2019

Gene regulatory network of human GM-CSF secreting T helper cells

Year:2019

Authors: S. Elias, A. Schmidt, D. Gomez-Cabrero, J. Tegner

T helper cells Gene regulatory network

STATegra: a comprehensive multi-omics dataset of B-cell differentiation in mouse

Year:2019

Authors: D. Gomez-Cabreroc, S. Tarazona, I. Ferreirós-Vidal, R. Ramirez, A. Schmidt, T. Reijmers, (...), J. Tegner, A. Conesa

Mouse Chromatin structure

On the prediction of protein abundance from RNA

Year:2019

Authors: R. Magnusson, O. Rundquist, M. Kim, S. Hellberg, C. Na, M. Benson, D. Gomez-Cabrero, I. Kochum, J. Tegner, at al.

Protein abundance RNA Complex diseases

Deriving Disease Modules from the Compressed Transcriptional Space Embedded in a Deep Auto-encoder

Year:2019

Authors: S. Dwivedi, A. Tjarnberg, J. Tegner, M. Gustafsson

Disease modules Deep Auto-encoder Disease-related genes

TcellSubC: an atlas of the subcellular proteome of human T cells

Year:2019

Authors: R. Joshi, C. Stadler, R. Lehmann, J. Lehtiö, J. Tegner, A. Schmidt, M. Vesterlund

TcellSubC Subcellular Proteome Human T cells

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Year:2019

Authors: M. Menden, D. Wang, M. Mason, B. Sjalai, AstraZeneca-Sanger Drug Combination DREAM Consortium, at al.

Cancer research Drug antagonism Pharmacogenomic screen

Associations of Plasma 3-Methylhistidine with Frailty Status in French Cohorts of the FRAILOMIC Initiative

Year:2019

Authors: B. Kochlik, W. Stuetz, K. Peres, C. Feart, J. Tegner, L. Rodriguez-Manãs, T. Grune, D. Weber

Frailty Aging Methylhistidine Biomarkers Muscle protein turnover

Non-parametric combination analysis of multiple data types enables detection of novel regulatory mechanisms in T cells of multiple sclerosis patients

Year:2019

Authors: S. Fernandes, H. Morikawa, E. Ewing, S. Ruhrmann, R. Joshi, V. Lagani, N. Karathanasis, M. Khademi, N. Planell, A. Schmidt, I. Tsamardinos, T. Olsson, F. Piehl, I. Kochum, M. Jagodic, J. Tegner, D. Gomez-Cabrero

T cells Multiple sclerosis RNA-seq

Exhaustion of CD4+ T-cells mediated by the Kynurenine Pathway in Melanoma

Year:2019

Authors: S.R. Pour, H. Morikawa, N. Kiani, M. Yang, A. Azimi, G. Shafi, M. Shang, R. Baumgartner, D. Ketelhuth, M. Kamleh, C.E. Weelock, A. Lundqvist, J. Hansson, J. Tegner

CD4+ T cells Melanoma Kynurenine Pathway

DNA methylation changes in brains from multiple sclerosis patients

Year:2019

Authors: L. Kular, M. Needhamsen, M. Zeitelhofer-Adzemovich, T. Kramarova, D. Gomez-Cabrero, E. Ewing, E. Picket, J. Tegner, S. Beck, F. Piehl, L. Brundin, M. Jagodic

DNA methylation Multiple sclerosis

Paired ATAC Seq and RNA Seq in blood derived CD4, CD8, CD14 and CD19 cells of MS patients and healthy controls

Year:2019

Authors: S.J. Fernandes, M. Eriksson, M.Khademi, T. Olsson, D. Gomez-Cabrero, I. Kockum, J. Tegner

Multiple sclerosis Immune cells ATAC Seq RNA sequencing (RNA-Seq) DNA methylation Omics integration

Algorithmic probability-guided supervised Machine Learning on non-differentiable spaces

Year:2019

Authors: S. Hernández-Orozco, H. Zenil, J. Riendel, A. Uccello, N. Kiani, J. Tegner

Challenges in the multivariate analysis of mass cytometry data: the effect of randomization

Year:2019

Authors: G. Papoutsoglou, V. Lagani, A. Schmidt, K. Tsirlis, D. Gomez-Cabrero, J. Tegner, I. Tsamardinos

Mass cytometry Pre‐processing High dimensional Data analysis Randomization Clustering algorithms

Neuronal methylation reveals CREB-asociated neuro-axonal impairment in Multiple Sclerosis

Year:2019

Authors: L. Kular Et Al.

Multiple sclerosis Neurons DNA methylation DNA hydroxymethylation Axonal guidance Synaptic plasticity CREB Neurodegeneration

The thermodynamics of network coding, and an algorithmic refinement of the principle of maximum entropy

Year:2019

Authors: H. Zenil, N.A. Kiani, J. Tegnér

Second law of thermodynamics Reprogrammability Algorithmic complexity Generative mechanisms Deterministic systems Algorithmic randomness

Causal deconvolution by algorithmic generative models

Year:2019

Authors: H. Zenil, N. Kiani, A.A. Zea, J. Tegnér

Algorithmic generative models Algorithmic probability Algorithmic framework

Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression

Year:2019

Authors: E. Ewing, L. Kular, S.J. Fernandes, N. Karathanasis, V. Lagani, S. Ruhrmann, I. Tsamardinos, J. Tegner, F. Piehl, D. Gomez-Cabrero, M. Jagodic

450 K DNA methylation EPIC Epigenetics Immune cells Multiple sclerosis

Feedforward regulation of Myc coordinates lineage-speciifc with housekeeping gene expression during B cell progenitor cell differentiation

Year:2019

Authors: I. Ferreirós-Vidal, T. Carroll, (...) J. Tegner*, M. Merkenschlager*, D. Gomez-Cabrero

Cell differentiation B cells Gene expression Gene regulation Transcription factors Cell metabolism

Phosphatase inhibitor PPP1R11 modulates resistance of human T cells toward Treg‐mediated suppression of cytokine expression

Year:2019

Authors: R.N. Joshi, S.J. Fernandes, M.-M. Shang, N.A. Kiani, D. Gomez‐Cabrero, J. Tegnér, A. Schmidt

CD4 T cell T cell resistance Immune suppression Immunotherapy Phosphatase Regulatory T cell

MAPK pathways and B cells overactivation in multiple sclerosis revealed by phospoproteomics and genomic analysis

Year:2019

Authors: E. Kotelnikova, N.A. Kiani, (...), J. Tegner, P. Villoslada

Multiple sclerosis Phosphoproteomics Signaling pathways B cells Autoimmunity

Gene regulatory network of human GM-CSF secreting T helper cells

STATegra: a comprehensive multi-omics dataset of B-cell differentiation in mouse

On the prediction of protein abundance from RNA

Deriving Disease Modules from the Compressed Transcriptional Space Embedded in a Deep Auto-encoder

TcellSubC: an atlas of the subcellular proteome of human T cells

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Associations of Plasma 3-Methylhistidine with Frailty Status in French Cohorts of the FRAILOMIC Initiative

Non-parametric combination analysis of multiple data types enables detection of novel regulatory mechanisms in T cells of multiple sclerosis patients

Exhaustion of CD4+ T-cells mediated by the Kynurenine Pathway in Melanoma

DNA methylation changes in brains from multiple sclerosis patients

Paired ATAC Seq and RNA Seq in blood derived CD4, CD8, CD14 and CD19 cells of MS patients and healthy controls

Algorithmic probability-guided supervised Machine Learning on non-differentiable spaces

Challenges in the multivariate analysis of mass cytometry data: the effect of randomization

Neuronal methylation reveals CREB-asociated neuro-axonal impairment in Multiple Sclerosis

The thermodynamics of network coding, and an algorithmic refinement of the principle of maximum entropy

Causal deconvolution by algorithmic generative models

Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression

Feedforward regulation of Myc coordinates lineage-speciifc with housekeeping gene expression during B cell progenitor cell differentiation

Phosphatase inhibitor PPP1R11 modulates resistance of human T cells toward Treg‐mediated suppression of cytokine expression

MAPK pathways and B cells overactivation in multiple sclerosis revealed by phospoproteomics and genomic analysis

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