Evidence map›Paper›PMID 39750402›Full record

ArticleIUCrJ2025

Advancing dynamic quantum crystallography: enhanced models for accurate structures and thermodynamic properties.

Helena Butkiewicz, Michał Chodkiewicz, Anders Ø Madsen, Anna A Hoser

Abstract read
In one paragraph

Article in IUCrJ, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors.

Helena ButkiewiczFaculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw, 02-093, Poland.ORCID 0000-0001-7962-3603
Michał ChodkiewiczFaculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw, 02-093, Poland.ORCID 0000-0003-4448-445X
Anders Ø MadsenDepartment of Pharmacy, University of Copenhagen, Copenhagen, Denmark.ORCID 0000-0001-5422-8076
Anna A HoserFaculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw, 02-093, Poland.ORCID 0000-0002-6799-3073

Funding

National Science Centre of Poland SONATA17, No. 2021/43/D/ST4/03136Polish high-performance computing infrastructure PLGrid PLG/2022/015779
6 · The paper itself

Abstract

X-ray diffraction (XRD) has evolved significantly since its inception, becoming a crucial tool for material structure characterization. Advancements in theory, experimental techniques, diffractometers and detection technology have led to the acquisition of highly accurate diffraction patterns, surpassing previous expectations. Extracting comprehensive information from these patterns necessitates different models due to the influence of both electron density and thermal motion on diffracted beam intensity. While electron-density modelling has seen considerable progress [e.g. the Hansen-Coppens multipole model and Hirshfeld Atom Refinement (HAR)], the treatment of thermal motion has remained largely unchanged. We have developed a novel method that combines the strengths of the advanced charge-density models [Aspherical Atom Models (AAMs), such as HAR or the Transferable Aspherical Atom Model (TAAM)] and the thermal motion model (normal modes refinement, NoMoRe). We denote this approach AAM_NoMoRe, wherein instead of refining routine anisotropic displacement parameters (ADPs) against single-crystal X-ray diffraction data, we refine the frequencies obtained from periodic density functional theory (DFT) calculations. In this work, we demonstrate the effectiveness of this model by presenting its application to model compounds, such as alanine, xylitol, naphthalene and glycine polymorphs, highlighting the influence of our method on the H-atom positions and shape of their ADPs, which are comparable with neutron data. We observe a significant decrease in the similarity index for H-atom ADPs after AAM_NoMoRe in comparison to only AAM, aligning more closely with neutron data. Due to the use of aspherical form factors (AAM), our approach demonstrates better fitting performance, as indicated by consistently lower wR2 values compared to the Independent Atom Model (IAM) refinement and a significant decrease compared to the traditional NoMoRe model. Furthermore, we present the estimation of a key thermodynamic property, namely, heat capacity, and demonstrate its alignment with experimental calorimetric data.

Indexed as

ADPsanisotropic displacement parametersaspherical atom modelcomputational modellingdensity functional theoryentropylattice dynamicspolymorphism

Identifiers

PMID39750402
PMCPMC11707699

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Registered trials

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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.