GigaScience

Latest preprint reviews

1. Knowledge graph–based thought: a knowledge graph–enhanced LLM 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

2. 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

3. 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

4. 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

5. 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

6. 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

7. 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

8. 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

9. MISIP: a data standard for the reuse and reproducibility of any stable isotope probing-derived nucleic acid sequence and experiment

   This article has 11 authors:

   1. Abigayle Simpson
   2. Elisha M Wood-Charlson
   3. Montana Smith
   4. Benjamin J Koch
   5. Kathleen Beilsmith
   6. Jeffrey A Kimbrel
   7. Matthew Kellom
   8. Christopher I Hunter
   9. Ramona L Walls
   10. Lynn M Schriml
   11. Roland C Wilhelm

   Reviewed by GigaScience

10. StereoSiTE: a framework to spatially and quantitatively profile the cellular neighborhood organized iTME

    This article has 18 authors:

    1. Xing Liu
    2. Chi Qu
    3. Chuandong Liu
    4. Na Zhu
    5. Huaqiang Huang
    6. Fei Teng
    7. Caili Huang
    8. Bingying Luo
    9. Xuanzhu Liu
    10. Min Xie
    11. Feng Xi
    12. Mei Li
    13. Liang Wu
    14. Yuxiang Li
    15. Ao Chen
    16. Xun Xu
    17. Sha Liao
    18. Jiajun Zhang

    Reviewed by GigaScience