Evidence map›Paper›PMID 24763338›Full record

ArticleProceedings of the ... IEEE Conference on Decision & Control. IEEE Conference on Decision & Control2012

A New Approach to Rigid Body Minimization with Application to Molecular Docking.

Hanieh Mirzaei, Dima Kozakov, Dmitri Beglov, Ioannis Ch Paschalidis, Sandor Vajda, Pirooz Vakili

Abstract read
In one paragraph

Article in Proceedings of the ... IEEE Conference on Decision & Control. IEEE Conference on Decision & Control, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Energy Minimization on Manifolds for Docking Flexible Molecules.Journal of chemical theory and computation · 2015
    Article
  2. Optimization on the space of rigid and flexible motions: an alternative manifold optimization approach.Proceedings of the ... IEEE Conference on Decision & Control. IEEE Conference on Decision & Control · 2014
    Article
  3. Flexible Refinement of Protein-Ligand Docking on Manifolds.Proceedings of the ... IEEE Conference on Decision & Control. IEEE Conference on Decision & Control · 2013
    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

6 authors.

Hanieh MirzaeiDivision of Systems Eng., Boston University, hanieh@bu.edu.
Dima KozakovD. Kozakov, D. Beglov, and S. Vajda are with the Dept. of Biomedical Eng., Boston University, {midas, dbeglov, vajda}@bu.edu.
Dmitri BeglovD. Kozakov, D. Beglov, and S. Vajda are with the Dept. of Biomedical Eng., Boston University, {midas, dbeglov, vajda}@bu.edu.
Ioannis Ch PaschalidisDept. of Electrical & Computer Eng., and Division of Systems Eng., Boston University, yannisp@bu.edu.
Sandor VajdaD. Kozakov, D. Beglov, and S. Vajda are with the Dept. of Biomedical Eng., Boston University, {midas, dbeglov, vajda}@bu.edu.
Pirooz VakiliDivision of Systems Eng., Boston University, hanieh@bu.edu.

Funding

A MULTISTAGE APPROACH TO PROTEIN-PROTEIN DOCKINGR01GM061867 · NIGMS · BOSTON UNIVERSITY (CHARLES RIVER CAMPUS) · PI VAJDA, SANDOR · 2000 to 2016
$4.0M
Refinement Methods for Protein Docking based on Exploring Multi-Dimensional EnergR01GM093147 · NIGMS · BOSTON UNIVERSITY (CHARLES RIVER CAMPUS) · PI KOZAKOV, DMYTRO, PASCHALIDIS, IOANNIS · 2011 to 2014
$1.2M
NIGMS NIH HHS R01 GM061867NIGMS NIH HHS R01 GM093147
6 · The paper itself

Abstract

Our work is motivated by energy minimization in the space of rigid affine transformations of macromolecules, an essential step in computational protein-protein docking. We introduce a novel representation of rigid body motion that leads to a natural formulation of the energy minimization problem as an optimization on the [Formula: see text] manifold, rather than the commonly used

Identifiers

PMID24763338
PMCPMC3992991

What OpenQuestion holds

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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.