Hasil untuk "Maps"

Mathématiques DE L’I.H.É.S, J. M. Boardman, J. M. Boardman

Peter Kerpedjiev, Nezar Abdennur, Fritz Lekschas et al.

We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types, synchronize multiple visualization modalities, and share fully customizable views with others. We demonstrate its utility in exploring different experimental conditions, comparing the results of analyses, and creating interactive snapshots to share with collaborators and the broader public. HiGlass is accessible online at http://higlass.io and is also available as a containerized application that can be run on any platform.

Alexander G. Huth, Wendy A. de Heer, T. Griffiths et al.

The meaning of language is represented in regions of the cerebral cortex collectively known as the ‘semantic system’. However, little of the semantic system has been mapped comprehensively, and the semantic selectivity of most regions is unknown. Here we systematically map semantic selectivity across the cortex using voxel-wise modelling of functional MRI (fMRI) data collected while subjects listened to hours of narrative stories. We show that the semantic system is organized into intricate patterns that seem to be consistent across individuals. We then use a novel generative model to create a detailed semantic atlas. Our results suggest that most areas within the semantic system represent information about specific semantic domains, or groups of related concepts, and our atlas shows which domains are represented in each area. This study demonstrates that data-driven methods—commonplace in studies of human neuroanatomy and functional connectivity—provide a powerful and efficient means for mapping functional representations in the brain.

Jorge Bernal, F. Sánchez, G. Fernández-Esparrach et al.

S. van Gassen, Britt Callebaut, M. V. van Helden et al.

A. Kucukelbir, F. Sigworth, H. Tagare

We propose a definition of local resolution for three-dimensional electron cryo-microscopy (cryo-EM) density maps that uses local sinusoidal features. Our algorithm has no free parameters and is applicable to other imaging modalities, including tomography. By evaluating the local resolution of single-particle reconstructions and subtomogram averages for four example data sets, we report variable resolution across a 4- to 40-Å range.

A. Meissner, T. Mikkelsen, H. Gu et al.

R. Lister, Ronan C. O’Malley, Julian Tonti-Filippini et al.

P. Afonine, B. Klaholz, N. Moriarty et al.

Recent advances in the field of electron cryo-microscopy (cryo-EM) have resulted in a rapidly increasing number of atomic models of bio-macromolecules solved using this technique and deposited in the Protein Data Bank and the Electron Microscopy Data Bank. Similar to macromolecular crystallography, validation tools for these models and maps are required. While some of these validation tools may be borrowed from crystallography, new methods specifically for cryo-EM validation are required. We discuss new computational methods and tools implemented in Phenix, including d99 to estimate resolution, phenix.auto_sharpen to improve maps, and phenix.mtriage to analyze cryo-EM maps. We suggest that cryo-EM half-maps and masks are deposited to facilitate evaluation and validation of cryo-EM derived atomic models and maps. We also present the application of these tools to deposited cryo-EM atomic models and maps.

A. Alexander-Bloch, H. Shou, Siyuan Liu et al.

Abstract A critical issue in many neuroimaging studies is the comparison between brain maps. Nonetheless, it remains unclear how one should test hypotheses focused on the overlap or spatial correspondence between two or more brain maps. This “correspondence problem” affects, for example, the interpretation of comparisons between task‐based patterns of functional activation, resting‐state networks or modules, and neuroanatomical landmarks. To date, this problem has been addressed with remarkable variability in terms of methodological approaches and statistical rigor. In this paper, we address the correspondence problem using a spatial permutation framework to generate null models of overlap by applying random rotations to spherical representations of the cortical surface, an approach for which we also provide a theoretical statistical foundation. We use this method to derive clusters of cognitive functions that are correlated in terms of their functional neuroatomical substrates. In addition, using publicly available data, we formally demonstrate the correspondence between maps of task‐based functional activity, resting‐state fMRI networks and gyral‐based anatomical landmarks. We provide open‐access code to implement the methods presented for two commonly‐used tools for surface based cortical analysis (https://www.github.com/spin‐test). This spatial permutation approach constitutes a useful advance over widely‐used methods for the comparison of cortical maps, thereby opening new possibilities for the integration of diverse neuroimaging data. HighlightsA new method is developed to test the anatomical correspondence between brain maps.Random rotational permutations generate rigorous null models of correspondence.The correspondence of structural, functional and resting‐state maps is quantified.These methods are publicly available for future applications.

M. Tennekes

Thematic maps show spatial distributions. The theme refers to the phenomena that is shown, which is often demographical, social, cultural, or economic. The best known thematic map type is the choropleth, in which regions are colored according to the distribution of a data variable. The R package tmap offers a coherent plotting system for thematic maps that is based on the layered grammar of graphics. Thematic maps are created by stacking layers, where per layer, data can be mapped to one or more aesthetics. It is also possible to generate small multiples. Thematic maps can be further embellished by configuring the map layout and by adding map attributes, such as a scale bar and a compass. Besides plotting thematic maps on the graphics device, they can also be made interactive as an HTML widget. In addition, the R package tmaptools contains several convenient functions for reading and processing spatial data.

P. Kapranov, Jill Cheng, S. Dike et al.

M. Esteller

D. Boneh, Craig Gentry, Ben Lynn et al.

H. Frost, M. Ashby

L. Swanson

Yung-Yu Chuang, Alexei A. Efros, J. Ruskin et al.

P. Debevec, Jitendra Malik

C. Pommerenke

Guanrong Chen, Yaobin Mao, C. Chui