PGP1 genome project (for fun)

• PGP1 is the first genome of the Personal Genome Project (PGP).
• The latest manuscript of the genome assembly was uploaded to the BioRxiv (https://doi.org/10.1101/2021.09.03.458806).

General Information

• Public profile : https://my.pgp-hms.org/profile_public?hex=hu43860C
• Cell line information : https://web.expasy.org/cellosaurus/CVCL_F182

Information of PGP1 assemblies

Version 1.0

• Hybrid assembly : An assembly of corrected ONT reads by PacBio HiFi
• https://www.ncbi.nlm.nih.gov/nuccore/JAHRGN000000000.1

Version 2.0

• PacBio HiFi based, hybrid assembly with PromethION : In processing
• Methods : https://github.com/macarima/PGP1_genome_project/blob/main/Method_v2.0.md
• Results : https://github.com/macarima/PGP1_genome_project/blob/main/Results_v2.md

Sequencing data (All data are available at the public database.)

PacBio HiFi data (Produced by the Church lab, Harvard Medical School)

A total of 49.5 Gb of data (27x coverage) is available at NCBI Genbank.

• https://www.ncbi.nlm.nih.gov/sra/SRX7671688[accn]

Oxford Nanopore data (Produced by KOGIC, UNIST)

A total of 255 GB of data (85x coverage) in four PromethION R9.4.1 libraries is available at NCBI Genbank.

• https://www.ncbi.nlm.nih.gov/sra/?term=nanopore+pgp1

Illumina short paired-end data (Produced by KOGIC, UNIST)

About 32x of data was generated with 500 bp of insert size on a NovaSeq platform.
The data is available at NCBI Genbank.

• https://www.ncbi.nlm.nih.gov/sra/?term=pgp1+short

Hi-C data (Produced by KOGIC, UNIST)

A Hi-C library was constructed by Arima-Genomics' HiC kit and sequenced on a NovaSeq platform.
The sequencing depth of data is about 109x and the data is available at NCBI Genbank.

• https://www.ncbi.nlm.nih.gov/sra/?term=pgp1+hi-c