Genomic datasets – DIY - For your own analysis

[djoser-xyyman]

Genomic datasets – DIY - For your own analysis





Genomic datasets – DIY - For your own analysis



my.pgp-hms.org/public_genetic_data

ega-archive.org/studies/EGAS00001000959

www.personalgenomes.org.uk/data/

personalgenomes.ca/data

genomaustria.at/das-projekt/

www.personalgenomes.org/us

www.ebi.ac.uk/services/all

discover.repositive.io/collections

discover.repositive.io/collections/68232993-cb35-4fc6-9123-7797cb68c688

discover.repositive.io/collections/986029f3-b19a-4d7a-83a6-452e0029bba2

igor.sbgenomics.com/public/apps/

docs.sevenbridges.com/docs/access-data-from-datasets

software.broadinstitute.org/gatk/

ftp-trace.ncbi.nih.gov/1000genomes/ftp

www.internationalgenome.org/tools

gnomad.broadinstitute.org/downloads

evidence.pgp-hms.org/genomes

[djoser-xyyman]

That's right. Forget about those right wing nut jobs and their lies and mis-direction. Guys like Reich and Patterson and Tishkoff and of course the fag Paabo.

Now we can do our own thing.

Always look for the names and instituitions.

Harvard and Max Plank and to a lesser extent. Upenn. Yes.

Go to independent small Universities to get your dataset and research papers.

[djoser-xyyman]

To those interested. Working on these…doing my own thing

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Sahara/North Sahara Genomes

Indigenous North Africans(Berbers) dataset

www.upf.edu/web/human-genome-diversity/software-data


South Saharan - African genomes database

ega-archive.org/studies/EGAS00001000959


Igbo- Nigeria
Sotho – south africa
Ethiopians (Amhara, Oromo, Somali; subset of Ethiopian Genome Project Genotyping).
Jola - Senegal – Guinea Bissau
Kikuyu - Kenya
Wolof - Senegal
Barundi – mouth of Great Lakes
Kalenjin - Kenya
Banyarwanda- mouth of Great Lakes
Fula- trans Africa
Baganda.- Buganda is a subnational kingdom within Uganda
Zulu – South Africa
Mandinka - Guinea, Ivory Coast, Mali, Senegal, the Gambia and Guinea-Bissau.
Ga-Adangbe- The Ga-Adangme, Gã-Adaŋbɛ, Ga-Dangme, or GaDangme are an ethnic group in Ghana and Togo


Dataset ID Description Technology Samples
EGAD00010001045
APCDR AGV Project: Array data from 99 Igbo. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B 99
EGAD00010001046
APCDR AGV Project: Array data from 86 Sotho. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 86
EGAD00010001047
APCDR AGV Project: Array data from 107 Ethiopians (Amhara, Oromo, Somali; subset of Ethiopian Genome Project Genotyping). Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 107
EGAD00010001048
APCDR AGV Project: Array data from 79 Jola. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 79
EGAD00010001049
APCDR AGV Project: Array data from 99 Kikuyu. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B 99
EGAD00010001050
APCDR AGV Project: Array data from 78 Wolof. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 78
EGAD00010001051
APCDR AGV Project: Array data from 97 Barundi. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 97
EGAD00010001052
APCDR AGV Project: Array data from 100 Kalenjin. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B 100
EGAD00010001053
APCDR AGV Project: Array data from 100 Banyarwanda. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B and HumanOmni2-5_8v1_A 100
EGAD00010001054
APCDR AGV Project: Array data from 74 Fula
Illumina HumanOmni2-5_8v1_A 74

Dataset ID Description Technology Samples
EGAD00010001055
APCDR AGV Project: Array data from 100 Baganda. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B and HumanOmni2-5_8v1_A 100
EGAD00010001056
APCDR AGV Project: Array data from 100 Zulu. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B and HumanOmni2-5_8v1_A 100
EGAD00010001057
APCDR AGV Project: Array data from 88 Mandinka. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2-5_8v1_A 88
EGAD00010001058
APCDR AGV Project: Array data from 100 Ga-Adangbe. Raw data, intensity files and post-QC Plink files.
Illumina HumanOmni2.5-4v1_B and HumanOmni2-5_8v1_A 100
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[djoser-xyyman]

Refrence genome in FASTA and VCF etc

useast.ensembl.org/info/data/ftp/index.html

useast.ensembl.org/Homo_sapiens/Info/Index