Evidence map›Paper›PMID 41573831›Full record

ArticlebioRxiv : the preprint server for biology2025

Cryo-electron microscopy ensemble optimization using individual particles and physical constraints.

David Silva-Sánchez, Erik H Thiede, Roy R Lederman, Pilar Cossio

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

4 authors.

David Silva-SánchezDepartment of Applied and Computational Mathematics, Yale University, New Haven, CT 06520.
Erik H ThiedeDepartment of Chemistry & Chemical Biology, Cornell University, Ithaca, NY 14853.
Roy R LedermanDepartment of Statistics and Data Science, Yale University, New Haven, CT, 06511.
Pilar CossioCenter for Computational Mathematics, Center for Computational Biology, Flatiron Institute, New York, NY, 10010.

Funding

Reconstruction of heterogeneous and small macromolecules by cyro-EMR01GM136780 · NIGMS · PRINCETON UNIVERSITY · PI SINGER, AMIT · 2020 to 2023
$1.3M
Frontiers in measuring and simulating molecular structures and processes.R35GM157226 · NIGMS · YALE UNIVERSITY · PI Roy Rabinu Lederman · 2025 to 2026
$763k
NIGMS NIH HHS R01 GM136780NIGMS NIH HHS R35 GM157226
6 · The paper itself

Abstract

Biomolecules are inherently dynamic, and understanding their conformational ensemble distributions is essential for understanding their dynamics and biological roles. Cryo-electron microscopy (cryo-EM), a technique that images individual biomolecules frozen in a thin layer of amorphous ice, has emerged as a leading method for determining the structure of biomolecules at atomic resolution. Recent advances in cryo-EM reconstruction have made significant progress in determining structure in heterogeneous conformational landscapes. In contrast to reconstruction, a different class of techniques has been used to infer population weights, referred to as ensemble reweighting. These methods have yet to be generalized to infer structural heterogeneity simultaneously. Here, we present a method for

Identifiers

PMID41573831
PMCPMC12822797

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.