Boxiang Liu
@boxiangliu.bsky.social
Presidential Young Professor @ National University of Singapore. Stanford PhD, ex-Baidu Research Lead. Functional Genomics, Data Science, AI/ML. www.boxiangliulab.com
Pinned
Boxiang Liu
@boxiangliu.bsky.social
· Dec 5
Single-cell RNA sequencing of peripheral blood links cell-type-specific regulation of splicing to autoimmune and inflammatory diseases - Nature Genetics
This analysis of single-cell RNA sequencing data from peripheral blood mononuclear cells for 474 individuals of diverse Asian ancestries in the Asian Immune Diversity Atlas links cell-type-specific sp...
www.nature.com
Our paper on single-cell splicing QTL is now published as a cover article in Nature Genetics. www.nature.com/articles/s41...
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Excited to share our new paper on Cell Genomics: We mapped how genetics shape the muscle transcriptome in response to exercise and diet intervention.
📄 www.cell.com/cell-genomic...
📄 www.cell.com/cell-genomic...
Redirecting
doi.org
July 19, 2025 at 5:43 AM
Excited to share our new paper on Cell Genomics: We mapped how genetics shape the muscle transcriptome in response to exercise and diet intervention.
📄 www.cell.com/cell-genomic...
📄 www.cell.com/cell-genomic...
Collaborative work led by Zhihao and me finally online at Nature Communications! nature.com/articles/s41...
Huge congratulations to Zhihao and his outstanding leadership. Also, to first author Foozhan Tahmasebinia, and key contributions from Yinglu Tang and Rushi Tang!
Huge congratulations to Zhihao and his outstanding leadership. Also, to first author Foozhan Tahmasebinia, and key contributions from Yinglu Tang and Rushi Tang!
The 40S ribosomal subunit recycling complex modulates mitochondrial dynamics and endoplasmic reticulum - mitochondria tethering at mitochondrial fission/fusion hotspots - Nature Communications
Coordinating protein translation with energy supply is a significant challenge faced by cells. Here, the authors found that the protein quality control network may provide a link between the two.
nature.com
January 25, 2025 at 4:44 PM
Collaborative work led by Zhihao and me finally online at Nature Communications! nature.com/articles/s41...
Huge congratulations to Zhihao and his outstanding leadership. Also, to first author Foozhan Tahmasebinia, and key contributions from Yinglu Tang and Rushi Tang!
Huge congratulations to Zhihao and his outstanding leadership. Also, to first author Foozhan Tahmasebinia, and key contributions from Yinglu Tang and Rushi Tang!
Exciting new benchmark for DNA language models!
Excited to announce DART-Eval, our latest work on benchmarking DNALMs! Catch us at #NeurIPS!
(1/10) Excited to announce our latest work! @arpita-s.bsky.social, @amanpatel100.bsky.social , and I will be presenting DART-Eval, a rigorous suite of evals for DNA Language Models on transcriptional regulatory DNA at #NeurIPS2024. Check it out! arxiv.org/abs/2412.05430
December 11, 2024 at 2:40 AM
Exciting new benchmark for DNA language models!
This study is truly amazing.
This is huge. Mis-splicing of a 24nt-long micro-exon in the CPEB4 #RNA binding protein leads to formation of irreversible aggregates, which normally would dissolve after depolarization, and consequent deregulation of genes associated with autism spectrum disorders www.nature.com/articles/s41...
Mis-splicing of a neuronal microexon promotes CPEB4 aggregation in ASD - Nature
The molecular mechanisms of how small changes in the degree of inclusion of a neuron-specific microexon in CPEB4 lead to dominant-negative effects in the expression of genes associated with autism spe...
www.nature.com
December 9, 2024 at 3:46 AM
This study is truly amazing.
The next Human Cell Atlas will be held in Singapore in June 2025. The early-bird registration is already open: 2025events.humancellatlas.org/2025GM
I highly encourage single-cell folks to register. Many exciting talks ahead!
I highly encourage single-cell folks to register. Many exciting talks ahead!
2025 Human Cell Atlas General Meeting
The 2025 HCA General Meeting will convene our community to share updates on assembling HCA Atlases of specific tissues, and to plan for the release of the first draft Human Cell Atlas. We will discuss...
2025events.humancellatlas.org
December 6, 2024 at 2:28 AM
The next Human Cell Atlas will be held in Singapore in June 2025. The early-bird registration is already open: 2025events.humancellatlas.org/2025GM
I highly encourage single-cell folks to register. Many exciting talks ahead!
I highly encourage single-cell folks to register. Many exciting talks ahead!
Our paper on single-cell splicing QTL is now published as a cover article in Nature Genetics. www.nature.com/articles/s41...
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Single-cell RNA sequencing of peripheral blood links cell-type-specific regulation of splicing to autoimmune and inflammatory diseases - Nature Genetics
This analysis of single-cell RNA sequencing data from peripheral blood mononuclear cells for 474 individuals of diverse Asian ancestries in the Asian Immune Diversity Atlas links cell-type-specific sp...
www.nature.com
December 5, 2024 at 3:28 AM
Our paper on single-cell splicing QTL is now published as a cover article in Nature Genetics. www.nature.com/articles/s41...
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Congratulations to co-first authors Chi Tian, Yihan Tong, and Yuntian Zhang! Huge thanks to AIDA leaders Shyam Prabhakar, @jayshin.bsky.social, Woong-Yang, and Kian Hong!
Very exciting work for biology and drug discovery!
Now on biorxiv! The JUMP-Cell Painting Consortium’s paper:
“Morphological map of under- and over-expression of genes in human cells”
This is the genetic perturbation portion of the JUMP’s dataset; our chemical perturbation paper will come in a few months
www.biorxiv.org/content/10.1...
“Morphological map of under- and over-expression of genes in human cells”
This is the genetic perturbation portion of the JUMP’s dataset; our chemical perturbation paper will come in a few months
www.biorxiv.org/content/10.1...
Morphological map of under- and over-expression of genes in human cells
Cell Painting images offer valuable insights into the state of a cell and enable many biological applications, but publicly available arrayed datasets only include hundreds of genes perturbed. The JUM...
www.biorxiv.org
December 5, 2024 at 2:56 AM
Very exciting work for biology and drug discovery!
QC is arguably the most important step in any single cell analysis. Low quality data can lead to incorrect conclusions.
scRNA-seq has revolutionized biology, but it’s not without challenges. We uncovered significant quality issues in widely used reference cell atlases like the Human Cell Atlas and Tabula Sapiens. Up to 85% of cells in some datasets are low-quality or misidentified!
2/8
2/8
December 4, 2024 at 5:46 PM
QC is arguably the most important step in any single cell analysis. Low quality data can lead to incorrect conclusions.
HCA Asia 2024 off to a great start!
December 3, 2024 at 2:07 AM
HCA Asia 2024 off to a great start!
En route to HCA Hong Kong. Excited to reconnect with old friends and making new ones!
December 2, 2024 at 8:08 AM
En route to HCA Hong Kong. Excited to reconnect with old friends and making new ones!
Comprehensive knockdown of 305 splicing-related proteins and their effect on splicing. Such a tour de force!!
November 29, 2024 at 7:22 AM
Comprehensive knockdown of 305 splicing-related proteins and their effect on splicing. Such a tour de force!!
Here is a starter pack for functional genomics on bluesky. Not sure if there is one already but do let me know if so. Let me know if you want to be added to the list.
go.bsky.app/SvBtD4d
go.bsky.app/SvBtD4d
November 25, 2024 at 1:41 PM
Here is a starter pack for functional genomics on bluesky. Not sure if there is one already but do let me know if so. Let me know if you want to be added to the list.
go.bsky.app/SvBtD4d
go.bsky.app/SvBtD4d
The SG Academies South-East Asia Fellowship Programme (2024 Round) application is now open and will close on 31 Jan 2025. snas.org.sg/saseaf.
Programme Details — Singapore National Academy of Science
snas.org.sg
November 21, 2024 at 2:23 PM
The SG Academies South-East Asia Fellowship Programme (2024 Round) application is now open and will close on 31 Jan 2025. snas.org.sg/saseaf.
Is there a starter pack for functional genomics? Should I start one?
November 21, 2024 at 2:22 PM
Is there a starter pack for functional genomics? Should I start one?
Has anyone used Video Byte or Graphical Abstract service by Springer Nature? Is it worth it?
November 20, 2024 at 2:17 AM
Has anyone used Video Byte or Graphical Abstract service by Springer Nature? Is it worth it?