PT  - JOURNAL ARTICLE
AU  - Zhang, Liguo
AU  - Zhang, Yang
AU  - Chen, Yu
AU  - Gholamalamdari, Omid
AU  - Ma, Jian
AU  - Belmont, Andrew S.
TI  - TSA-Seq 2.0 reveals both conserved and variable chromosomal distances to nuclear speckles
AID  - 10.1101/824433
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 824433
4099  - http://biorxiv.org/content/early/2019/10/30/824433.short
4100  - http://biorxiv.org/content/early/2019/10/30/824433.full
AB  - TSA-Seq measures chromosomal distances from specific nuclear compartments genome-wide but requires ≥100 million cells. We report 10-20-fold increased sensitivity using TSA-Seq 2.0 which deliberately saturates protein-labeling but preserves distance mapping by the still unsaturated DNA-labeling. Mapping nuclear speckle distances in four cell lines reveals highly transcriptionally active, conserved speckle-associated chromosome domains but relative shifts of a small fraction of the genome that highly correlates with changes in gene expression.