, Simon Sebag Montefiore, Scott Bradfield, Bob Dwyer, Walter Ellis, David Robertson, Stephen Boyd, Joanna Simon, Mandy Piggot, Rachel Webb, Sarah Wynter, Georgina Howell, Adam Parsons, Professor David Marsland,
... Buys Cookies Every Doll has her day Forum Cryo Interactive Entertainment Plunder Frame drain British film animators are ...
1996 - Gale Group | Sunday Times HA GDA
Stefan T. Huber, Tanja Kuhm, Carsten Sachse,
... from thousands of micrographs often obtained by automated cryo-EM data acquisition. Interactive tracing of helical assemblies from such a number ...
Tópico(s): Electron and X-Ray Spectroscopy Techniques
2017 - Elsevier BV | Journal of Structural Biology
Mohammed Qutaish, Zhuxian Zhou, David Prabhu, Yiqiao Liu, Mallory Busso, Donna Izadnegahdar, Madhusudhana Gargesha, Hong Lu, Zheng‐Rong Lu, David L. Wilson,
... g., GFP-labeled tumor and high resolution multispectral cryo-imaging), nonrigid image registration, and interactive visualization of imaging agent targeting. We describe technological ... red fluorescent (CREKA-Cy5) imaging agents. Optimized nonrigid cryo-MRI registration enabled nonambiguous association of MR signals to GFP tumors. Interactive visualization of out-of-RAM volumetric image data allowed one to zoom to a GFP-labeled micrometastasis, determine its anatomical location from color cryo-images, and establish the presence/absence of targeted ...
Tópico(s): Advanced MRI Techniques and Applications
2018 - Hindawi Publishing Corporation | International Journal of Biomedical Imaging
Lorenzo Gaifas, Michael Kirchner, Joanna Timmins, Irina Gutsche,
... blik provides a versatile platform for interacting with cryo-ET data. On top of core visualisation features—interactive and simultaneous visualisation of tomograms, particle picks, and ...
Tópico(s): Genomics and Phylogenetic Studies
2024 - Public Library of Science | PLoS Biology
Caitlin N. Spaulding, Henry L. Schreiber, Weili Zheng, Karen Dodson, Jennie E. Hazen, Matt S. Conover, Fengbin Wang, Pontus Svenmarker, Areli Luna-Rico, Olivera Francetić, Magnus Andersson, Scott J. Hultgren, Edward H. Egelman,
... structure of the type 1 pilus rod using cryo-electron microscopy. Residues forming the interactive surfaces that determine the mechanical properties of the ...
Tópico(s): Bacteriophages and microbial interactions
2018 - eLife Sciences Publications Ltd | eLife
Jie Yang, Matt Larson, Bryan Sibert, Samantha Shrum, Elizabeth Wright,
... that CorRelator reliably supports real-time, automated correlative cryo-EM/ET acquisition, through a combination of software-aided and interactive alignment. CorRelator is a cross-platform software package ...
Tópico(s): Photosynthetic Processes and Mechanisms
2021 - Elsevier BV | Journal of Structural Biology
Xintao Song, Lei Bao, Chenjie Feng, Qiang Huang, Fa Zhang, Xin Gao, Renmin Han,
... experimental protein structure data and cryo-electron microscopy (cryo-EM) data integration, our approach is able to accurately identify the interactive bidirectional constraints and supervision between cryo-EM maps and PDB models in maximizing the ...
Tópico(s): Advanced Electron Microscopy Techniques and Applications
2024 - Nature Portfolio | Nature Communications
Johannes Elferich, Richard Posert, Craig Yoshioka, Eric Gouaux,
Single-particle cryo-electron microscopy enables structure determination of biological molecules and complexes at near atomic resolution with unprecedented speed.Yet in many instances, acquisition of a sufficient number of particles requires collection of thousands of micrographs, collected using direct electron detectors and comprised of dose-fractionated "movie" frames.To achieve the highest resolution reconstructions, the user must search the grid for optimal regions, typically ones with thin ...
Tópico(s): Physics of Superconductivity and Magnetism
2019 - Oxford University Press | Microscopy and Microanalysis
Jesús Cuenca-Alba, Laura del Caño, Josué Gómez-Blanco, José Miguel de la Rosa Trevín, Pablo Conesa, R. Marabini, Carlos Óscar S. Sorzano, J.M. Carazo,
New instrumentation for cryo electron microscopy (cryoEM) has significantly increased data collection rate as well as data quality, creating bottlenecks at the image processing level. Current image processing model of moving the acquired images from the data source (electron microscope) to desktops or local clusters for processing is encountering many practical limitations. However, computing may also take place in distributed and decentralized environments. In this way, cloud is a new form of accessing ...
Tópico(s): Electron and X-Ray Spectroscopy Techniques
2017 - Elsevier BV | Journal of Structural Biology
T. Harnisch, J. Kunert, Hannes Toepfer, H. Uhlmann,
... for circuit simulation. Based on these methods, an interactive yield optimization framework for cryo-electronic circuits was developed and tested.
Tópico(s): Electromagnetic Compatibility and Noise Suppression
1997 - IEEE Council on Superconductivity | IEEE Transactions on Applied Superconductivity
Przemyslaw Porebski, Grzegorz Bokota, Barat S. Venkataramany, W. Minor,
In the Special Issue on Tools for Protein Science in 2018, we presented Molstack: a concept of a cloud-based platform for sharing electron density maps and their interpretations. Molstack is a web platform that allows the interactive visualization of density maps through the simultaneous presentation of multiple datasets and models in a way that allows for easy pairwise comparison. We anticipated that the users of this conceptually simple platform would find many different uses for their projects, ...
Tópico(s): Advanced Chemical Physics Studies
2019 - Wiley | Protein Science
Reda Rawi, Lee Whitmore, Maya Topf,
... components and the fitting of those components into cryo electron microscopy (cryoEM) maps of their assemblies. It provides an interactive approach to improving the selection of models based ...
Tópico(s): Photosynthetic Processes and Mechanisms
2010 - Oxford University Press | Bioinformatics
Pratiksha Awasthi, Shib Shankar Banerjee,
... was directly evident from differential scanning calorimetry and cryo-transmittance electron microscopy. The phase components of developed TPE were found to be interactive which was analysed from the torque and loss ...
Tópico(s): biodegradable polymer synthesis and properties
2022 - Elsevier BV | Polymer
Shreya Pal, G. Keerthiga, Sambasivan Eswaran,
... MS and appropriate bioinformatics tools in combination with cryo‐EM reveal better 3D information about dynamic interactions in proteins, interactive domains and motifs, among others in ADCs and ...
Tópico(s): Advanced biosensing and bioanalysis techniques
2018 - Wiley | IUBMB Life
Matthew L. Baker, Sasakthi S. Abeysinghe, Stephen Schuh, Ross A. Coleman, Austin Abrams, Michael P. Marsh, Corey F. Hryc, Troy Ruths, Wah Chiu, Tao Ju,
... and extracting structural details. With recent advances in cryo-EM, maps at near-atomic resolutions have been achieved for several macromolecular assemblies from which models have been manually constructed. In this work, we describe a new interactive modeling toolkit called Gorgon targeted at intermediate to ... density maps (10–3.5 Å), particularly from cryo-EM. Gorgon’s de novo modeling procedure couples sequence-based secondary structure prediction with feature detection and geometric modeling techniques to generate initial protein backbone models. Beyond model building, Gorgon is an extensible interactive visualization platform with a variety of computational tools ...
Tópico(s): Photosynthetic Processes and Mechanisms
2011 - Elsevier BV | Journal of Structural Biology
Madhusudhana Gargesha, Mohammed Qutaish, Debashish Roy, Grant J. Steyer, Michiko Watanabe, David L. Wilson,
We developed multi-scale, live-time interactive visualization of color image data, including microscopic whole-mouse cryo-images serving many biomedical applications. Using true-color volume rendering, we interactively, selectively enhanced anatomy using feature detection. For example, to enhance ...
Tópico(s): 3D Shape Modeling and Analysis
2010 - Elsevier BV | Computerized Medical Imaging and Graphics
Michael J. Ackerman, R.A Banvard,
We developed multi-scale, live-time interactive visualization of color image data, including microscopic whole-mouse cryo-images serving many biomedical applications. Using true-color volume rendering, we interactively, selectively enhanced anatomy using feature detection. For example, to enhance ...
Tópico(s): Radiomics and Machine Learning in Medical Imaging
2000 - Elsevier BV | Computerized Medical Imaging and Graphics
I. Sommer, Richard Brimacombe,
... level biochemical constraints resulting from crosslinking techniques and cryo-electron microscopy. High- and low-level features of the potential function were specified, and the clustered molecular dynamics technique was integrated into the interactive model-building process, to establish a physico-chemically ...
Tópico(s): Bacterial Genetics and Biotechnology
2001 - Wiley | Journal of Computational Chemistry
Recent progress in single-particle reconstruction methods and cryo-EM techniques has led to the determination of macromolecular structures with unprecedented resolution. The number of particles that goes into the reconstruction is a key determinant in achieving high resolution. Interactive manual picking of particles from an electron micrograph ...
Tópico(s): Electron and X-Ray Spectroscopy Techniques
2003 - Elsevier BV | Journal of Structural Biology
Madhusudhana Gargesha, Mohammed Qutaish, Debashish Roy, Grant Steyer, Hauke Bartsch, David L. Wilson,
... face. With the rich color images provided by cryo-imaging, we use true-color volume rendering and visually enhance anatomical regions by proper selection of voxel opacity. To compute opacity, we use color and/or gradient feature detection followed by suitable opacity transfer functions (OTF). An interactive user interface allows one to select from among multiple color and gradient feature detectors, OTF's, and their associated parameters, and to compute in live time new volume visualizations from within the Amira platform. We are also developing multi-resolution volume rendering techniques to accommodate extremely large (⪆60GB) cryo-image data sets. Together, these enhancements enable us ...
Tópico(s): Medical Image Segmentation Techniques
2009 - SPIE | Proceedings of SPIE, the International Society for Optical Engineering/Proceedings of SPIE
Johanna K. S. Tiemann, Alexander Rose, Jochen Ismer, Mitra D Darvish, Tarek Hilal, C.M.T. Spahn, Peter W. Hildebrand,
... criteria, sequence similarity and fit into a given cryo-EM density map. Web-based molecular visualization with the NGL Viewer allows interactive selection of fragments. The FragFit web-application, accessible ...
Tópico(s): Genomics and Phylogenetic Studies
2018 - Oxford University Press | Nucleic Acids Research
Michele C. Darrow, Imanol Luengo, Mark Basham, Matthew C. Spink, Sarah Irvine, Andrew P. French, Alun Ashton, Elizabeth Duke,
... to demonstrate segmentation using super- and megavoxels, and cryo soft X-ray tomography (cryoSXT) of a mammalian cell line is used to demonstrate the label splitting tools. Strategies and parameters for each datatype are also presented. By blending a selection of semi-automatic processes into a single interactive tool, SuRVoS provides several benefits. Overall time to ...
Tópico(s): Geomagnetism and Paleomagnetism Studies
2017 - MyJOVE | Journal of Visualized Experiments
Michele C. Darrow, Imanol Luengo, Mark Basham, Matthew C. Spink, Sarah Irvine, Andrew P. French, Alun Ashton, Elizabeth Duke,
... to demonstrate segmentation using super- and megavoxels, and cryo soft X-ray tomography (cryoSXT) of a mammalian cell line is used to demonstrate the label splitting tools. Strategies and parameters for each datatype are also presented. By blending a selection of semi-automatic processes into a single interactive tool, SuRVoS provides several benefits. Overall time to ...
Tópico(s): Magnetic and Electromagnetic Effects
2017 - MyJOVE | Journal of Visualized Experiments
Marc Siggel, Rasmus K. Jensen, Valentin Maurer, Julia Mahamid, Jan Kosiński,
Cellular cryo-electron tomography (cryo-ET) has emerged as a key method to unravel the spatial and structural complexity of cells in their near-native state at unprecedented molecular resolution. To enable quantitative analysis of the complex shapes and morphologies of lipid membranes, the noisy three-dimensional (3D) volumes must be segmented. Despite recent advances, this task often requires considerable user intervention to curate the resulting segmentations. Here, we present ColabSeg, a Python- ...
Tópico(s): Advanced Fluorescence Microscopy Techniques
2024 - Elsevier BV | Journal of Structural Biology
Ellen D. Zhong, Tristan Bepler, Bonnie Berger, Joseph H. Davis,
... and map per-particle heterogeneity of single-particle cryo-EM datasets. Using cryoDRGN, we uncovered residual heterogeneity in high-resolution datasets of the 80S ribosome and the RAG complex, revealed a new structural state of the assembling 50S ribosome, and visualized large-scale continuous motions of a spliceosome complex. CryoDRGN contains interactive tools to visualize a dataset’s distribution of ...
Tópico(s): Enzyme Structure and Function
2021 - Nature Portfolio | Nature Methods
John E. Stone, Ryan McGreevy, Barry Isralewitz, Klaus Schulten,
... data-parallel and GPU-accelerated algorithms for rapid interactive computation of quality-of-fit metrics linking all-atom structures and molecular dynamics trajectories to experimentally-determined density maps obtained from cryo-electron microscopy or X-ray crystallography. We evaluate ...
Tópico(s): Enzyme Structure and Function
2014 - Royal Society of Chemistry | Faraday Discussions
I. Sommer, Richard Brimacombe,
... level biochemical constraints resulting from crosslinking techniques and cryo-electron microscopy. High- and low-level features of the potential function were specified, and the clustered molecular dynamics technique was integrated into the interactive model-building process, to establish a physico-chemically ...
Tópico(s): RNA and protein synthesis mechanisms
2001 - Wiley | Journal of Computational Chemistry
Catherine M. Oikonomou, Grant J. Jensen,
... rise to their diverse and complex functions. The interactive, multimedia resource features real data from more than 150 cells belonging to approximately 70 different species, imaged by cutting-edge cryogenic electron microscopy (cryo-EM). Complementary animations show the cellular machinery in ...
Tópico(s): Advanced Electron Microscopy Techniques and Applications
2021 - American Society for Microbiology | Journal of Microbiology and Biology Education
Lindsay A. Baker, John L. Rubinstein,
... by other means. Frequently, maps of complexes from cryo-EM are obtained at resolutions between 10 and 25 Å. To aid in the interpretation of these medium- to low-resolution maps, they may be subdivided into three-dimensional segments representing subunits or subcomplexes. This division is often accomplished using a manual segmentation approach. While extremely useful, manual segmentation is subjective. We have developed a novel semi-interactive segmentation algorithm that can incorporate prior knowledge of ...
Tópico(s): Photosynthetic Processes and Mechanisms
2011 - Elsevier BV | Journal of Structural Biology
Jasper R. Plaisier, Lin‐Hua Jiang, Jan Pieter Abrahams,
... programs for 3D reconstruction of biological complexes using cryo-electron microscopy. Cyclops' current plug-ins are designed for automated particle picking and include two new algorithms, automated carbon masking and quaternion based rotation space sampling, which are also presented here. Additional plug-ins are in the pipeline. Cyclops allows straightforward organization and visualization of all data and tasks and allows both interactive and batch-wise processing. Furthermore, it was designed ...
Tópico(s): Advanced X-ray Imaging Techniques
2006 - Elsevier BV | Journal of Structural Biology