Alasoo Lab

Here is a selection of papers that we are most proud of. The complete list of publications can be found in Google Scholar or ORCID.

2024

  1. Ida Rahu, Ralf Tambets, Eric B. Fauman, and Kaur Alasoo. “Mendelian randomisation with proxy exposures: challenges and opportunities.” medRxiv (2024): 2024-10.

  2. Ralf Tambets, Jaanika Kronberg, Erik Abner, Urmo Võsa, Ida Rahu, Nele Taba, Anastassia Kolde, Estonian Biobank Research Team, Krista Fischer, Tõnu Esko, Kaur Alasoo*, Priit Palta*. “Genome-wide association study for circulating metabolites in 619,372 individuals.” medRxiv (2024): 2024-10.

  3. Krista Freimann, Anneke Brümmer, Robert Warmerdam, Tarran S. Rupall, Ana Laura Hernández-Ledesma, Joshua Chiou, Emily R. Holzinger, Joseph C. Maranville, Nikolina Nakic, Halit Ongen, Luca Stefanucci, Michael C. Turchin, eQTLGen Consortium, Lude Franke, Urmo Võsa, Carla P Jones, Alejandra Medina-Rivera, Gosia Trynka, Kai Kisand, Sven Bergmann, Kaur Alasoo. “Trans-eQTL mapping prioritises USP18 as a negative regulator of interferon response at a lupus risk locus.”” medRxiv (2024): 2024-07.

  4. Ralf Tambets, Anastassia Kolde, Peep Kolberg, Michael I. Love, and Kaur Alasoo. “Extensive co-regulation of neighbouring genes complicates the use of eQTLs in target gene prioritisation.” HGG Advances (2024): 100348.

2023

  1. François Aguet, Kaur Alasoo, Yang I. Li, Alexis Battle, Hae Kyung Im, Stephen B. Montgomery, and Tuuli Lappalainen. “Molecular quantitative trait loci.” Nature Reviews Methods Primers 3, no. 1 (2023): 4.

  2. Kaur Alasoo. “Clinical traits impacting human tissue transcriptomes.” Cell Genomics 3, no. 1 (2023): 100245.

  3. Nurlan Kerimov, Ralf Tambets, James D. Hayhurst, Ida Rahu, Peep Kolberg, Uku Raudvere, Ivan Kuzmin, Anshika Chowdhary, Andreas Vija, Hans J. Teras, Masahiro Kanai, Jacob Ulirsch, Mina Ryten, John Hardy, Sebastian Guelfi, Daniah Trabzuni, Sarah Kim-Hellmuth, William Rayner, Hilary Finucane, Hedi Peterson, Abayomi Mosaku, Helen Parkinson, Kaur Alasoo “eQTL Catalogue 2023: New datasets, X chromosome QTLs, and improved detection and visualisation of transcript-level QTLs.” PLoS Genetics 19, no. 9 (2023): e1010932.

2022

  1. Kaur Alasoo. “Genetic variants that edit risk of autoimmune diseases.” Nature News and Views (2022): 479-480.

  2. Andreas Vija and Kaur Alasoo. “Improved detection of genetic effects on promoter usage with augmented transcript annotations.” bioRxiv (2022): 2022-07.

2021

  1. Nurlan Kerimov*, James D. Hayhurst*, Kateryna Peikova, Jonathan R. Manning, Peter Walter, Liis Kolberg, Marija Samoviča, Manoj Pandian Sakthivel, Ivan Kuzmin, Stephen J. Trevanion, Tony Burdett, Simon Jupp, Helen Parkinson, Irene Papatheodorou, Andrew D. Yates, Daniel R. Zerbino*, Kaur Alasoo* “A compendium of uniformly processed human gene expression and splicing quantitative trait loci.” Nat Genet 53, 1290–1299 (2021).

2020

  1. Liis Kolberg, Nurlan Kerimov, Hedi Peterson, Kaur Alasoo “Co-expression analysis reveals interpretable gene modules controlled by trans-acting genetic variants” Elife (2020): e58705.

2019

  1. Kaur Alasoo, Julia Rodrigues, John Danesh, Daniel F. Freitag, Dirk S. Paul, and Daniel J. Gaffney. “Genetic effects on promoter usage are highly context-specific and contribute to complex traits.” Elife 8 (2019): e41673.

2018

  1. Kaur Alasoo, Julia Rodrigues, Subhankar Mukhopadhyay, Andrew J. Knights, Alice L. Mann, Kousik Kundu, Christine Hale, Gordon Dougan, and Daniel J. Gaffney. “Shared genetic effects on chromatin and gene expression indicate a role for enhancer priming in immune response.” Nature genetics 50, no. 3 (2018): 424.
  2. Jeremy Schwartzentruber, Stefanie Foskolou, Helena Kilpinen, Julia Rodrigues, Kaur Alasoo, Andrew J. Knights, Minal Patel et al. “Molecular and functional variation in iPSC-derived sensory neurons.” Nature genetics 50, no. 1 (2018): 54.
  3. Pedro Madrigal and Kaur Alasoo. “AP-1 takes centre stage in enhancer chromatin dynamics.” Trends in cell biology 28, no. 7 (2018): 509-511.

2017

  1. William Jones*, Kaur Alasoo*, Dmytro Fishman*, and Leopold Parts. “Computational biology: deep learning.” Emerging Topics in Life Sciences 1, no. 3 (2017): 257-274.
  2. Helena Kilpinen, Angela Goncalves, Andreas Leha, Vackar Afzal, Kaur Alasoo, Sofie Ashford, Sendu Bala et al. “Common genetic variation drives molecular heterogeneity in human iPSCs.” Nature 546, no. 7658 (2017): 370.

2015

  1. Kaur Alasoo, Fernando O. Martinez, Christine Hale, Siamon Gordon, Fiona Powrie, Gordon Dougan, Subhankar Mukhopadhyay, and Daniel J. Gaffney. “Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription.” Scientific reports 5 (2015): 12524.

* Equal contribution.

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