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Journal of Computer-Aided Molecular Design
H-index 22

Journal of Computer-Aided Molecular Design

Ranking & Metrics

Discipline name Position Best Scientists Publications D-Index
Chemistry 500 41 62 16
Computer Science 695 11 17 8

Additional Metrics

Number of Best Scientists*: 72
Documents by Best Scientists*: 103
Top 100 Ranked Scientists*: 0
SCIMAGO H-index: 122
SCIMAGO SJR: 0.576
Impact Factor: 3.1

Overview

Top Research Topics at Journal of Computer-aided Molecular Design?

The journal tackles a plethora of topics, such as Stereochemistry, Docking (molecular), Computational chemistry, Quantitative structure–activity relationship and Molecule. The research on Stereochemistry featured in the journal combines topics in other fields like Protein structure, Hydrogen bond, Binding site and Active site. The work on Binding site tackled in the journal brings together disciplines like Plasma protein binding and Ligand.

Research in Computational biology and the interrelating topic of Drug discovery were among the subjects of interest in the Docking (molecular) studies discussed in the journal. The presented Computational chemistry research focuses mostly on Solvation and, on occasion, topics in Thermodynamics. Topics in Quantitative structure–activity relationship were tackled in line with various other fields like Biological system and Artificial intelligence.

While Journal of Computer-aided Molecular Design focused on Artificial intelligence, it was also able to explore topics like Data mining and Pattern recognition. It dives deep in exploring the relationship between the study of Molecule and Crystallography. The Virtual screening study tackled is a key component of adjacent topics in the area of Combinatorial chemistry.

  • Stereochemistry (22.19%)
  • Docking (molecular) (18.04%)
  • Computational chemistry (17.61%)

What are the most cited papers published in the journal?

  • Molden: a pre- and post-processing program for molecular and electronic structures. (2651 citations)
  • Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments (2234 citations)
  • MOPAC: A semiempirical molecular orbital program (2148 citations)

Research areas of the most cited articles at Journal of Computer-aided Molecular Design:

The most cited papers primarily focus on research topics in Docking (molecular), Computational chemistry, Virtual screening, Stereochemistry and Molecule. Issues in Docking (molecular) were discussed in the most cited papers, taking into consideration concepts from other disciplines like Protein structure, Computational biology and Ligand (biochemistry). Binding site and Active site are some topics wherein Stereochemistry research discussed in the most cited publications has an impact.

What topics the last edition of the journal is best known for?

  • Enzyme
  • Gene
  • Artificial intelligence

The previous edition focused in particular on these issues:

The concepts of Molecular dynamics, Artificial intelligence, Molecule, Small molecule and Virtual screening are tackled in the journal. Some problems in Artificial intelligence that were presented in Journal of Computer-aided Molecular Design overlapped with concepts under Machine learning, Pattern recognition and Identification (information). Topics in Molecule explored in Journal of Computer-aided Molecular Design were investigated in conjunction with research in Chemical physics, Molecular physics, Quantum and Tautomer.

Biological system, In silico, Computational biology and Ligand (biochemistry) are some topics wherein Small molecule research discussed in the journal have an impact. Journal of Computer-aided Molecular Design explores research in Computational biology alongside concepts in Protein structure and other areas of study in Drug discovery. It tackled Virtual screening research as part of investigation of Biochemistry and Docking (molecular).

The most cited articles from the last journal are:

  • Supervised molecular dynamics for exploring the druggability of the SARS-CoV-2 spike protein. (13 citations)
  • Non-equilibrium approach for binding free energies in cyclodextrins in SAMPL7: force fields and software (11 citations)
  • Machine learning-accelerated quantum mechanics-based atomistic simulations for industrial applications (10 citations)

Papers citation over time

A key indicator for each journal is its effectiveness in reaching other researchers with the papers published at that venue.

The chart below presents the interquartile range (first quartile 25%, median 50% and third quartile 75%) of the number of citations of articles over time.

The top authors publishing in Journal of Computer-aided Molecular Design (based on the number of publications) are:

  • Jürgen Bajorath (37 papers) published 4 papers at the last edition, 1 less than at the previous edition,
  • David L. Mobley (30 papers) published 5 papers at the last edition, 1 more than at the previous edition,
  • Philip M. Dean (28 papers) absent at the last edition,
  • Wendy A. Warr (22 papers) absent at the last edition,
  • Michael K. Gilson (22 papers) published 2 papers at the last edition, 1 less than at the previous edition.

The overall trend for top authors publishing in this journal is outlined below. The chart shows the number of publications at each edition of the journal for top authors.

Only papers with recognized affiliations are considered

The top affiliations publishing in Journal of Computer-aided Molecular Design (based on the number of publications) are:

  • University of Cambridge (66 papers) absent at the last edition,
  • University of California, San Francisco (45 papers) absent at the last edition,
  • University of Bonn (34 papers) published 4 papers at the last edition, 1 less than at the previous edition,
  • AstraZeneca (32 papers) absent at the last edition,
  • National Institutes of Health (30 papers) published 1 paper at the last edition, 3 less than at the previous edition.

The overall trend for top affiliations publishing in this journal is outlined below. The chart shows the number of publications at each edition of the journal for top affiliations.

Publication chance based on affiliation

The publication chance index shows the ratio of articles published by the best research institutions in the journal edition to all articles published within that journal. The best research institutions were selected based on the largest number of articles published during all editions of the journal.

The chart below presents the percentage ratio of articles from top institutions (based on their ranking of total papers).Top affiliations were grouped by their rank into the following tiers: top 1-10, top 11-20, top 21-50, and top 51+. Only articles with a recognized affiliation are considered.

During the most recent 2021 edition, 7.69% of publications had an unrecognized affiliation. Out of the publications with recognized affiliations, 19.44% were posted by at least one author from the top 10 institutions publishing in the journal. Another 2.78% included authors affiliated with research institutions from the top 11-20 affiliations. Institutions from the 21-50 range included 13.89% of all publications and 63.89% were from other institutions.

Returning Authors Index

A very common phenomenon observed among researchers publishing scientific articles is the intentional selection of journals they have already attended in the past. In particular, it is worth analyzing the case when the authors participate in the same journal from year to year.

The Returning Authors Index presented below illustrates the ratio of authors who participated in both a given as well as the previous edition of the journal in relation to all participants in a given year.

Returning Institution Index

The graph below shows the Returning Institution Index, illustrating the ratio of institutions that participated in both a given and the previous edition of the conference in relation to all affiliations present in a given year.

The experience to innovation index

Our experience to innovation index was created to show a cross-section of the experience level of authors publishing in a journal. The index includes the authors publishing at the last edition of a journal, grouped by total number of publications throughout their academic career (P) and the total number of citations of these publications ever received (C).

The group intervals were selected empirically to best show the diversity of the authors' experiences, their labels were selected as a convenience, not as judgment. The authors were divided into the following groups:

  • Novice - P < 5 or C < 25 (the number of publications less than 5 or the number of citations less than 25),
  • Competent - P < 10 or C < 100 (the number of publications less than 10 or the number of citations less than 100),
  • Experienced - P < 25 or C < 625 (the number of publications less than 25 or the number of citations less than 625),
  • Master - P < 50 or C < 2500 (the number of publications less than 50 or the number of citations less than 2500),
  • Star - P ≥ 50 and C ≥ 2500 (both the number of publications greater than 50 and the number of citations greater than 2500).

The chart below illustrates experience levels of first authors in cases of publications with multiple authors.

Top Publications

  • The SAMPL6 SAMPLing challenge: assessing the reliability and efficiency of binding free energy calculations

    Andrea Rizzi;Travis Jensen;David R. Slochower;Matteo Aldeghi

    (2020)
    113 Citations
  • D3R grand challenge 4: blind prediction of protein–ligand poses, affinity rankings, and relative binding free energies

    Conor D. Parks;Zied Gaieb;Michael Chiu;Huanwang Yang;Huanwang Yang

    (2020)
    95 Citations
  • Meta-iPVP: a sequence-based meta-predictor for improving the prediction of phage virion proteins using effective feature representation

    Phasit Charoenkwan;Chanin Nantasenamat;Md. Mehedi Hasan;Watshara Shoombuatong

    (2020)
    67 Citations
  • TargetCPP: accurate prediction of cell-penetrating peptides from optimized multi-scale features using gradient boost decision tree

    Muhammad Arif;Saeed Ahmad;Farman Ali;Ge Fang

    (2020)
    58 Citations
  • Evaluation of log P, pKa, and log D predictions from the SAMPL7 blind challenge

    Teresa Danielle Bergazin;Nicolas Tielker;Yingying Zhang;Junjun Mao

    (2021)
    58 Citations
  • Assessing the accuracy of octanol–water partition coefficient predictions in the SAMPL6 Part II log P Challenge

    Mehtap Işık;Teresa Danielle Bergazin;Thomas Fox;Andrea Rizzi

    (2020)
    52 Citations
  • Octanol–water partition coefficient measurements for the SAMPL6 blind prediction challenge

    Mehtap Işık;Dorothy Levorse;David L. Mobley;Timothy Rhodes

    (2020)
    50 Citations
  • PoseEdit: enhanced ligand binding mode communication by interactive 2D diagrams

    (2023)
    46 Citations
  • Progress on open chemoinformatic tools for expanding and exploring the chemical space

    José L. Medina-Franco;Norberto Sánchez-Cruz;Edgar López-López;Edgar López-López;Bárbara I. Díaz-Eufracio

    (2021)
    45 Citations
  • BRADSHAW: a system for automated molecular design

    Darren V. S. Green;Stephen D. Pickett;Christopher N. Luscombe;Stefan Senger

    (2020)
    44 Citations

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Best Scientists Contributing to This Journal

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