Simon (Chong) Chu

Principal Investigator at The Wistar Institute. Computational Biologist. Obsessed with genomic repeats!

[Simon (Chong) Chu @simoncchu]

Delight to share my latest work xTea (https://t.co/fCqG4m0PLh) for TE insertion detection from Illumina, barcode-linked reads, and long reads! 1/n

[Peter J Park @peter_j_park]

Would like to identify transposable element insertions from your whole-genome data? The latest tool from my lab is xTea (x-Transposable element analyzer), developed by the talented Simon Chu. https://t.co/qh7Cn9xX2E

[Yanmei Dou @douyanmei]

Excited to present #SpaceTracer! We now enable accurate somatic mutation detection directly from spatial data—unlocking perturbation-free, spatiotemporal lineage tracing. https://t.co/cL1vOzpa5G #spatialomics #cancerresearch #bioinformatics #SomaticMosaicism

[Simon (Chong) Chu @simoncchu]

@evolscientist Congratulations Rebekah!

[Simon (Chong) Chu @simoncchu]

@GenscaleTeam @p_peterlongo @KarelBrinda @Inria_Rennes @irisa_lab Congrats @KarelBrinda !

[Simon (Chong) Chu @simoncchu]

@MarkFleharty bamsnap is straightforward https://t.co/aDpEeVIiv9

[Simon (Chong) Chu @simoncchu]

@evolscientist Thank you so much @evolscientist for the tweet!

[Simon (Chong) Chu @simoncchu]

It took me more than 3 years on the project, and get lots of help from my co-authors and of course my mentor @peter_j_park. We also want to thank the two anonymous reviewers and @CedricFeschotte group for their valuable comments to help improve the manuscript a lot. 8/8

[Simon (Chong) Chu @simoncchu]

Delight to share my latest work xTea (https://t.co/fCqG4m0PLh) for TE insertion detection from Illumina, barcode-linked reads, and long reads! 1/n

[Peter J Park @peter_j_park]

Would like to identify transposable element insertions from your whole-genome data? The latest tool from my lab is xTea (x-Transposable element analyzer), developed by the talented Simon Chu. https://t.co/qh7Cn9xX2E

[Simon (Chong) Chu @simoncchu]

xTea also works for TE insertion promoted SVs (complex SVs) and dimorphic HERVs. Some of the dimorphic HERVs show internal deletions which cannot be caught from short reads. 7/n

[Simon (Chong) Chu @simoncchu]

@jakelee0711 @BrighamWomens Congrats Jake! Well deserved!

[Heng Li @lh3lh3]

Minigraph preprint on "The design and construction of reference pangenome graphs": rGFA format for pangenome graph, GAF for seq-to-graph alignment, minigraph for mapping and for constructing graphs encoding SVs. There is still room for improvement. https://t.co/P7vwKNgXfe

[EMBL-EBI Jobs @EMBLEBIjobs]

@isidrolauscher’s group at @emblebi is looking to #hire a #PostdoctoralFellow in the field of #cancergenomics. The role requires #bioinformatic analysis of large #datasets. #bioinformaticsjobs #computersciencejobs #postdocjobs #python
https://t.co/XQ7gt0NCd0

[Simon (Chong) Chu @simoncchu]

RIP Mamba :-(

[Simon (Chong) Chu @simoncchu]

@ribozyme @notSoJunkDNA @nygenome @SFGravel @LukeAnderTroc @adamauton @HennLab @rdhernand @erikgarrison I haven't saw the gVCF.