PACKMAN-Molecule: Python toolbox for structural bioinformatics.

Abstract read

In one paragraph

Article in Bioinformatics advances, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it

0cells of the map it votes in

1citing 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

1 citing paper in PubMed.

Coarse-graining protein structures into their dynamic communities with DCI, a dynamic community identifier.Bioinformatics (Oxford, England) · 2022
Article

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

2 authors.

Pranav M KhadeBioinformatics and Computational Biology Program, Roy J. Carver Department of Biochemistry, Biophysics and Molecular Biology, Iowa State University, Ames, IA 50011, USA.ORCID https://orcid.org/ 0000-0002-0756-9828

Robert L JerniganBioinformatics and Computational Biology Program, Roy J. Carver Department of Biochemistry, Biophysics and Molecular Biology, Iowa State University, Ames, IA 50011, USA.ORCID https://orcid.org/0000-0003-0996-8360

Funding

Protein Sequence MatchingR01GM127701 · NIGMS · IOWA STATE UNIVERSITY · PI JERNIGAN, ROBERT L, KLOCZKOWSKI, ANDRZEJ · 2018 to 2021

$1.4M

NIGMS NIH HHS R01 GM127701

6 · The paper itself

Abstract

PACKMAN-molecule is a Structural Bioinformatics toolbox in the form of an Application Programming Interface that contains several utilities that can be used for structural bioinformatics applications. It has already been used in several applications, and its added features and unique object hierarchy make it readily extensible, feature-rich and user-friendly. The tutorial for it is available at: https://py-packman.readthedocs.io/en/latest/tutorials/molecule.html. Availability and implementation: PACKMAN-Molecule is freely available with an MIT license on GitHub at https://github.com/Pranavkhade/PACKMAN.

Identifiers

PMID36699371

DOI10.1093/bioadv/vbac007

PMCPMC9710701

What OpenQuestion holds

Textmetadata

LicenceCC BY

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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.