Följ
Andreas Tjärnberg
Andreas Tjärnberg
Center for Genomics and Systems Biology, NYU
Verifierad e-postadress på nyu.edu - Startsida
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A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases
DR Gawel, J Serra-Musach, S Lilja, J Aagesen, A Arenas, B Asking, ...
Genome medicine 11, 1-25, 2019
762019
Comparative interactomics with Funcoup 2.0
A Alexeyenko, T Schmitt, A Tjärnberg, D Guala, O Frings, ...
Nucleic acids research 40 (D1), D821-D828, 2012
662012
Functional association networks as priors for gene regulatory network inference
ME Studham, A Tjärnberg, TEM Nordling, S Nelander, ELL Sonnhammer
Bioinformatics 30 (12), i130-i138, 2014
512014
Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder
SK Dwivedi, A Tjärnberg, J Tegnér, M Gustafsson
Nature communications 11 (1), 856, 2020
412020
High-performance single-cell gene regulatory network inference at scale: the Inferelator 3.0
C Skok Gibbs, CA Jackson, GA Saldi, A Tjärnberg, A Shah, A Watters, ...
Bioinformatics 38 (9), 2519-2528, 2022
382022
Optimal tuning of weighted kNN-and diffusion-based methods for denoising single cell genomics data
A Tjärnberg, O Mahmood, CA Jackson, GA Saldi, K Cho, LA Christiaen, ...
PLoS computational biology 17 (1), e1008569, 2021
282021
Optimal sparsity criteria for network inference
A Tjärnberg, TEM Nordling, M Studham, ELL Sonnhammer
Journal of Computational Biology 20 (5), 398-408, 2013
182013
Uncovering cancer gene regulation by accurate regulatory network inference from uninformative data
D Seçilmiş, T Hillerton, D Morgan, A Tjärnberg, S Nelander, TEM Nordling, ...
NPJ systems biology and applications 6 (1), 37, 2020
162020
GeneSPIDER–gene regulatory network inference benchmarking with controlled network and data properties
A Tjärnberg, DC Morgan, M Studham, TEM Nordling, ELL Sonnhammer
Molecular BioSystems 13 (7), 1304-1312, 2017
152017
Avoiding pitfalls in L 1-regularised inference of gene networks
A Tjärnberg, TEM Nordling, M Studham, S Nelander, ELL Sonnhammer
Molecular Biosystems 11 (1), 287-296, 2015
152015
A generalized framework for controlling FDR in gene regulatory network inference
D Morgan, T Nordling, A Tjarnberg
Bioinformatics, 2018
132018
LASSIM—A network inference toolbox for genome-wide mechanistic modeling
R Magnusson, GP Mariotti, M Köpsén, W Lövfors, DR Gawel, R Jörnsten, ...
PLoS computational biology 13 (6), e1005608, 2017
112017
Cancer network activity associated with therapeutic response and synergism
J Serra-Musach, F Mateo, E Capdevila-Busquets, GR de Garibay, ...
Genome medicine 8, 1-12, 2016
102016
Perturbation-based gene regulatory network inference to unravel oncogenic mechanisms
D Morgan, M Studham, A Tjärnberg, H Weishaupt, FJ Swartling, ...
Scientific reports 10 (1), 14149, 2020
72020
Knowledge of the perturbation design is essential for accurate gene regulatory network inference
D Seçilmiş, T Hillerton, A Tjärnberg, S Nelander, TEM Nordling, ...
Scientific reports 12 (1), 16531, 2022
62022
Correction to: a validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases
DR Gawel, J Serra-Musach, S Lilja, J Aagesen, A Arenas, B Asking, ...
Genome Medicine 12, 2020
32020
Structure-primed embedding on the transcription factor manifold enables transparent model architectures for gene regulatory network and latent activity inference
A Tjärnberg, M Beheler-Amass, CA Jackson, LA Christiaen, D Gresham, ...
Genome biology 25 (1), 24, 2024
22024
Exploring the boundaries of gene regulatory network inference
A Tjärnberg
Department of Biochemistry and Biophysics, Stockholm University, 2015
12015
Simultaneous estimation of gene regulatory network structure and RNA kinetics from single cell gene expression
CA Jackson, M Beheler-Amass, A Tjärnberg, I Suresh, AS Hickey, ...
bioRxiv, 2023
2023
A Subset Selection Method for Accurate Gene Regulatory Network Inference of Uninformative Datasets
D Secilmis, D Morgan, A Tjärnberg, S Nelander, T Nordling, ...
2019
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Artiklar 1–20