LAVAA: a lightweight association viewer across ailments

Eric B. Fauman; Stella Keppo; Nicola Cerioli; Rupesh Vyas; Mitja Kurki; Mark Daly; Mary Pat Reeve

doi:10.1093/bioadv/vbad018

LAVAA: a lightweight association viewer across ailments

Eric B. Fauman, Stella Keppo, Nicola Cerioli, Rupesh Vyas, Mitja Kurki, Mark Daly, Mary Pat Reeve

Suomen molekyylilääketieteen instituutti

Tutkimustuotos: Artikkelijulkaisu › Artikkeli › Tieteellinen › vertaisarvioitu

Abstrakti

Motivation: Biobank scale genetic associations results over thousands of traits can be difficult to visualize and navigate. Results: We have created LAVAA, a visualization web-application to generate genetic volcano plots for simultaneously considering the P-value, effect size, case counts, trait class and fine-mapping posterior probability at a singlenucleotide polymorphism (SNP) across a range of traits from a large set of genome-wide association study. We find that user interaction with association results in LAVAA can enrich and enhance the biological interpretation of individual loci. Availability and implementation: LAVAA is available as a stand-alone web service (https://geneviz.aalto.fi/LAVAA/) and will be available in future releases of the finngen.fi website starting with release 10 in late 2023.

Alkuperäiskieli	englanti
Artikkeli	vbad018
Lehti	Bioinformatics advances
Vuosikerta	3
Numero	1
ISSN	2635-0041
DOI - pysyväislinkit	https://doi.org/10.1093/bioadv/vbad018
Tila	Julkaistu - 2023
OKM-julkaisutyyppi	A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä, vertaisarvioitu

Lisätietoja

Publisher Copyright:
© Bioinformatics Advances. All Rights Reserved.

Tieteenalat

1184 Genetiikka, kehitysbiologia, fysiologia
3121 Yleislääketiede, sisätaudit ja muut kliiniset lääketieteet

Pääsy asiakirjaan

10.1093/bioadv/vbad018Lisenssi: CC BY

LAVAALopullinen julkaistu versio, 501 KBLisenssi: CC BY

Siteeraa tätä

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author = "Fauman, {Eric B.} and Stella Keppo and Nicola Cerioli and Rupesh Vyas and Mitja Kurki and Mark Daly and Reeve, {Mary Pat}",

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AU - Fauman, Eric B.

AU - Keppo, Stella

AU - Cerioli, Nicola

AU - Vyas, Rupesh

AU - Kurki, Mitja

AU - Daly, Mark

AU - Reeve, Mary Pat

PY - 2023

Y1 - 2023

N2 - Motivation: Biobank scale genetic associations results over thousands of traits can be difficult to visualize and navigate. Results: We have created LAVAA, a visualization web-application to generate genetic volcano plots for simultaneously considering the P-value, effect size, case counts, trait class and fine-mapping posterior probability at a singlenucleotide polymorphism (SNP) across a range of traits from a large set of genome-wide association study. We find that user interaction with association results in LAVAA can enrich and enhance the biological interpretation of individual loci. Availability and implementation: LAVAA is available as a stand-alone web service (https://geneviz.aalto.fi/LAVAA/) and will be available in future releases of the finngen.fi website starting with release 10 in late 2023.

AB - Motivation: Biobank scale genetic associations results over thousands of traits can be difficult to visualize and navigate. Results: We have created LAVAA, a visualization web-application to generate genetic volcano plots for simultaneously considering the P-value, effect size, case counts, trait class and fine-mapping posterior probability at a singlenucleotide polymorphism (SNP) across a range of traits from a large set of genome-wide association study. We find that user interaction with association results in LAVAA can enrich and enhance the biological interpretation of individual loci. Availability and implementation: LAVAA is available as a stand-alone web service (https://geneviz.aalto.fi/LAVAA/) and will be available in future releases of the finngen.fi website starting with release 10 in late 2023.

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