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An integrative computational systems biology approach identifies differentially regulated dynamic transcriptome signatures which drive the initiation of human T helper cell differentiationRNA-binding protein L1TD1 interacts with LIN28 via RNA and is required for human embryonic stem cell self-renewal and cancer cell proliferationIn silico microdissection of microarray data from heterogeneous cell populationsRobust detection of periodic time series measured from biological systems.Proviral integration site for Moloney murine leukemia virus (PIM) kinases promote human T helper 1 cell differentiationReconstruction and validation of RefRec: a global model for the yeast molecular interaction network.The effect of listening to music on human transcriptomeQuantitative proteomics analysis of signalosome dynamics in primary T cells identifies the surface receptor CD6 as a Lat adaptor-independent TCR signaling hubThe effect of music performance on the transcriptome of professional musicians.Dissecting the dynamic changes of 5-hydroxymethylcytosine in T-cell development and differentiation.Genome-wide copy number variation analysis in extended families and unrelated individuals characterized for musical aptitude and creativity in music.The genome-wide landscape of copy number variations in the MUSGEN study provides evidence for a founder effect in the isolated Finnish population.Methods for time series analysis of RNA-seq data with application to human Th17 cell differentiation.BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data.Analyzing Th17 cell differentiation dynamics using a novel integrative modeling framework for time-course RNA sequencing data.Data-driven mechanistic analysis method to reveal dynamically evolving regulatory networks.Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data.A data integration framework for prediction of transcription factor targets.A joint finite mixture model for clustering genes from independent Gaussian and beta distributed dataA linear model for transcription factor binding affinity prediction in protein binding microarrays.Probabilistic analysis of gene expression measurements from heterogeneous tissues.Heterogeneous nuclear ribonucleoprotein L-like (hnRNPLL) and elongation factor, RNA polymerase II, 2 (ELL2) are regulators of mRNA processing in plasma cellsContinuous hypoxic culturing of human embryonic stem cells enhances SSEA-3 and MYC levels.Evaluating a linear k-mer model for protein-DNA interactions using high-throughput SELEX data.The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes.Relationships between probabilistic Boolean networks and dynamic Bayesian networks as models of gene regulatory networks.MixChIP: a probabilistic method for cell type specific protein-DNA binding analysis.Synthetic Transcription Amplifier System for Orthogonal Control of Gene Expression in Saccharomyces cerevisiaeVariation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.Cancer-associated ASXL1 mutations may act as gain-of-function mutations of the ASXL1-BAP1 complex.The role of certain Post classes in Boolean network models of genetic networks.Global chromatin state analysis reveals lineage-specific enhancers during the initiation of human T helper 1 and T helper 2 cell polarization.Selected proceedings of Machine Learning in Systems Biology: MLSB 2016.Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX.Comparative analysis of human and mouse transcriptomes of Th17 cell priming.Distinguishing key biological pathways between primary breast cancers and their lymph node metastases by gene function-based clustering analysis.Differential gene and protein expression in primary breast malignancies and their lymph node metastases as revealed by combined cDNA microarray and tissue microarray analysis.Inference of Boolean networks using sensitivity regularization.RNA Polymerase III Subunit POLR3G Regulates Specific Subsets of PolyA+ and SmallRNA Transcriptomes and Splicing in Human Pluripotent Stem Cells.Using multi-step proposal distribution for improved MCMC convergence in Bayesian network structure learning.
P50
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P50
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onderzoeker
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
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Harri Lähdesmäki
@sl