Journal Article

PUBDB-2024-05638

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png What shapes template-matching performance in cryogenic electron tomography in situ?

Maurer, V. J.CSSB* ; Siggel, M.Extern* ; Kosinski, J. (Corresponding author)CSSB*

2024
Wiley Bognor Regis

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Please use a persistent id in citations: doi:10.1107/S2059798324004303  doi:10.3204/PUBDB-2024-05638

Abstract: The detection of specific biological macromolecules in cryogenic electron tomography data is frequently approached by applying cross-correlation-based 3D template matching. To reduce computational cost and noise, high binning is used to aggregate voxels before template matching. This remains a prevalent practice in both practical applications and methods development. Here, the relation between template size, shape and angular sampling is systematically evaluated to identify ribosomes in a ground-truth annotated data set. It is shown that at the commonly used binning, a detailed subtomogram average, a sphere and a heart emoji result in near-identical performance. These findings indicate that with current template-matching practices macromolecules can only be detected with high precision if their shape and size are sufficiently different from the background. Using theoretical considerations, the experimental results are rationalized and it is discussed why primarily low-frequency information remains at high binning and that template matching fails to be accurate because similarly shaped and sized macromolecules have similar low-frequency spectra. These challenges are discussed and potential enhancements for future template-matching methodologies are proposed.

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Contributing Institute(s):

1. CSSB-EMBL-JK (CSSB-EMBL-JK)

Research Program(s):

1. 899 - ohne Topic (POF4-899) (POF4-899)
2. EIPOD4 - EMBL Interdisciplinary Postdoc Programme 4 (847543) (847543)

Experiment(s):

1. No specific instrument

Appears in the scientific report 2024

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Database coverage:
; ; ; BIOSIS Previews ; Biological Abstracts ; Clarivate Analytics Master Journal List ; Current Contents - Life Sciences ; DEAL Wiley ; Ebsco Academic Search ; Essential Science Indicators ; IF < 5 ; JCR ; SCOPUS ; Science Citation Index Expanded ; Web of Science Core Collection

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