GigaScience

Latest preprint reviews

1. A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae: Phoxinus phoxinus) provide evidence of haplotype diversity

   This article has 9 authors:

   1. Temitope Opeyemi Oriowo
   2. Ioannis Chrysostomakis
   3. Sebastian Martin
   4. Sandra Kukowka
   5. Thomas Brown
   6. Sylke Winkler
   7. Eugene W Myers
   8. Astrid Boehne
   9. Madlen Stange

   Reviewed by GigaScience

2. Knowledge Graph-based Thought: a knowledge graph enhanced LLMs framework for pan-cancer question answering

   This article has 6 authors:

   1. Yichun Feng
   2. Lu Zhou
   3. Chao Ma
   4. Yikai Zheng
   5. Ruikun He
   6. Yixue Li

   Reviewed by GigaScience

3. PlasGO: enhancing GO-based function prediction for plasmid-encoded proteins based on genetic structure

   This article has 7 authors:

   1. Yongxin Ji
   2. Jiayu Shang
   3. Jiaojiao Guan
   4. Wei Zou
   5. Herui Liao
   6. Xubo Tang
   7. Yanni Sun

   Reviewed by GigaScience

4. demuxSNP: supervised demultiplexing scRNAseq using cell hashing and SNPs

   This article has 4 authors:

   1. Michael P. Lynch
   2. Yufei Wang
   3. Laurent Gatto
   4. Aedin C. Culhane

   Reviewed by GigaScience

5. stMMR: accurate and robust spatial domain identification from spatially resolved transcriptomics with multi-modal feature representation

   This article has 10 authors:

   1. Daoliang Zhang
   2. Na Yu
   3. Wenrui Li
   4. Xue Sun
   5. Qi Zou
   6. Xiangyu Li
   7. Zhiping Liu
   8. Zhiyuan Yuan
   9. Wei Zhang
   10. Rui Gao

   Reviewed by GigaScience

6. De novo assembly and characterization of a highly degenerated ZW sex chromosome in the fish Megaleporinus macrocephalus

   This article has 19 authors:

   1. Carolina Heloisa de Souza Borges
   2. Ricardo Utsunomia
   3. Alessandro Varani
   4. Marcela Uliano-Silva
   5. Lieschen Valeria G. Lira
   6. Arno J. Butzge
   7. John F. Gomez Agudelo
   8. Shisley Manso
   9. Milena V. Freitas
   10. Raquel B. Ariede
   11. Vito A. Mastrochirico-Filho
   12. Carolina Penaloza
   13. Agustín Barria
   14. Fábio Porto-Foresti
   15. Fausto Foresti
   16. Ricardo Hattori
   17. Yann Guiguen
   18. Ross D. Houston
   19. Diogo Teruo Hashimoto

   Reviewed by GigaScience

7. CAT Bridge: An Efficient Toolkit for Gene-Metabolite Association Mining from Multi-Omics Data

   This article has 11 authors:

   1. Bowen Yang
   2. Tan Meng
   3. Xinrui Wang
   4. Jun Li
   5. Shuang Zhao
   6. Yingheng Wang
   7. Shu Yi
   8. Yi Zhou
   9. Yi Zhang
   10. Liang Li
   11. Li Guo

   Reviewed by GigaScience

8. Discovering genotype-phenotype relationships with machine learning and the Visual Physiology Opsin Database (VPOD)

   This article has 5 authors:

   1. Seth A. Frazer
   2. Mahdi Baghbanzadeh
   3. Ali Rahnavard
   4. Keith A. Crandall
   5. Todd H. Oakley

   Reviewed by GigaScience

9. CoCoPyE: feature engineering for learning and prediction of genome quality indices

   This article has 7 authors:

   1. Niklas Birth
   2. Nicolina Leppich
   3. Julia Schirmacher
   4. Nina Andreae
   5. Rasmus Steinkamp
   6. Matthias Blanke
   7. Peter Meinicke

   Reviewed by GigaScience

10. A data standard for the reuse and reproducibility of any stable isotope probing-derived nucleic acid sequence (MISIP)

    This article has 7 authors:

    1. Abigayle Simpson
    2. Elisha M. Wood Charlson
    3. Montana Smith
    4. Kathleen Beilsmith
    5. Ben Koch
    6. Ramona L. Walls
    7. Roland C. Wilhelm

    Reviewed by GigaScience