Bioinformatics

InterPLM: Discovering Interpretable Features in Protein Language Models via Sparse Autoencoders

1. Elana Simon
2. James Zou

Reviewed by PREreview

IMMClock reveals immune aging and T cell function at single-cell resolution

1. Yael Gurevich Schmidt
2. Di Wu
3. Sanna Madan
4. Sanju Sinha
5. Sahil Sahni
6. Vishaka Gopalan
7. Binbin Wang
8. Saugato Rahman Dhruba
9. Alejandro A. Schäffer
10. Nan-ping Weng
11. Nicholas P. Restifo
12. Kun Wang
13. Eytan Ruppin

Reviewed by preLights

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

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

Reviewed by GigaScience

Benchmarking the coding strategies of non-coding mutations on sequence-based downstream tasks with machine learning

1. Zhe Liu
2. Yihang Bao
3. Wenhao Li
4. Weihao Li
5. Guan Nin Lin

Reviewed by Arcadia Science

The Effects of Nonlinear Signal on Expression-Based Prediction Performance

1. Benjamin J. Heil
2. Jake Crawford
3. Casey S. Greene

Reviewed by Arcadia Science, Review Commons

Expression quantitative trait locus mapping in recombinant gametes using single nucleus RNA sequencing

1. Matthew T. Parker
2. Samija Amar
3. José A. Campoy
4. Kristin Krause
5. Sergio Tusso
6. Magdalena Marek
7. Bruno Huettel
8. Korbinian Schneeberger

Reviewed by Review Commons

NeuroVar: an open-source tool for the visualization of gene expression and variation data for biomarkers of neurological diseases

1. Hiba Ben Aribi
2. Najla Abassi
3. Olaitan I. Awe

Reviewed by GigaByte

Reviewed by Arcadia Science

A model-based factorization method for scRNA data unveils bifurcating transcriptional modules underlying cell fate determination

1. Jun Ren
2. Ying Zhou
3. Yudi Hu
4. Jing Yang
5. Hongkun Fang
6. Xuejing Lyu
7. Jintao Guo
8. Xiaodong Shi
9. Qiyuan Li

• Curated by eLife

  eLife Assessment

  MGPfactXMBD is a novel computational method for investigating cell evolutionary trajectory for scRNA-seq samples. It is important, with several potential future applications. The authors benchmarked this method using synthetic and real-world samples and showed superior performance for some of the tasks in cell trajectory analysis compared to other methods with compelling evidence.

Reviewed by eLife

A Structural Proteome Screen Identifies Protein Mimicry in Host-Microbe Systems

1. Gabriel Penunuri
2. Pingting Wang
3. Russell Corbett-Detig
4. Shelbi L Russell

Reviewed by Arcadia Science