Patrick Tagert (Ysearcher)
Connected studies and activities

Genome/Exome Upload Gencove Data sharing and ethical oversight Personal Data Notebooks Data Selfies The Preference Project Cross-Genome Error Check American Gut Project GenomiX Genome Exploration Harvard Personal Genome Project Genevieve Genome Report 23andMe Upload lineage Public Data Sharing
About me

Registered nurse (operating room) for over 27 years, "semi-retired". PGP participant, tested by at least a dozen retail and/or non-profit genomics testing companies/institutions over the past ten years, and 12 members of my immediate family (spanning four generations) tested by various retail genomics testing companies, & whole exomes (x2) for immediate family. Great interest in archaeology (particularly, forensic genomics) and human origins, but primary interests shifting to molecular genetics.

Sporadic ALS,LOAD (APOE-e2/e3), PD, and IGE, in immediate and extended family, no causal variants identified to date, May 2019. Our family is very open to working with researchers attempting to decipher these devastating disorders. sALS trio, comprised of PGP whole genome (VCF only), and two whole exomes as noted below. Please contact me directly (ysearcher@mac.com) if you wish to use whole exome data files for additional family members. (Platform: Illumina HiSeq; Enrichment: Nextera Rapid Capture Expanded Exome Kit - FC-140-1006, Average 70X Coverage, BAM, FASTQ and VCF files available). Five autosomal recessive variants (heterozygous only) identified to date, including HEXA (R170W) We are currently focused on searching for clinically significant de novo mutations and autosomal recessive compound heterozygous variants.

I have lately become increasingly aware of the need to use a variety of technologies to get an accurate genome assessment, e.g, Next Generation Sequencing, Long Read Sequencing (Pac-Bio), genotyping, Sanger Sequencing (for confirmation of variants), HLA imputation from NGS & Pac-Bio, NanoPore MINION long read sequencing, virtual karyotyping, etc., and I continue to explore any affordable avenues to access those technologies. May 2019 update - BioNano Genomics relatively new Saphyr structural variant analysis is of great interest at present. This technology appears to be emerging as a leading contender for structural variant analyisis, and I am actively engaged in searching this sequencing service from any lab that has access to the technology.

Public data

23andMe Upload

23andMe-genotyping.txt
(23.8 MB) 23andMe full genotyping data, original format
23andMe-genotyping.txt
(12.9 MB) 23andMe full genotyping data, original format
23andMe-genotyping.vcf.bz2
(9.4 KB) 23andMe full genotyping data, VCF format
23andMe-genotyping.vcf.bz2
(5.2 MB) 23andMe full genotyping data, VCF format

American Gut Project

American-Gut-SAMEA3612275-ena-info.json
(2.3 KB) American Gut sample accession data from the European Nucleotide Archive, JSON format.
American-Gut-SAMEA3612275-ena-info.tsv
(1.8 KB) American Gut sample accession data from the European Nucleotide Archive, TSV format.
American-Gut-SAMEA3612275-metadata.json
(15.3 KB) American Gut sample survey data and metadata, JSON format.
American-Gut-SAMEA3612275-metadata.tsv
(11.5 KB) American Gut sample survey data and metadata, TSV format.
American-Gut-SAMEA3612275-run-ERR1076808.fastq.gz
(2.9 MB) American Gut 16S FASTQ raw sequencing data.
American-Gut-SAMEA3612276-ena-info.json
(2.3 KB) American Gut sample accession data from the European Nucleotide Archive, JSON format.
American-Gut-SAMEA3612276-ena-info.tsv
(1.8 KB) American Gut sample accession data from the European Nucleotide Archive, TSV format.
American-Gut-SAMEA3612276-metadata.json
(15.3 KB) American Gut sample survey data and metadata, JSON format.
American-Gut-SAMEA3612276-metadata.tsv
(11.5 KB) American Gut sample survey data and metadata, TSV format.
American-Gut-SAMEA3612276-run-ERR1076809.fastq.gz
(3.9 MB) American Gut 16S FASTQ raw sequencing data.
American-Gut-SAMEA3612277-ena-info.json
(2.3 KB) American Gut sample accession data from the European Nucleotide Archive, JSON format.
American-Gut-SAMEA3612277-ena-info.tsv
(1.8 KB) American Gut sample accession data from the European Nucleotide Archive, TSV format.
American-Gut-SAMEA3612277-metadata.json
(15.3 KB) American Gut sample survey data and metadata, JSON format.
American-Gut-SAMEA3612277-metadata.tsv
(11.5 KB) American Gut sample survey data and metadata, TSV format.
American-Gut-SAMEA3612277-run-ERR1076810.fastq.gz
(2.9 MB) American Gut 16S FASTQ raw sequencing data.
American-Gut-SAMEA3612278-ena-info.json
(2.3 KB) American Gut sample accession data from the European Nucleotide Archive, JSON format.
American-Gut-SAMEA3612278-ena-info.tsv
(1.8 KB) American Gut sample accession data from the European Nucleotide Archive, TSV format.
American-Gut-SAMEA3612278-metadata.json
(15.3 KB) American Gut sample survey data and metadata, JSON format.
American-Gut-SAMEA3612278-metadata.tsv
(11.5 KB) American Gut sample survey data and metadata, TSV format.
American-Gut-SAMEA3612278-run-ERR1076811.fastq.gz
(1.8 MB) American Gut 16S FASTQ raw sequencing data.
American-Gut-SAMEA3613080-ena-info.json
(2.3 KB) American Gut sample accession data from the European Nucleotide Archive, JSON format.
American-Gut-SAMEA3613080-ena-info.tsv
(1.8 KB) American Gut sample accession data from the European Nucleotide Archive, TSV format.
American-Gut-SAMEA3613080-metadata.json
(15.3 KB) American Gut sample survey data and metadata, JSON format.
American-Gut-SAMEA3613080-metadata.tsv
(11.5 KB) American Gut sample survey data and metadata, TSV format.
American-Gut-SAMEA3613080-run-ERR1077651.fastq.gz
(393.3 KB) American Gut 16S FASTQ raw sequencing data.

Data Selfies

Tagert_mtDNA_FullSequence.pdf
(2.7 MB)

Genome/Exome Upload

a47f012d770e4e70920f38bc2307b649.vcf.gz
(541.7 MB) User-contributed VCF data

Harvard Personal Genome Project

PGP-Harvard-hu76CAA5-surveys.json
(15.7 KB) PGP Harvard survey data, JSON format.
PGP-Harvard-hu76CAA5-var.tsv.bz2
(225.8 MB) PGP Harvard genome, Complete Genomics var file format.
PGP-Harvard-hu76CAA5-var.vcf.bz2
(32.9 MB) PGP Harvard genome, VCF file. Derived from Complete Genomics var file.

lineage

lineage_GRCh37.csv
(22.9 MB) SNPs merged (if applicable) and mapped relative to the GRCh37 assembly
lineage_GRCh38.csv
(22.9 MB) SNPs merged (if applicable) and mapped relative to the GRCh38 assembly
lineage_NCBI36.csv
(22.9 MB) SNPs merged (if applicable) and mapped relative to the NCBI36 assembly