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Explainable machine learning for profiling the immunological synapse and functional characterization of therapeutic antibodies.
- Published in:
- Nature Communications, 2023, p. 1, doi. 10.1038/s41467-023-43429-2
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- Publication type:
- Article
Tolerance of repeated toxic injuries of murine livers is associated with steatosis and inflammation.
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- Cell Death & Disease, 2023, v. 14, n. 7, p. 1, doi. 10.1038/s41419-023-05855-4
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- Article
Evaluation of Deep Learning Strategies for Nucleus Segmentation in Fluorescence Images.
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- Cytometry. Part A, 2019, v. 95, n. 9, p. 952, doi. 10.1002/cyto.a.23863
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- Article
Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0433-1
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- Publication type:
- Article
Tailored parameter optimization methods for ordinary differential equation models with steady-state constraints.
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- BMC Systems Biology, 2016, v. 107, p. 1, doi. 10.1186/s12918-016-0319-7
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- Publication type:
- Article
Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy.
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- BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0208-5
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- Publication type:
- Article
Sharpening of expression domains induced by transcription and microRNA regulation within a spatio-temporal model of mid-hindbrain boundary formation.
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- BMC Systems Biology, 2013, v. 7, n. 1, p. 1, doi. 10.1186/1752-0509-7-48
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- Publication type:
- Article
Bayesian model selection validates a biokinetic model for zirconium processing in humans.
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- BMC Systems Biology, 2012, v. 6, n. 1, p. 95, doi. 10.1186/1752-0509-6-95
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- Publication type:
- Article
Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data.
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- BMC Systems Biology, 2011, v. 5, n. 1, p. 21, doi. 10.1186/1752-0509-5-21
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- Publication type:
- Article
A Unilateral Negative Feedback Loop Between miR-200 microRNAs and Sox2/E2F3 Controls Neural Progenitor Cell-Cycle Exit and Differentiation.
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- Journal of Neuroscience, 2012, v. 32, n. 38, p. 13392, doi. 10.1523/JNEUROSCI.2124-12.2012
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- Article
MicroRNA Loss Enhances Learning and Memory in Mice.
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- Journal of Neuroscience, 2010, v. 30, n. 44, p. 14835, doi. 10.1523/JNEUROSCI.3030-10.2010
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- Article
Complex Principal Component and Correlation Structure of 16 Yeast Genomic Variables.
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- Molecular Biology & Evolution, 2011, v. 28, n. 9, p. 2501, doi. 10.1093/molbev/msr077
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- Publication type:
- Article
The Sox17-mCherry fusion mouse line allows visualization of endoderm and vascular endothelial development.
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- Genesis: The Journal of Genetics & Development, 2012, v. 50, n. 6, p. 496, doi. 10.1002/dvg.20829
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- Article
A novel molecular disease classifier for psoriasis and eczema.
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- Experimental Dermatology, 2016, v. 25, n. 10, p. 767, doi. 10.1111/exd.13077
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- Publication type:
- Article
Novel genetic associations with serum level metabolites identified by phenotype set enrichment analyses.
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- Human Molecular Genetics, 2014, v. 23, n. 21, p. 5847, doi. 10.1093/hmg/ddu301
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- Publication type:
- Article
Reconstructing cell cycle and disease progression using deep learning.
- Published in:
- Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-00623-3
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- Publication type:
- Article
Label-free cell cycle analysis for high-throughput imaging flow cytometry.
- Published in:
- Nature Communications, 2016, v. 7, n. 1, p. 10256, doi. 10.1038/ncomms10256
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- Publication type:
- Article
MPRAnalyze: statistical framework for massively parallel reporter assays.
- Published in:
- Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1787-z
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- Publication type:
- Article
BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis.
- Published in:
- Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1748-6
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- Publication type:
- Article
Heterogeneous Development of β-Cell Populations in Diabetes-Resistant and -Susceptible Mice.
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- 2022
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- Publication type:
- journal article
MicroRNA-Target Network Inference and Local Network Enrichment Analysis Identify Two microRNA Clusters with Distinct Functions in Head and Neck Squamous Cell Carcinoma.
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- International Journal of Molecular Sciences, 2015, v. 16, n. 12, p. 30204, doi. 10.3390/ijms161226230
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- Article
Intronic microRNAs support their host genes by mediating synergistic and antagonistic regulatory effects.
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- BMC Genomics, 2010, v. 11, p. 224, doi. 10.1186/1471-2164-11-224
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- Publication type:
- Article
MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data.
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- BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-240
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- Publication type:
- Article
iVUN: interactive Visualization of Uncertain biochemical reaction Networks.
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- BMC Bioinformatics, 2013, v. 14, n. Suppl 19, p. 1, doi. 10.1186/1471-2105-14-S19-S2
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- Publication type:
- Article
An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy.
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- BMC Bioinformatics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2105-14-297
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- Publication type:
- Article
Modeling of 2D diffusion processes based on microscopy data: parameter estimation and practical identifiability analysis.
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- BMC Bioinformatics, 2013, v. 14, n. Suppl 10, p. 1, doi. 10.1186/1471-2105-14-S10-S7
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- Publication type:
- Article
On the hypothesis-free testing of metabolite ratios in genome-wide and metabolome-wide association studies.
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- BMC Bioinformatics, 2012, v. 13, n. 1, p. 120, doi. 10.1186/1471-2105-13-120
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- Publication type:
- Article
Knowledge-based matrix factorization temporally resolves the cellular responses to IL-6 stimulation.
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- BMC Bioinformatics, 2010, v. 11, p. 585, doi. 10.1186/1471-2105-11-585
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- Publication type:
- Article
Structuring heterogeneous biological information using fuzzy clustering of k-partite graphs.
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- BMC Bioinformatics, 2010, v. 11, p. 522, doi. 10.1186/1471-2105-11-522
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- Publication type:
- Article
Odefy -- From discrete to continuous models.
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- BMC Bioinformatics, 2010, v. 11, p. 233, doi. 10.1186/1471-2105-11-233
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- Publication type:
- Article
Parkinson's disease motor symptoms rescue by CRISPRa‐reprogramming astrocytes into GABAergic neurons.
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- EMBO Molecular Medicine, 2022, v. 14, n. 5, p. 1, doi. 10.15252/emmm.202114797
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- Publication type:
- Article
Machine learning integrative approaches to advance computational immunology.
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- Genome Medicine, 2024, v. 16, n. 1, p. 1, doi. 10.1186/s13073-024-01350-3
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- Publication type:
- Article
Network reconstruction for trans acting genetic loci using multi-omics data and prior information.
- Published in:
- Genome Medicine, 2022, v. 14, n. 1, p. 1, doi. 10.1186/s13073-022-01124-9
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- Publication type:
- Article
Robust Sparse Component Analysis Based on a Generalized Hough Transform.
- Published in:
- EURASIP Journal on Advances in Signal Processing, 2007, p. 1, doi. 10.1155/2007/52105
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- Publication type:
- Article
pulver: an R package for parallel ultra-rapid p-value computation for linear regression interaction terms.
- Published in:
- BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-017-1838-y
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- Publication type:
- Article
The Human Blood Metabolome-Transcriptome Interface.
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- PLoS Genetics, 2015, v. 11, n. 6, p. 1, doi. 10.1371/journal.pgen.1005274
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- Publication type:
- Article
Mining the Unknown: A Systems Approach to Metabolite Identification Combining Genetic and Metabolic Information.
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- PLoS Genetics, 2012, v. 8, n. 10, p. 1, doi. 10.1371/journal.pgen.1003005
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- Publication type:
- Article
Discovery of Sexual Dimorphisms in Metabolic and Genetic Biomarkers.
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- PLoS Genetics, 2011, v. 7, n. 8, p. 1, doi. 10.1371/journal.pgen.1002215
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- Publication type:
- Article
Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks.
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- PLoS Computational Biology, 2017, v. 13, n. 1, p. 1, doi. 10.1371/journal.pcbi.1005331
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- Publication type:
- Article
Inference for Stochastic Chemical Kinetics Using Moment Equations and System Size Expansion.
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- PLoS Computational Biology, 2016, v. 12, n. 7, p. 1, doi. 10.1371/journal.pcbi.1005030
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- Article
A field guide to cultivating computational biology.
- Published in:
- PLoS Biology, 2021, v. 19, n. 10, p. 1, doi. 10.1371/journal.pbio.3001419
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- Publication type:
- Article
Copy number aberrations from Affymetrix SNP 6.0 genotyping data—how accurate are commonly used prediction approaches?
- Published in:
- Briefings in Bioinformatics, 2020, v. 21, n. 1, p. 272, doi. 10.1093/bib/bby096
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- Publication type:
- Article
Separation of Uncorrelated Stationary time series using Autocovariance Matrices.
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- Journal of Time Series Analysis, 2016, v. 37, n. 3, p. 337, doi. 10.1111/jtsa.12159
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- Publication type:
- Article
An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-019-08831-9
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- Publication type:
- Article
Single-cell RNA-seq denoising using a deep count autoencoder.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-018-07931-2
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- Publication type:
- Article
Lineage marker synchrony in hematopoietic genealogies refutes the PU.1/GATA1 toggle switch paradigm.
- Published in:
- Nature Communications, 2018, v. 9, p. 1, doi. 10.1038/s41467-018-05037-3
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- Publication type:
- Article
Software tools for single-cell tracking and quantification of cellular and molecular properties.
- Published in:
- Nature Biotechnology, 2016, v. 34, n. 7, p. 703, doi. 10.1038/nbt.3626
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- Publication type:
- Article
Decoding the regulatory network of early blood development from single-cell gene expression measurements.
- Published in:
- Nature Biotechnology, 2015, v. 33, n. 3, p. 269, doi. 10.1038/nbt.3154
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- Publication type:
- Article
Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells.
- Published in:
- Nature Biotechnology, 2015, v. 33, n. 2, p. 155, doi. 10.1038/nbt.3102
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- Publication type:
- Article
Characterization of missing values in untargeted MS-based metabolomics data and evaluation of missing data handling strategies.
- Published in:
- Metabolomics, 2018, v. 14, n. 10, p. 1, doi. 10.1007/s11306-018-1420-2
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- Publication type:
- Article