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DNA replication timing of 300 iPSC lines (HipSci)

Approach: whole genome sequencing of proliferating cell cultures

Alignment: hg19

Columns: chromosome, start, end, center coordinate, replication timing of 300 individuals

Data: 

iPSC_individual_replication_profiles

Citation:

The genetic architecture of DNA replication timing in human pluripotent stem cells

Ding Q, Edwards MM, Hulke ML, Bracci AN, Hu Y, Tong Y, Zhu X, Hsiao J, Charvet CJ, Ghosh S, Handsaker RE, Eggan K, Merkle FT, Gerhardt J, Egli D, Clark AG, Koren A

BioRxiv doi.org/10.1101/2020.05.08.085324

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DNA replication timing of the HT115 colon cancer cell line

Approach: S/G1 sorting 

Alignment: hg19

Columns: chromosome, coordinate, replication timing

Data:

HT115

Citation:

Quantification of somatic mutation flow across individual cell division events by lineage sequencing

Brody Y, Kimmerling RJ, Maruvka YE, Benjamin D, Elacqua JJ, Haradhvala NJ, Kim J, Mouw KW, Frangaj K, Koren A, Getz G, Manalis SR, Blainey PC

Genome Research 28(12):1901-1918 (2018) 

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DNA replication timing of five human cell lines

Approach: S/G1 sorting 

Alignment: hg38

Columns: chromosome, coordinate, replication timing

Data:

GM12878

HEK293T

HCC1143

HCC1954

A2780

Citation:

Next-generation sequencing enables spatiotemporal resolution of human centromere replication timing

Massey DJ, Kim D. Brooks KE, Smolka MB, Koren A

Genes10(4):269 (2019)