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317: COPD sQTL colocalization in lung and blood identifies FBXO38 and BTC splicing mechanisms

16 Mar 2026

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Saferali A et al., Human Genetics and Genomics Advances - RNA-seq in human lung (LTRC) and blood (COPDGene) reveals COPD-associated variants colocalize with splicing QTLs, implicating FBXO38 cryptic exon NMD and BTC exon4 isoform shifts. Study Highlights:The study analyzed RNA-seq from COPDGene whole blood (n≈3,743) and LTRC lung tissue (n=1,241) using LeafCutter for splicing and tensorQTL for cis associations, followed by Moloc colocalization and targeted Oxford Nanopore long-read sequencing. Authors identified 58,258 lung splice sites and widespread eQTLs/sQTLs, and found 38 genomic windows (corresponding to 33 GWAS loci) with strong colocalization between QTLs and COPD GWAS signals. Top colocalizations in lung sQTLs included NPNT, FBXO38, HHIP, NTN4, and BTC, and long-read data resolved isoform changes for FBXO38 and BTC. Functionally, FBXO38 cryptic exon inclusion is associated with predicted nonsense-mediated decay and decreased expression, and BTC exon 4 inclusion alters isoform ratios that affect the EGF-like domain. Conclusion:Multiple COPD GWAS associations colocalize with sQTLs and eQTLs in lung and blood, identifying candidate genes such as FBXO38 and BTC and implicating splicing-mediated mechanisms in COPD risk. Music:Enjoy the music based on this article at the end of the episode. Reference:Saferali A., Kim W., Chase R.P., NHLBI TransOmics in Precision Medicine (TOPMed), Vollmers C., Silverman E.K., Cho M.H., Castaldi P.J., Hersh C.P. Overlap between COPD genetic association results and transcriptional quantitative trait loci. Human Genetics and Genomics Advances. 2026 Jan 15;7:100493. https://doi.org/10.1016/j.xhgg.2025.100493. License:This episode is based on an open-access article published under the Creative Commons Attribution 4.0 International License (CC BY 4.0) - https://creativecommons.org/licenses/by/4.0/ Support:Base by Base – Stripe donations: https://donate.stripe.com/7sY4gz71B2sN3RWac5gEg00 Official website https://basebybase.com On PaperCast Base by Base you’ll discover the latest in genomics, functional genomics, structural genomics, and proteomics. Episode link: https://basebybase.com/episodes/copd-sqtl-fbxo38-btc

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13:00H | 21 DIC 2025 | Fin de Semana

01 Jan 1970

Fin de Semana

10:00H | 21 DIC 2025 | Fin de Semana

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12:00H | 20 DIC 2025 | Fin de Semana

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2ª PARTE | 06 ENE 2026 | EL PARTIDAZO DE COPE

01 Jan 1970

El Partidazo de COPE

3ª PARTE | 22 ENE 2026 | EL PARTIDAZO DE COPE

01 Jan 1970

El Partidazo de COPE

3ª PARTE | 04 MAR 2026 | EL PARTIDAZO DE COPE

01 Jan 1970

El Partidazo de COPE

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Base by Base

317: COPD sQTL colocalization in lung and blood identifies FBXO38 and BTC splicing mechanisms

This episode hasn't been transcribed yet

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13:00H | 21 DIC 2025 | Fin de Semana

10:00H | 21 DIC 2025 | Fin de Semana

12:00H | 20 DIC 2025 | Fin de Semana

2ª PARTE | 06 ENE 2026 | EL PARTIDAZO DE COPE

3ª PARTE | 22 ENE 2026 | EL PARTIDAZO DE COPE

3ª PARTE | 04 MAR 2026 | EL PARTIDAZO DE COPE

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