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Author Details

Nathan E Lewis
University of California San Diego
2004
146
44
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37333412A Boltzmann model predicts glycan structures from lectin binding.bioRxiv2024
38048983Predicting pathways for old and new metabolites through clustering.J Theor Biol2024
37333412A Boltzmann model predicts glycan structures from lectin binding.bioRxiv2024
38048983Predicting pathways for old and new metabolites through clustering.J Theor Biol2024
36266569A predictive ensemble classifier for the gene expression diagnosis of ASD at ages 1 to 4 years.Mol Psychiatry2023
36266569A predictive ensemble classifier for the gene expression diagnosis of ASD at ages 1 to 4 years.Mol Psychiatry2023
37709005Identification of hyperosmotic stress-responsive genes in Chinese hamster ovary cells via genome-wide virus-free CRISPR/Cas9 screening.Metab Eng2023
37547082Mitigating biomass composition uncertainties in flux balance analysis using ensemble representations.Comput Struct Biotechnol J2023
37348460Single-cell A/B testing for cell-cell communication.Cell Syst2023
37086409GlycoMME, a Markov modeling platform for studying N-glycosylation biosynthesis from glycomics data.STAR Protoc2023
37205389Inferring secretory and metabolic pathway activity from omic data with secCellFie.bioRxiv2023
36566974Guidelines for extracting biologically relevant context-specific metabolic models using gene expression data.Metab Eng2023
36562657Enhancing CHO cell productivity through a dual selection system using Aspg and Gs in glutamine free medium.Biotechnol Bioeng2023
37062598From observational to actionable: rethinking omics in biologics production.Trends Biotechnol2023
36610518CHOGlycoNET: Comprehensive glycosylation reaction network for CHO cells.Metab Eng2023
36853701ImmCellFie: A user-friendly web-based platform to infer metabolic function from omics data.STAR Protoc2023
37354999Glycosylation shapes the efficacy and safety of diverse protein, gene and cell therapies.Biotechnol Adv2023
37352352Whole-body gene expression atlas of an adult metazoan.Sci Adv2023
37227044Reconstructing the cell-cell interaction network among mouse immune cells.Biotechnol Bioeng2023
36920914Preparing glycomics data for robust statistical analysis with GlyCompareCT.STAR Protoc2023
37162916Combining LIANA and Tensor-cell2cell to decipher cell-cell communication across multiple samples.bioRxiv2023
37709005Identification of hyperosmotic stress-responsive genes in Chinese hamster ovary cells via genome-wide virus-free CRISPR/Cas9 screening.Metab Eng2023
37547082Mitigating biomass composition uncertainties in flux balance analysis using ensemble representations.Comput Struct Biotechnol J2023
37354999Glycosylation shapes the efficacy and safety of diverse protein, gene and cell therapies.Biotechnol Adv2023
37352352Whole-body gene expression atlas of an adult metazoan.Sci Adv2023
37086409GlycoMME, a Markov modeling platform for studying N-glycosylation biosynthesis from glycomics data.STAR Protoc2023
37348460Single-cell A/B testing for cell-cell communication.Cell Syst2023
37205389Inferring secretory and metabolic pathway activity from omic data with secCellFie.bioRxiv2023
37227044Reconstructing the cell-cell interaction network among mouse immune cells.Biotechnol Bioeng2023
37162916Combining LIANA and Tensor-cell2cell to decipher cell-cell communication across multiple samples.bioRxiv2023
37062598From observational to actionable: rethinking omics in biologics production.Trends Biotechnol2023
36920914Preparing glycomics data for robust statistical analysis with GlyCompareCT.STAR Protoc2023
36853701ImmCellFie: A user-friendly web-based platform to infer metabolic function from omics data.STAR Protoc2023
36610518CHOGlycoNET: Comprehensive glycosylation reaction network for CHO cells.Metab Eng2023
36566974Guidelines for extracting biologically relevant context-specific metabolic models using gene expression data.Metab Eng2023
36562657Enhancing CHO cell productivity through a dual selection system using Aspg and Gs in glutamine free medium.Biotechnol Bioeng2023
34903876LIGHT controls distinct homeostatic and inflammatory gene expression profiles in esophageal fibroblasts via differential HVEM and LTβR-mediated mechanisms.Mucosal Immunol2022
35913192Vascular Proteome Responses Precede Organ Dysfunction in a Murine Model of Staphylococcus aureus Bacteremia.mSystems2022
35830477What are housekeeping genes?PLoS Comput Biol2022
35760817Context-aware deconvolution of cell-cell communication with Tensor-cell2cell.Nat Commun2022
35803276Non-protective immune imprint underlies failure of Staphylococcus aureus IsdB vaccine.Cell Host Microbe2022
35738510Artificial intelligence in the analysis of glycosylation data.Biotechnol Adv2022
35354934Author Correction: Genome-wide screens uncover KDM2B as a modifier of protein binding to heparan sulfate.Nat Chem Biol2022
36536290An improved algorithm for flux variability analysis.BMC Bioinformatics2022
35044498Valine feeding reduces ammonia production through rearrangement of metabolic fluxes in central carbon metabolism of CHO cells.Appl Microbiol Biotechnol2022
35038554Multiplex genome editing of mammalian cells for producing recombinant heparin.Metab Eng2022
34980898Neural responses to affective speech, including motherese, map onto clinical and social eye tracking profiles in toddlers with ASD.Nat Hum Behav2022
34903876LIGHT controls distinct homeostatic and inflammatory gene expression profiles in esophageal fibroblasts via differential HVEM and LTβR-mediated mechanisms.Mucosal Immunol2022
34953085Restoration of DNA repair mitigates genome instability and increases productivity of Chinese hamster ovary cells.Biotechnol Bioeng2022
35007280Correction: StanDep: Capturing transcriptomic variability improves context-specific metabolic models.PLoS Comput Biol2022
  • 1 - 50 of 292

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Collaborators

Bernhard O Palsson
University of California San Diego
Co-authored papers 31
Benjamin P Kellman
Co-authored papers 18
Chih-Chung Kuo
university of california san diego
Co-authored papers 14
Bj??rn G Voldborg
Technical University of Denmark
Co-authored papers 11
Eric Courchesne
University of California
Co-authored papers 10
Karen Pierce
University of California
Co-authored papers 8
Victor Nizet
university of california san diego School of Medicine
Co-authored papers 5
Bokan Bao
University of California San Diego
Co-authored papers 5
Kimberly Robasky
Renaissance Computing Institute, University of North Carolina at Chapel Hill
Co-authored papers 4
Christopher K Glass
University of California San Diego
Co-authored papers 4
Jens Nielsen
Chalmers University of Technology
Co-authored papers 4
Alex Thomas
University of Alabama
Co-authored papers 4
George M Church
Harvard Medical School
Co-authored papers 3
Nicolas Le Nov??re
Babraham Institute
Co-authored papers 3
Jason A Papin
University of Virginia
Co-authored papers 3
Cynthia Carter Barnes
University of California San Diego
Co-authored papers 3
Philip L S M Gordts
Co-authored papers 3
Nathan D Price
Institute for Systems Biology
Co-authored papers 3
Patrice Menard
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark
Co-authored papers 3
Xin Gao
King Abdullah University of Science and Technology (KAUST)
Co-authored papers 2
Yingxiang Huang
Beijing Friendship Hospital, Capital Medical University
Co-authored papers 2
Takashi Gojobori
Co-authored papers 2
Cheng Zhang
KTH-Royal Institute of Technology
Co-authored papers 2
Yongfei Cai
Co-authored papers 2
Bing Chen
Co-authored papers 2
Richard A I Bethlehem
University of Cambridge.
Co-authored papers 2
Hui Zhang
Co-authored papers 2
Dan H Barouch
Co-authored papers 2
Richard D Smith
Pacific Northwest National Laboratory
Co-authored papers 2
Sunjae Lee
Gwangju Institute of Science and Technology
Co-authored papers 2
Release 1.2