User contributions for WikiSysop

Results for WikiSysop talk block log uploads logs
A user with 2,486 edits. Account created on 30 March 2009.
Jump to navigation Jump to search
Search for contributionsExpandCollapse
⧼contribs-top⧽
⧼contribs-date⧽
(newest | oldest) View (newer 50 | ) (20 | 50 | 100 | 250 | 500)

23 July 2026

  • 06:3106:31, 23 July 2026 diff hist +1,350 N 2013Ruskin DQE Created page with "== Citation == Ruskin, A.I., Yu, Z. and Grigorieff, N. 2013. Quantitative characterization of electron detectors for transmission electron microscopy. J. Structural biology. 184, 3 (2013), 385–393. == Abstract == A new generation of direct electron detectors for transmission electron microscopy (TEM) promises significant improvement over previous detectors in terms of their modulation transfer function (MTF) and detective quantum efficiency (DQE). However, the perfo..." current
  • 06:2706:27, 23 July 2026 diff hist +112 Main Page →Image formation current
  • 06:1906:19, 23 July 2026 diff hist +979 N 2026Motta Dublins Created page with "== Citation == Motta Alves, G., Andrews, T., McBean, P., Wells, T., El-Gomati, M.M., Burkhalter, S., Schulze-Briese, C., Zambon, P., McMullan, G., Henderson, R. and others 2026. The Dublin lens: a Cc= 1.0 mm objective lens intended for CryoEM at 100 keV. Methods in Microscopy. 3, 1 (2026), 19–25. == Abstract == We have designed, fabricated and tested a lens with a chromatic aberration coefficient (Cc) of 1.0 mm, a 4.0 mm pole-gap and 2.0 mm bore that is wide enough..." current
  • 06:1806:18, 23 July 2026 diff hist +73 Main Page →Image formation

22 July 2026

  • 06:4606:46, 22 July 2026 diff hist +1,782 N 2024Wang CryoSeek Created page with "== Citation == Wang, T., Li, Z., Xu, K., Huang, W., Huang, G., Zhang, Q.C. and Yan, N. 2024. CryoSeek: A strategy for bioentity discovery using cryoelectron microscopy. Proceedings of the National Academy of Sciences. 121, 42 (2024), e2417046121. == Abstract == Structural biology is experiencing a paradigm shift from targeted structural determination to structure-guided discovery of previously uncharacterized bioentities. We employed cryoelectron microscopy (cryo-EM)..." current
  • 06:4606:46, 22 July 2026 diff hist +117 Main Page →Software

9 July 2026

  • 06:4306:43, 9 July 2026 diff hist +1,309 N 2026Petrov Laser Created page with "== Citation == Petrov, P.N., Zhang, J.T., Remis, J., Axelrod, J.J., Cheng, H., Cooper, E.S., Hicklin, I.K., Sandhaus, S., Schnurr, C., Glaeser, R.M. and others 2026. Laser phase plate improves structure determination of small proteins by cryo-EM. Science. (2026), eaeh0665. == Abstract == Phase plates can in principle overcome the poor image contrast in electron cryo–microscopy (cryo-EM) and the resulting limits on the structural reconstruction of small proteins. How..." current
  • 06:4206:42, 9 July 2026 diff hist +57 Main Page →Image formation
  • 06:2406:24, 9 July 2026 diff hist +1,201 N 2026Subramaniam Review Created page with "== Citation == Subramaniam, S., Kühlbrandt, W. and Henderson, R. 2026. Cryo-EM: the revolution continues. IUCrJ. 13, 4 (2026). == Abstract == The near-universal adoption of electron cryo-microscopy (cryo-EM) by structural and cell biologists has led to exponential growth of the field, especially over the last two decades, with a doubling in the number of deposited electronmicroscopy density maps every 2.5 years. This exponential growth has changed in recent years to..." current
  • 06:2406:24, 9 July 2026 diff hist +81 Main Page →Books and reviews

7 July 2026

  • 06:3106:31, 7 July 2026 diff hist +1,648 N 2026Chrencik SBDD Created page with "== Citation == Chrencik, J.E., Su, H.-P., Gomez Llorente, Y., Palte, R.L., Klein, D.J., Hayes, R.P., Antine, S.P., Asmar-Rovira, G.A., Bertoletti, N., Byrne, N.J. and others 2026. The evolving role of structural biology in pharma: integration of X-ray crystallography, cryo-electron microscopy and beyond. Biological Crystallography. 82, 6 (2026). == Abstract == Structural biology has fundamentally influenced pharmaceutical research and development at Merck Sharp & Dohm..." current
  • 06:3006:30, 7 July 2026 diff hist +89 Main Page →Books and reviews
  • 06:1706:17, 7 July 2026 diff hist +1,461 N 2025Starynska Membrane Created page with "== Citation == Starynska, A., Cameron, C.J., Sigworth, F.J. and Tagare, H.D. 2026. Automated Membrane Detection and Subtraction for Structure Determination of Membrane Proteins in Cryogenic Electron Microscopy. Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (2026), 6553–6562. == Abstract == High-resolution cryo-electron microscopy (cryo-EM) reconstruction of membrane proteins often requires the bilayer membrane containing the prote..." current
  • 06:1606:16, 7 July 2026 diff hist +97 Main Page →2D Preprocessing
  • 05:5505:55, 7 July 2026 diff hist +1,599 N 2026Gao CryoKRAQEN Created page with "== Citation == Gao, W., Wu, Y. and He, X. 2026. CryoKRAQEN: Kernel-Regularized Annealing for Quantized Embedding Networks in Cryo-EM Heterogeneous Reconstruction. Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (2026), 28298–28307. == Abstract == Heterogeneous reconstruction in cryo-electron microscopy (Cryo-EM) is fundamental for understanding macromolecular structural diversity, yet remains challenging due to extreme noise, contin..." current
  • 05:5405:54, 7 July 2026 diff hist +159 Main Page →3D Heterogeneity

2 June 2026

  • 06:5806:58, 2 June 2026 diff hist +2,958 N 2026Behkamal Secondary Created page with "== Citation == Behkamal, B., Etemadheravi, M.P., Mahmoodjanloo, A., Mansoori, A., Naghibzadeh, M., Al Nasr, K. and Saberi, M.R. 2026. A Novel Machine-Learning Based Method for Resolving Secondary Structure Topology in Medium-Resolution Cryo-EM Density Maps. Intl. J. of Molecular Sciences. 27, 10 (2026), 4388. == Abstract == Medium-resolution cryo-electron microscopy (cryo-EM) density maps preserve substantial information about protein secondary-structure organization;..." current
  • 06:5706:57, 2 June 2026 diff hist +107 Main Page →Fitting and docking
  • 06:1606:16, 2 June 2026 diff hist +1,218 N 2026Kwon Elastic Created page with "== Citation == Kwon, M.C. and Abrahams, J.P. 2026. Elastic and Inelastic Interactions of Electrons in Transmission Electron Microscopy. Ultramicroscopy. (2026), 114383. == Abstract == High-energy electrons passing through a sample in a transmission electron microscope carry structural information through their interactions with the sample’s atoms. Elastically scattered electrons, which undergo no significant energy loss, convey spatial details in their scattering an..." current
  • 06:1506:15, 2 June 2026 diff hist +80 Main Page →Books and reviews

26 May 2026

  • 05:5405:54, 26 May 2026 diff hist +1,640 N 2026Obrien CryoJax Created page with "== Citation == O’Brien, M.J., Silva-Sánchez, D., Woollard, G., Je, K., Hanson, S.M., Needleman, D.J., Cossio, P., Thiede, E.H. and Astore, M.A. 2026. CryoJAX: a cryo-electron microscopy image-simulation library in JAX. Acta Crystallographica Sec. D. 82, 3 (2026). == Abstract == While cryo-electron microscopy (cryo-EM) has come to prominence in the last decade due to its ability to resolve biomolecular complexes at atomic resolution, advancements in experimental and..." current
  • 05:5405:54, 26 May 2026 diff hist +98 Main Page →Image formation

25 May 2026

  • 06:0606:06, 25 May 2026 diff hist +1,697 N 2025Evans LowDim Created page with "== Citation == Evans, L., Murad, O.-V., Dingeldein, L., Cossio, P., Covino, R. and Meila, M. 2025. Cryo-EM images are intrinsically low dimensional. PRX Life. 3, 3 (2025), 33025. == Abstract == Simulation-based inference provides a powerful framework for cryoelectron microscopy, employing neural networks in methods like CryoSBI to infer biomolecular conformations via learned latent representations. This latent space represents a rich opportunity, encoding valuable inf..." current
  • 06:0606:06, 25 May 2026 diff hist +83 Main Page →Image formation

22 May 2026

  • 06:3206:32, 22 May 2026 diff hist +2,278 N 2026Silva CryoJax Created page with "== Citation == Silva-Sánchez, D., Berezuk, A.M., Zhu, X., Thiede, E.H., Lederman, R.R. and Cossio, P. 2026. Cryo-Electron Microscopy Structural Ensemble Optimization Using Individual Particles. J. of Chemical Theory and Computation. (2026). == Abstract == Biomolecules are inherently dynamic, transitioning between various conformational states to execute their biological functions; consequently, characterizing their ensemble distributions (the population of these conf..." current
  • 06:3006:30, 22 May 2026 diff hist +111 Main Page →3D Heterogeneity

16 May 2026

13 May 2026

  • 06:5206:52, 13 May 2026 diff hist +1,980 N 2026Premaraj DualJet Created page with "== Citation == Premaraj, N., Huysmans, P., Ploum, M., Schijns, L., Peters, P.J., López-Iglesias, C., Ravelli, R.B. and Knoops, K. 2026. An experimental platform for exploring dual-jet vitrification mechanisms in cryo-EM sample preparation. Methods in Microscopy. 0 (2026). == Abstract == Jet vitrification harnesses the exceptionally high cooling potential of rapidly moving liquid cryogens to achieve ultrafast sample freezing with superior cooling efficiency. Building..." current
  • 06:5206:52, 13 May 2026 diff hist +64 Main Page →Sample preparation
  • 05:4505:45, 13 May 2026 diff hist +1 Main Page →Data Processing
  • 05:4505:45, 13 May 2026 diff hist +1,730 N 2026Thibodeaux MR Created page with "== Citation == Thibodeaux, A., Bu, G., Edwards, L.C. and Rova Danelius, E. 2026. High-throughput automated molecular replacement for small-molecule MicroED data. IUCrJ. 13, 3 (2026). == Abstract == Interest in electron diffraction (ED) for structural characterization of both proteins and small molecules has grown significantly over the last decade. While ab initio phasing methods remain the gold standard for ED data from smallmolecule samples, radiation beam damage du..." current
  • 05:4405:44, 13 May 2026 diff hist +87 Main Page →Data Processing

4 May 2026

  • 08:3608:36, 4 May 2026 diff hist +2,220 N 2025Hu Denoising Created page with "== Citation == Hu, B., Zhang, D.-X., Liu, S.-Q., Xie, X.-L., Zhou, X.-H., Li, H.-J., Zheng, Q.-B., Zhang, F., Hou, Z.-G. and Xia, N.-S. 2025. Particle Restoration: A Novel Image Processing Framework for Improving Real Cryo-EM Image Quality in Single Particle Analysis. IEEE Trans. on Computational Biology and Bioinformatics. (2025). == Abstract == Cryo-electron microscopy single particle analysis (cryo-EM SPA) is the most powerful technique for biomacromolecule structu..." current
  • 08:3508:35, 4 May 2026 diff hist +78 Main Page →2D Preprocessing

30 April 2026

  • 06:5106:51, 30 April 2026 diff hist +2,456 N 2025Costa PERC Created page with "== Citation == Costa-Gomes, B., Greer, J., Juraschko, N., Parkhurst, J., Mirecka, J., Famili, M., Rangel-Smith, C., Strickson, O., Lowe, A., Basham, M. and others 2025. PERC: a suite of software tools for the curation of cryoEM data with application to simulation, modeling and machine learning. Structural Biology and Crystallization Communications. 81, 10 (2025). == Abstract == Ease of access to data, tools and models expedites scientific research. In structural biolo..." current
  • 06:5006:50, 30 April 2026 diff hist +86 Main Page →Software
  • 06:4206:42, 30 April 2026 diff hist +1,604 N 2025Giri Sharpening Created page with "== Citation == Giri, N., Chen, X., Wang, L. and Cheng, J. 2025. A labeled dataset for AI-based cryo-EM map enhancement. Computational and Structural Biotechnology Journal. 27, (2025), 2843–2850. == Abstract == Cryogenic electron microscopy (cryo-EM) has transformed structural biology by enabling near atomic resolution imaging of macromolecular complexes. However, cryo-EM density maps suffer from intrinsic noise arising from structural sources, shot noise, and digita..." current
  • 06:4106:41, 30 April 2026 diff hist +79 Main Page →Databases
  • 05:5105:51, 30 April 2026 diff hist +1,124 N 2026Lin HDX Created page with "== Citation == Lin, X. and Cheng, Y. 2026. Making sense of invisible densities in single-particle cryo-EM. IUCrJ. 13, 3 (2026). == Abstract == In the era of single-particle cryogenic electron microscopy (cryo-EM) and AIdriven protein structure prediction, obtaining high-resolution protein structures, either experimentally or computationally, has become increasingly routine. Yet studying and understanding protein dynamics remains challenging. In singleparticle cryo-EM,..." current
  • 05:5005:50, 30 April 2026 diff hist +109 Main Page →Books and reviews

28 April 2026

  • 06:4106:41, 28 April 2026 diff hist +1,574 N 2026Chen MPM Created page with "== Citation == Chen, J., Leung, V.C., Wang, R., Bubeck, D. and Dragotti, P.L. 2026. Masked Projection Modelling for Sparse-view cryo-EM Reconstruction. ICASSP 2026-2026 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) (2026), 11567–11571. == Abstract == Resolving conformational heterogeneity in cryo-electron microscopy (cryo-EM) remains challenging, especially for rare states. Standard reconstruction methods, reliant on abundant simi..." current
  • 06:4106:41, 28 April 2026 diff hist +84 Main Page →3D Reconstruction

23 April 2026

  • 08:5208:52, 23 April 2026 diff hist +1,678 N 2026Gauvin 200kV Created page with "== Citation == Gauvin, C.C., Findlay, J.L., Hophan-Nichols, C. and Lawrence, C.M. 2026. A cost-effective 200 kV cryo-EM core facility for high resolution single particle analysis. Methods in Microscopy. (2026). == Abstract == We sought to establish a sustainable 200 kV cryo- EM core facility for the Northern Rocky Mountain region with high resolution single particle capabilities. With modest funding, relative to 300 kV instruemnts, from the NSF, theMurdock Charitable..." current
  • 08:5108:51, 23 April 2026 diff hist +99 Main Page →Books and reviews
  • 07:0707:07, 23 April 2026 diff hist +1,540 N 2026Eluru MISO Created page with "== Citation == Eluru, G., De Gieter, S., Schenck, S., Stroobants, A., Shrestha, B., Erbel, P., Brunner, J.D. and Efremov, R.G. 2025. MISO: microfluidic protein isolation enables single-particle cryo-EM structure determination from a single cell colony. Nature methods. (2025), 1–11. == Abstract == Single-particle cryogenic electron microscopy (cryo-EM) enables reconstruction of atomic-resolution 3D maps of proteins by visualizing thousands to millions of purified pro..." current
  • 07:0607:06, 23 April 2026 diff hist +98 Main Page →Sample preparation

15 April 2026

  • 12:3012:30, 15 April 2026 diff hist +1,677 N 2022Calcraft SPATilts Created page with "== Citation == Calcraft, T. and Rosenthal, P.B. 2022. Cryogenic electron microscopy approaches that combine images and tilt series. Microscopy. 71, Supplement_1 (Feb. 2022), i15–i22. == Abstract == Cryogenic electron microscopy can be widely applied to biological specimens from the molecular to the cellular scale. In single-particle analysis, 3D structures may be obtained in high resolution by averaging 2D images of single particles in random orientations. For pleo..." current
  • 12:2812:28, 15 April 2026 diff hist +67 Main Page →Collection geometry

13 April 2026

  • 12:4612:46, 13 April 2026 diff hist +1,482 N 2026Wazny Damage Created page with "== Citation == Ważny, G., Jaciuk, M., Indyka, P., Glatt, S., Biela, A. and Rawski, M. 2026. Influence of total electron dose on the quality of nucleic acids potential maps in Cryo-EM. Ultramicroscopy. (2026), 114358. == Abstract == The standardization of protocols in science lies at the basis of every experiment. During this process, some crucial questions need to be answered. The quality of results in single particle cryo-Electron Microscopy (cryo-EM) requires optim..." current
(newest | oldest) View (newer 50 | ) (20 | 50 | 100 | 250 | 500)
Retrieved from "https://3demmethods.i2pc.es/index.php/Special:Contributions/WikiSysop"