Arcadia Science

Latest preprint reviews

1. Integrated flexible DNA methylation-chromatin segmentation modeling enhances epigenomic state annotation

   This article has 6 authors:

   1. Nihit Aggarwal
   2. Johanna Elena Schmitz
   3. Lukas Laufer
   4. Sven Rahmann
   5. Jörn Walter
   6. Abdulrahman Salhab

   Reviewed by Arcadia Science

2. A knowledge-based distance metric highlights underperformance of variant effect predictors on gain-of-function missense variants

   This article has 2 authors:

   1. Lukas Gerasimavicius
   2. Joseph A. Marsh

   Reviewed by Arcadia Science

3. Cellpose-SAM: superhuman generalization for cellular segmentation

   This article has 3 authors:

   1. Marius Pachitariu
   2. Michael Rariden
   3. Carsen Stringer

   Reviewed by Arcadia Science

4. Machine Learning and Network Analysis to Predict Hypothetical Protein Functions of Aeromonas hydrophila

   This article has 7 authors:

   1. Harun Pirim
   2. Zaidur Rahman
   3. Saviz Saei
   4. Sangam Gyawali
   5. Mohammad Marufuzzaman
   6. Nazanin Tajik
   7. Hasan Tekedar

   Reviewed by Arcadia Science

5. A miniaturized, high-throughput buffer-centric method for protein solubility screening

   This article has 4 authors:

   1. Adrian Svoboda
   2. Marina Molineris
   3. Tomáš Pluskal
   4. Teo Hebra

   Reviewed by Arcadia Science

6. Borzoi-informed fine mapping improves causal variant prioritization in complex trait GWAS

   This article has 6 authors:

   1. Divyanshi Srivastava
   2. Anya Korsakova
   3. Qingbo Wang
   4. Luong Ruiz
   5. Han Yuan
   6. David R Kelley

   Reviewed by Arcadia Science

7. Emergence of specific binding and catalysis from a designed generalist binding protein

   This article has 14 authors:

   1. Yuda Chen
   2. Sagar Bhattacharya
   3. Lena Bergmann
   4. Galen J. Correy
   5. Sophia K. Tan
   6. Kaipeng Hou
   7. Justin Biel
   8. Lei Lu
   9. Ian Bakanas
   10. Alexander N. Volkov
   11. Ivan V. Korendovych
   12. Nicholas F. Polizzi
   13. James S. Fraser
   14. William F. DeGrado

   Reviewed by Arcadia Science

8. Expanding automated multiconformer ligand modeling to macrocycles and fragments

   This article has 9 authors:

   1. Jessica Flowers
   2. Nathaniel Echols
   3. Galen J Correy
   4. Priyadarshini Jaishankar
   5. Takaya Togo
   6. Adam R Renslo
   7. Henry van den Bedem
   8. James S Fraser
   9. Stephanie A Wankowicz

   This article has been curated by 1 group:

   • Curated by eLife

     eLife Assessment

     The work presents a valuable extension of qFit-ligand, a computational method for modeling conformational heterogeneity of ligands in X-ray crystallography and cryo-EM density maps. The authors provide solid evidence of improved capabilities through careful validation against the previous version, particularly in expanding ligand sampling within conformational space. Such improvements suggest practical utility for challenging applications, including macrocyclic compound modeling and crystallographic drug fragment screening.

   Reviewed by Arcadia Science, eLife

9. The Phytophthora parasitica effector AVH195 interacts with ATG8, attenuates host autophagy, and promotes biotrophic infection

   This article has 10 authors:

   1. Serena Testi
   2. Marie-Line Kuhn
   3. Valérie Allasia
   4. Pascaline Auroy
   5. Fantao Kong
   6. Gilles Peltier
   7. Sophie Pagnotta
   8. Julie Cazareth
   9. Harald Keller
   10. Franck Panabières

   Reviewed by Arcadia Science

10. Rac1 Selectively Binds a Specific Lamellipodin Isoform via a Noncanonical Helical Interface

    This article has 5 authors:

    1. Tong Gao
    2. Pingfeng Zhang
    3. Alison M. Kurimchak
    4. James S. Duncan
    5. Jinhua Wu

    Reviewed by Arcadia Science