Raivo Kolde
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Pheatmap: pretty heatmaps
R Kolde
R package version 1 (2), 726, 2019
Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans
T Vatanen, AD Kostic, E d’Hennezel, H Siljander, EA Franzosa, ...
Cell 165 (4), 842-853, 2016
Robust rank aggregation for gene list integration and meta-analysis
R Kolde, S Laur, P Adler, J Vilo
Bioinformatics 28 (4), 573-580, 2012
Indoleacrylic acid produced by commensal peptostreptococcus species suppresses inflammation
M Wlodarska, C Luo, R Kolde, E d’Hennezel, JW Annand, CE Heim, ...
Cell host & microbe 22 (1), 25-37. e6, 2017
DNA methylome profiling of human tissues identifies global and tissue-specific methylation patterns
K Lokk, V Modhukur, B Rajashekar, K Märtens, R Mägi, R Kolde, ...
Genome biology 15, 1-14, 2014
Human embryonic stem cell-derived test systems for developmental neurotoxicity: a transcriptomics approach
AK Krug, R Kolde, JA Gaspar, E Rempel, NV Balmer, K Meganathan, ...
Archives of toxicology 87, 123-143, 2013
Meta‐analysis of microRNA expression in lung cancer
U Vosa, T Vooder, R Kolde, J Vilo, A Metspalu, T Annilo
International journal of cancer 132 (12), 2884-2893, 2013
Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life
T Vatanen, DR Plichta, J Somani, PC Münch, TD Arthur, AB Hall, S Rudolf, ...
Nature microbiology 4 (3), 470-479, 2019
Mining for coexpression across hundreds of datasets using novel rank aggregation and visualization methods
P Adler, R Kolde, M Kull, A Tkachenko, H Peterson, J Reimand, J Vilo
Genome biology 10, 1-11, 2009
Flow cytometric analysis of mononuclear phagocytes in nondiseased human lung and lung-draining lymph nodes
AN Desch, SL Gibbings, R Goyal, R Kolde, J Bednarek, T Bruno, ...
American journal of respiratory and critical care medicine 193 (6), 614-626, 2016
MicroRNA expression profiles of human blood monocyte-derived dendritic cells and macrophages reveal miR-511 as putative positive regulator of Toll-like receptor 4
L Tserel, T Runnel, K Kisand, M Pihlap, L Bakhoff, R Kolde, H Peterson, ...
Journal of Biological Chemistry 286 (30), 26487-26495, 2011
Host genetic variation and its microbiome interactions within the Human Microbiome Project
R Kolde, EA Franzosa, G Rahnavard, AB Hall, H Vlamakis, C Stevens, ...
Genome medicine 10, 1-13, 2018
Identification of miR‐374a as a prognostic marker for survival in patients with early‐stage nonsmall cell lung cancer
U Võsa, T Vooder, R Kolde, K Fischer, K Välk, N Tõnisson, R Roosipuu, ...
Genes, Chromosomes and Cancer 50 (10), 812-822, 2011
Age-related profiling of DNA methylation in CD8+ T cells reveals changes in immune response and transcriptional regulator genes
L Tserel, R Kolde, M Limbach, K Tretyakov, S Kasela, K Kisand, M Saare, ...
Scientific reports 5 (1), 13107, 2015
Gene expression profiles of non-small cell lung cancer: survival prediction and new biomarkers
K Välk, T Vooder, R Kolde, MA Reintam, C Petzold, J Vilo, A Metspalu
Oncology 79 (3-4), 283-292, 2011
Design principles of concentration-dependent transcriptome deviations in drug-exposed differentiating stem cells
T Waldmann, E Rempel, NV Balmer, A König, R Kolde, JA Gaspar, ...
Chemical research in toxicology 27 (3), 408-420, 2014
From transient transcriptome responses to disturbed neurodevelopment: role of histone acetylation and methylation as epigenetic switch between reversible and irreversible drug …
NV Balmer, S Klima, E Rempel, VN Ivanova, R Kolde, MK Weng, ...
Archives of toxicology 88, 1451-1468, 2014
Characterization of the phosphoinositide 3-kinase-dependent transcriptome in murine embryonic stem cells: identification of novel regulators of pluripotency
MP Storm, B Kumpfmueller, B Thompson, R Kolde, J Vilo, O Hummel, ...
Stem cells 27 (4), 764-775, 2009
Methylation markers of early-stage non-small cell lung cancer
K Lokk, T Vooder, R Kolde, K Välk, U Võsa, R Roosipuu, L Milani, ...
PloS one 7 (6), e39813, 2012
The FunGenES database: a genomics resource for mouse embryonic stem cell differentiation
H Schulz, R Kolde, P Adler, I Aksoy, K Anastassiadis, M Bader, N Billon, ...
PLoS One 4 (9), e6804, 2009
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