Daniel C. Zielinski

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Rare metabolic gene essentiality is a determinant of microniche adaptation in Eschherichia coli

  PLoS Pathogens · 2025-12-08 · 1 citations

• Transcriptomic Profiling of scWAT Reveals Reduced Lipid-Associated Macrophage Signatures in Long-Term Endurance- and Resistance-Trained AthletesPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-08

• Expanding the iModulon Knowledgebase for <i>Bacillus subtilis</i> : Updated Transcriptome Decomposition Reveals Novel Regulatory MechanismsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-09-30

• Trade-off between resistance and persistence in high cell density cultures

  mSystems · 2025-06-13 · 3 citations

• Extracellular respiration is a latent energy metabolism in Escherichia coli

  Cell · 2025-04-10 · 30 citations

• Metabolic growth-coupling strategies for in vivo enzyme selection systems

  Metabolic Engineering Communications · 2025-02-12 · 5 citations

• iModulonDB 2.0: dynamic tools to facilitate knowledge-mining and user-enabled analyses of curated transcriptomic datasets

  Nucleic Acids Research · 2024-11-04 · 29 citations

• Diversity of Transcriptional Regulatory Adaptation in <i>E. coli</i>

  Molecular Biology and Evolution · 2024-11-01 · 4 citations

• iModulonMiner and PyModulon: Software for unsupervised mining of gene expression compendia

  PLoS Computational Biology · 2024-10-23 · 25 citations

• PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining

  Nucleic Acids Research · 2024-10-19 · 12 citations

• Metabolic growth coupling strategies for in vivo enzyme selection systemsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-09-19 · 2 citations

• Modulating bacterial function utilizing A knowledge base of transcriptional regulatory modules

  Nucleic Acids Research · 2024-08-28 · 5 citations

• A genome-scale metabolic model of a globally disseminated hyperinvasive M1 strain of <i>Streptococcus pyogenes</i>

  mSystems · 2024-08-19 · 11 citations

• Deciphering the transcriptional regulatory network of <i>Yarrowia lipolytica</i> using machine learningPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-07-30 · 2 citations