PubMed Health⌕ Search
Home/Archive/PubMed

PubMed · 9931269

Cortical surface-based analysis. II: Inflation, flattening, and a surface-based coordinate system.

B Fischl·M I Sereno·A M Dale
View original source ↗Export metadata ↓

Abstract

The surface of the human cerebral cortex is a highly folded sheet with the majority of its surface area buried within folds. As such, it is a difficult domain for computational as well as visualization purposes. We have therefore designed a set of procedures for modifying the representation of the cortical surface to (i) inflate it so that activity buried inside sulci may be visualized, (ii) cut and flatten an entire hemisphere, and (iii) transform a hemisphere into a simple parameterizable surface such as a sphere for the purpose of establishing a surface-based coordinate system.

Explore related subjects

ArtifactsBrain MappingCerebral CortexDominance, CerebralHumansImage Processing, Computer-AssistedMagnetic Resonance ImagingSoftwareJournal Article

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

B Fischl, M I Sereno, A M Dale. 1999. Cortical surface-based analysis. II: Inflation, flattening, and a surface-based coordinate system.. https://doi.org/10.1006/nimg.1998.0396

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related citations

PubMed2026

Striping artifact removal in VisiumHD data through nuclear counts modeling.

MOTIVATION: 10x Genomics VisiumHD enables spatial transcriptomics at 2 µm × 2 µm resolution but exhibits slide-specific, non-periodic striping artifacts due to lane-width variability. These multiplicative row/column effects distort bin total counts and can bias downstream analyses. The state-of-the-art destriping approach is the normalization procedure used as a preprocessing step in bin2cell; it applies sequential high-quantile row- then column-wise normalization, which is asymmetric and can introduce edge effects/macro-stripes and distortions of large-scale total-count structure. RESULTS: We propose a statistical destriping approach that leverages nuclei segmentation from the co-registered H&E image. Assuming transcript abundance is constant within each nucleus, we model bin counts with a negative binomial distribution whose mean is a product of a nucleus-specific concentration and row- and column-specific stripe-factors reflecting lane-width variation. We fit all parameters in a generalized linear modeling framework with cross-validated regularization on stripe-factors and iterative dispersion estimation, and use the fitted parameters to correct the observed counts into a destriped image. On synthetic data with known ground truth, our method improves stripe-factor estimation accuracy and reduces error in corrected counts relative to bin2cell and bin2cell-derived baselines. Across four public VisiumHD slides, it consistently lowers striping intensity while substantially better preserving biological signal present in the large-scale global count structure and avoiding the artifacts introduced by other methods. AVAILABILITY AND IMPLEMENTATION: All source code and links to publicly available data used for this study are available at https://github.com/paolamalsot/destriping-GLM.

Artifacts↗
PubMed2008

Impairment of echocardiographic acoustic window caused by breast implants.

Cosmetic breast implants are increasing in popularity. The presence of a breast implant overlying the anterior mediastinal space as a cause of impairment of the echocardiographic acoustic window has not been described previously. Here, we report three cases with significant impairment of echocardiographic acoustic window caused by breast implants. Clinicians should be aware of this interference and women should be informed of this dilemma before considering this cosmetic surgery.

Artifacts↗