191 Matching Annotations
  1. May 2024
  2. www.biorxiv.org www.biorxiv.org
    http://biorxiv.org/cgi/content/short/2020.10.26.356014
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    1. EMBOpress 29 May 2024

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    biorxiv.org/content/10.1101/2020.10.26.356014v3
  3. docdrop.org docdrop.org
    Video: Biology beyond the genome | Denis Noble (DocDrop)
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    1. stopresetgo 18 May 2024
      four 00:08:25 major common misunderstandings that have infected our understanding of what it is to be a living system

      for - molecular biology - paradigm shift - living system - 4 common misunderstandings - book - Understanding Living Systems - 4 common misunderstandings

      4 common misunderstandings of living systems - 1. The central dogma of molecular biology - one way causation - Genes (DNA) to - proteins to - organism - 2. The Weismann Barrier - 3. DNA as self-replicator - 4. Separation of Replicator (DNA) and Vehicle (Living cell) are completely separate

      molecular biology - paradigm shift - Denis Noble living system - 4 common misunderstandings book - Understanding Living Systems - 4 common misunderstandings
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    docdrop.org/video/bzXFSufDDn8/
  4. Feb 2024
  5. www.biorxiv.org www.biorxiv.org
    Canalisation and plasticity on the developmental manifold of Caenorhabditis elegans
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    1. EMBOpress 24 Feb 2024

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    biorxiv.org/content/10.1101/2023.04.14.536891v2
  6. Dec 2023
  7. www.biorxiv.org www.biorxiv.org
    Paralog dispensability shapes homozygous deletion patterns in tumor genomes
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    1. EMBOpress 13 Dec 2023

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    biorxiv.org/content/10.1101/2022.06.20.496722v3
  8. www.biorxiv.org www.biorxiv.org
    Detecting Cell Contact-dependent Gene Expression from Spatial Transcriptomics Data
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    1. EMBOpress 12 Dec 2023

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    biorxiv.org/content/10.1101/2022.02.16.480673v2
  9. www.biorxiv.org www.biorxiv.org
    Multi-omic network analysis identified betacellulin as a novel target of omega-3 fatty acid attenuation of western diet-induced nonalcoholic steatohepatitis
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    1. EMBOpress 12 Dec 2023

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    biorxiv.org/content/10.1101/2022.10.03.510635v2
  10. Nov 2023
  11. www.biorxiv.org www.biorxiv.org
    Dimensionality reduction methods for extracting functional networks from large-scale CRISPR screens
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    1. EMBOpress 21 Nov 2023

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    biorxiv.org/content/10.1101/2023.02.22.529573v2
  12. Sep 2023
  13. www.biorxiv.org www.biorxiv.org
    Predictability of the community-function landscape in wine yeast ecosystems
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    1. EMBOpress 02 Sep 2023

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    biorxiv.org/content/10.1101/2022.12.15.520418v1
  14. www.biorxiv.org www.biorxiv.org
    Robust dimethyl-based multiplex-DIA workflow doubles single-cell proteome depth via a reference channel
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    1. EMBOpress 01 Sep 2023

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    biorxiv.org/content/10.1101/2022.12.02.518917v1
  15. Aug 2023
  16. www.biorxiv.org www.biorxiv.org
    A metabolic map of the DNA damage response identifies PRDX1 in nuclear ROS scavenging and aspartate synthesis
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    1. EMBOpress 30 Aug 2023

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    biorxiv.org/content/10.1101/2022.08.01.500855v1
  17. www.biorxiv.org www.biorxiv.org
    Principles for Systematic Optimization of an Orthogonal Translation System with Enhanced Biological Tolerance
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    1. EMBOpress 04 Aug 2023

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    biorxiv.org/content/10.1101/2021.05.20.444985v1
  18. www.biorxiv.org www.biorxiv.org
    Consistency across multi-omics layers in a drug-perturbed gut microbial community
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    1. EMBOpress 02 Aug 2023

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    biorxiv.org/content/10.1101/2023.01.03.519475v1
  19. Jul 2023
  20. www.biorxiv.org www.biorxiv.org
    A tissue-aware machine learning framework enhances the mechanistic understanding and genetic diagnosis of Mendelian and rare diseases
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    1. EMBOpress 07 Jul 2023

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    biorxiv.org/content/10.1101/2021.02.16.430825v1
  21. Jun 2023
  22. www.biorxiv.org www.biorxiv.org
    Updated benchmarking of variant effect predictors using deep mutational scanning
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    1. EMBOpress 27 Jun 2023

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    biorxiv.org/content/10.1101/2022.11.19.517196v1
  23. www.biorxiv.org www.biorxiv.org
    A case of mistaken identity: structurally similar ligand inhibits Thymidylate Kinase causing reversible filamentation of E. coli
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    1. EMBOpress 10 Jun 2023

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    biorxiv.org/content/10.1101/738823v4
  24. www.biorxiv.org www.biorxiv.org
    Highly multiplexed quantitative phosphosite assay for biology and preclinical studies
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    1. EMBOpress 10 Jun 2023

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    biorxiv.org/content/10.1101/2020.12.08.415281v1
  25. www.biorxiv.org www.biorxiv.org
    Systems-level transcriptional regulation of Caenorhabditis elegans metabolism
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    1. EMBOpress 02 Jun 2023

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    biorxiv.org/content/10.1101/2022.11.08.515576v1
  26. May 2023
  27. www.biorxiv.org www.biorxiv.org
    A stimulus-contingent positive feedback loop enables IFN-β dose-dependent activation of pro-inflammatory genes
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    1. EMBOpress 24 May 2023

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    biorxiv.org/lookup/doi/10.1101/2022.08.11.503561
  28. www.biorxiv.org www.biorxiv.org
    Automated assembly of molecular mechanisms at scale from text mining and curated databases
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    1. EMBOpress 24 May 2023

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    biorxiv.org/lookup/doi/10.1101/2022.08.30.505688
  29. www.biorxiv.org www.biorxiv.org
    Transcription factor expression is the main determinant of variability in gene co-activity
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    1. EMBOpress 24 May 2023

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    biorxiv.org/lookup/doi/10.1101/2022.10.11.511770
  30. www.biorxiv.org www.biorxiv.org
    Mapping single-cell responses to population-level dynamics during antibiotic treatment
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    1. EMBOpress 24 May 2023

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    biorxiv.org/lookup/doi/10.1101/2022.11.18.517151
  31. Apr 2023
  32. www.biorxiv.org www.biorxiv.org
    Combined measurements of proteome and cell turnover reveal the influences of tissue context and pathological aging on protein and organelle lifetimes
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    1. EMBOpress 20 Apr 2023

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    biorxiv.org/content/10.1101/2022.04.24.488979v3
  33. Mar 2023
  34. www.biorxiv.org www.biorxiv.org
    A spatial model of the plant circadian clock reveals design principles for coordinated timing under noisy environments
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    1. EMBOpress 15 Mar 2023

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    biorxiv.org/content/10.1101/2020.09.13.294785v2
  35. www.biorxiv.org www.biorxiv.org
    Protein Complexes in Bacillus subtilis by AI-assisted structural proteomics
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    1. EMBOpress 09 Mar 2023

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    biorxiv.org/content/10.1101/2022.07.26.501605v3
  36. Feb 2023
  37. www.biorxiv.org www.biorxiv.org
    Mechanistic model of MAPK signaling reveals how allostery and rewiring contribute to drug resistance
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    1. EMBOpress 17 Feb 2023

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    biorxiv.org/content/10.1101/2022.02.17.480899v1
  38. www.biorxiv.org www.biorxiv.org
    Evolution of genome fragility enables microbial division of labor
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    1. EMBOpress 14 Feb 2023

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    biorxiv.org/content/10.1101/2021.06.04.447040v5
  39. Jan 2023
  40. www.biorxiv.org www.biorxiv.org
    A toolbox for systematic discovery of stable and transient protein interactors in baker's yeast
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    1. EMBOpress 31 Jan 2023

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    biorxiv.org/content/10.1101/2022.04.27.489741v1
  41. www.biorxiv.org www.biorxiv.org
    Pan-Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival
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    1. EMBOpress 28 Jan 2023

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    biorxiv.org/content/10.1101/2021.06.09.447741v1
  42. www.biorxiv.org www.biorxiv.org
    Adaptation of bacterial proteome reveals a key role of the cell envelope in starvation survival
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    1. EMBOpress 24 Jan 2023

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    biorxiv.org/content/10.1101/2022.05.18.492425v2
  43. Dec 2022
  44. www.biorxiv.org www.biorxiv.org
    Epithelial-mesenchymal transition is the main driver of intrinsic metabolism in cancer cell lines
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    1. EMBOpress 01 Dec 2022

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    biorxiv.org/content/10.1101/2021.11.02.466992v1
  45. Nov 2022
  46. www.biorxiv.org www.biorxiv.org
    Heterogeneity of the Cancer Cell Line Metabolic Landscape
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.08.19.456093v1
  47. www.biorxiv.org www.biorxiv.org
    The molecular architecture of cell cycle arrest
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2022.04.27.489684v1
  48. www.biorxiv.org www.biorxiv.org
    Systematic multi-level analysis of an organelle proteome reveals new peroxisomal functions
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.12.08.471723v2
  49. www.biorxiv.org www.biorxiv.org
    Growth-mediated negative feedback shapes quantitative antibiotic response
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2020.12.28.424579v2
  50. www.biorxiv.org www.biorxiv.org
    Changes in chromatin accessibility are not concordant with transcriptional changes for single-factor perturbations
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2022.02.03.478981v1
  51. www.biorxiv.org www.biorxiv.org
    Vesalius: Tissue anatomy from spatial transcriptomic data.
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.08.13.456235v3
  52. www.biorxiv.org www.biorxiv.org
    CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.09.01.458524v1
  53. www.biorxiv.org www.biorxiv.org
    Quantifying the phenotypic information in mRNA abundance
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2022.02.23.481668v1
  54. www.biorxiv.org www.biorxiv.org
    Species richness determines C. difficile invasion outcome in synthetic human gut communities
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.03.23.436677v1
  55. www.biorxiv.org www.biorxiv.org
    Optogenetic actuator/biosensor circuits for large-scale interrogation of ERK dynamics identify sources of MAPK signaling robustness.
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.07.27.453955v2
  56. www.biorxiv.org www.biorxiv.org
    Proteome-scale amino-acid resolution footprinting of protein-binding sites in the intrinsically disordered regions of the human proteome
    1
    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.04.13.439572v1
  57. www.biorxiv.org www.biorxiv.org
    Growth-dependent heterogeneity in the DNA damage response in Escherichia coli
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2021.05.06.442821v2
  58. www.biorxiv.org www.biorxiv.org
    Dynamic human liver proteome atlas reveals functional insights into disease pathways
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2022.01.28.478194v1
  59. www.biorxiv.org www.biorxiv.org
    Reproducibility in systems biology modelling
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    1. EMBOpress 21 Nov 2022

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    biorxiv.org/content/10.1101/2020.08.07.239855v1
  60. May 2022
  61. www.biorxiv.org www.biorxiv.org
    Diauxic lags explain unexpected coexistence in multi-resource environments
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    1. EMBOpress 27 May 2022

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    biorxiv.org/content/10.1101/2021.08.09.455603v2
  62. www.biorxiv.org www.biorxiv.org
    Differential impact of TNFRSF co-stimulation on CD8+ T cell cytokine production by feedback control of surface receptor expression
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    1. EMBOpress 07 May 2022

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    biorxiv.org/content/10.1101/2021.07.02.450833v1
  63. www.biorxiv.org www.biorxiv.org
    Single Cell Variability of CRISPR-Cas Interference and Adaptation
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    1. EMBOpress 04 May 2022

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    biorxiv.org/content/10.1101/2021.07.21.453200v1
  64. Apr 2022
  65. www.biorxiv.org www.biorxiv.org
    Unique features of transcription termination and initiation at closely spaced tandem human genes
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    1. EMBOpress 23 Apr 2022

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    biorxiv.org/content/10.1101/2021.09.10.459726v1
  66. Mar 2022
  67. www.biorxiv.org www.biorxiv.org
    Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation
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    1. EMBOpress 22 Mar 2022

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    biorxiv.org/content/10.1101/2020.12.22.423933v2
  68. www.biorxiv.org www.biorxiv.org
    A human kinase yeast array for the identification of kinases modulating phosphorylation-dependent protein-protein interactions
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  69. www.biorxiv.org www.biorxiv.org
    https://biorxiv.org/cgi/content/10.1101/2021.09.01.458647
    1
    1. EMBOpress 09 Mar 2022

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    biorxiv.org/content/10.1101/2021.09.01.458647v1
  70. Feb 2022
  71. www.biorxiv.org www.biorxiv.org
    Structured decomposition improves systems serology prediction and interpretation
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    biorxiv.org/content/10.1101/2021.01.03.425138v2
  72. www.biorxiv.org www.biorxiv.org
    Major functional bias for mitochondrial complexes in genome-wide CRISPR screens
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    biorxiv.org/content/10.1101/2020.08.31.273730v1
  73. Jan 2022
  74. www.biorxiv.org www.biorxiv.org
    Trade-offs in adaptation to glycolysis and gluconeogenesis result in a preferential flux direction in central metabolism
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    biorxiv.org/content/10.1101/2021.05.07.443112v3
  75. Dec 2021
  76. www.biorxiv.org www.biorxiv.org
    Modeling population size independent tissue epigenomes by ChIL-seq with single-thin sections
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    A Genome-Scale TF-DNA Interaction Network of Transcriptional Regulation of Arabidopsis Primary and Specialized Metabolism
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    biorxiv.org/content/10.1101/2021.05.13.443927v1
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    https://biorxiv.org/cgi/content/10.1101/2021.01.27.428543
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  79. Nov 2021
  80. www.biorxiv.org www.biorxiv.org
    Cell-to-cell and type-to-type heterogeneity of signaling networks: Insights from the crowd
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  81. Oct 2021
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    Exploring amino acid functions in a deep mutational landscape
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  83. Sep 2021
  84. www.biorxiv.org www.biorxiv.org
    Evaluating the Simple Arrhenius Equation for the Temperature Dependence of Complex Developmental Processes
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  85. Aug 2021
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    Single-cell transcriptomics reveals immune response of intestinal cell types to viral infection
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    Identification of Covalent Modifications Regulating Immune Signaling Complex Composition and Phenotype
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    Tunable phenotypic variability through an autoregulatory alternative sigma factor circuit
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    TNF stimulation primarily modulates transcriptional burst size of NF-κB-regulated genes
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  90. Jul 2021
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    Precise transcriptional control of cellular quiescence by BRAVO/WOX5 complex in Arabidopsis roots
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    HMGB1 as a rheostat of chromatin topology and RNA homeostasis on the path to senescence
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  93. www.biorxiv.org www.biorxiv.org
    A genome-scale yeast library with inducible expression of individual genes
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    biorxiv.org/content/10.1101/2020.12.30.424776v2
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    Diverse natural variants suppress mutations in hundreds of essential genes
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    Behavioral fingerprints predict insecticide and anthelmintic mode of action
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    biorxiv.org/content/10.1101/2021.01.27.428391v1
  96. www.biorxiv.org www.biorxiv.org
    JSTA: joint cell segmentation and cell type annotation for spatial transcriptomics
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    biorxiv.org/content/10.1101/2020.09.18.304147v1
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    Quantifying signal persistence in the T cell signaling network using an optically controllable antigen receptor
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  98. www.biorxiv.org www.biorxiv.org
    A dynamic and spatially periodic micro-pattern of HES5 expression underlies the probability of neuronal differentiation in the mouse spinal cord
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    biorxiv.org/content/10.1101/2020.08.03.234369v2
  99. Jun 2021
  100. www.biorxiv.org www.biorxiv.org
    Sequence analysis allows functional annotation of tyrosine recombinases in prokaryotic genomes
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  101. May 2021
  102. www.biorxiv.org www.biorxiv.org
    Spurious regulatory connections dictate the expression-fitness landscape of translation factors
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    biorxiv.org/content/10.1101/2020.11.27.400200v1
  103. www.biorxiv.org www.biorxiv.org
    hu.MAP 2.0: Integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies
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    http://biorxiv.org/cgi/content/short/2020.10.21.348854
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  105. www.biorxiv.org www.biorxiv.org
    Multidimensional Chromatin Regulation of Cell Lineage Differentiation in a Metazoan Embryo
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    biorxiv.org/content/10.1101/2020.05.18.101584v1
  106. www.biorxiv.org www.biorxiv.org
    CODEX, a neural network approach to explore signaling dynamics landscapes
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  107. www.biorxiv.org www.biorxiv.org
    Proteome constraints reveal targets for improving microbial fitness in nutrient-rich environments
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    biorxiv.org/content/10.1101/2020.10.15.340554v1
  108. Apr 2021
  109. www.biorxiv.org www.biorxiv.org
    CASB: A concanavalin A-based sample barcoding strategy for single-cell sequencing
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    biorxiv.org/content/10.1101/2020.10.15.340844v1
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    Urinary proteome profiling for stratifying patients with familial Parkinsons disease
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    biorxiv.org/content/10.1101/2020.08.09.243584v1
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    Integrated intra- and intercellular signaling knowledge for multicelullar omics analysis
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    biorxiv.org/content/10.1101/2020.08.03.221242v2
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    Identifying Modules of Cooperating Cancer Drivers
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    biorxiv.org/content/10.1101/2020.06.29.168229v1
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    The genotype-phenotype landscape of an allosteric protein
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    biorxiv.org/content/10.1101/2020.07.10.197574v1
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    The genotype-phenotype landscape of an allosteric protein
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    biorxiv.org/content/10.1101/2020.09.30.320812v1
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    Multi-modal meta-analysis of cancer cell line omics profiles identifies ECHDC1 as a novel breast tumor suppressor
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    biorxiv.org/content/10.1101/2020.01.31.929372v1
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    The circadian oscillator analysed at the single-transcript level
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    biorxiv.org/content/10.1101/2020.08.26.268201v1
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    From Chemoproteomic-Detected Amino Acids to Genomic Coordinates: Insights into Precise Multi-omic Data Integration
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    biorxiv.org/content/10.1101/2020.07.03.186007v2
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    Promoters adopt distinct dynamic manifestations depending on transcription factor context
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    TATA and paused promoters active in differentiated tissues have distinct expression characteristics
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    biorxiv.org/content/10.1101/2020.07.15.196493v1
  120. Feb 2021
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    Using single-plant -omics in the field to link maize genes to functions and phenotypes
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    biorxiv.org/content/10.1101/2020.04.06.027300v1
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    A quantitative analysis of the interplay of environment, neighborhood and cell state in 3D spheroids
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    biorxiv.org/content/10.1101/2020.07.24.219659v1
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    DOMINO: a novel network-based module detection algorithm with reduced rate offalse calls
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    biorxiv.org/content/10.1101/2020.03.10.984963v4
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    Causal integration of multi-omics data with prior knowledge to generate mechanistic hypotheses
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    Harmonization and Annotation of Single-cell Transcriptomics data with Deep Generative Models
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    Phosphoproteomics identifies microglial Siglec-F inflammatory response during neurodegeneration
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    biorxiv.org/content/10.1101/2020.05.12.090688v1
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    CIGAR-seq, a CRISPR/Cas-based method for unbiased screening of novel mRNA modification regulators
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    biorxiv.org/content/10.1101/2020.10.03.324715v1
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    Dormancy as a spectrum measuring spore’s proximity to death and to replicative life
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    The transcriptome dynamics of single cells during the cell cycle
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    biorxiv.org/content/10.1101/2019.12.23.887570v1
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    Predictive features of gene expression variation reveal a mechanistic link between expression variation and differential expression
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    biorxiv.org/content/10.1101/2020.02.10.942276v1
  131. www.biorxiv.org www.biorxiv.org
    Oncogenic mutant RAS activity is rescaled by the ERK/MAPK pathway
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    biorxiv.org/content/10.1101/2020.02.17.952093v1
  132. www.biorxiv.org www.biorxiv.org
    CEN-tools: An integrative platform to identify the contexts of essential genes
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    biorxiv.org/content/10.1101/2020.05.10.087668v2
  133. www.biorxiv.org www.biorxiv.org
    Genome-wide off-rates reveal how DNA binding dynamics shape transcription factor function
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    biorxiv.org/content/10.1101/2020.05.03.074815v1
  134. www.biorxiv.org www.biorxiv.org
    Aggregation and Disaggregation Features of the Human Proteome
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    biorxiv.org/content/10.1101/2020.02.05.931675v1
  135. Oct 2020
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    Programmable and portable CRISPR-Cas transcriptional activation in bacteria
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    biorxiv.org/content/10.1101/2020.01.03.882431v2
  137. www.biorxiv.org www.biorxiv.org
    State transitions of a developmental oscillator
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    biorxiv.org/content/10.1101/755421v2
  138. www.biorxiv.org www.biorxiv.org
    Predicting antigen-specificity of single T-cells based on TCR CDR3 regions
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  139. www.biorxiv.org www.biorxiv.org
    Mapping of the nucleolar proteome reveals spatiotemporal organization related to intrinsic protein disorder
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    biorxiv.org/content/10.1101/2020.01.30.923003v3
  140. doi.org doi.org
    https://doi.org/10.1101/2020.03.31.016048
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  141. www.biorxiv.org www.biorxiv.org
    The protein architecture of the endocytic coat analyzed by FRET
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  142. www.biorxiv.org www.biorxiv.org
    Multiplexing cell-cell communication
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    biorxiv.org/content/10.1101/584664v1
  143. www.biorxiv.org www.biorxiv.org
    Hormonal dysregulation after prolonged HPA axis activation can be explained by changes of adrenal and corticotroph masses
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    biorxiv.org/content/10.1101/2020.01.01.892596v2
  144. Jul 2020
  145. www.biorxiv.org www.biorxiv.org
    Drug mechanism-of-action discovery through the integration of pharmacological and CRISPR screens
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    Using deep mutational scanning data to benchmark computational phenotype predictors and identify pathogenic missense mutations
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  147. www.biorxiv.org www.biorxiv.org
    Reduced proteasome activity in the aging brain results in ribosome stoichiometry loss and aggregation
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    biorxiv.org/content/10.1101/577478v3
  148. www.biorxiv.org www.biorxiv.org
    Exploring endocytic compartment morphology with systematic genetics and single cell image analysis
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  149. www.biorxiv.org www.biorxiv.org
    STAT3-dependent systems-level analysis reveals PDK4 as an independent predictor of biochemical recurrence in prostate cancer
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  150. www.biorxiv.org www.biorxiv.org
    Controlling spatiotemporal pattern formation in a concentration gradient with a synthetic toggle switch
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  151. www.biorxiv.org www.biorxiv.org
    CRISPR-TAPE: protein-centric CRISPR guide design for targeted proteome engineering
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    biorxiv.org/content/10.1101/2020.02.26.965889v1
  152. www.biorxiv.org www.biorxiv.org
    Co-catabolism of arginine and succinate drives symbiotic nitrogen fixation
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  153. www.biorxiv.org www.biorxiv.org
    Measuring glycolytic flux in single yeast cells with an orthogonal synthetic biosensor
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    biorxiv.org/content/10.1101/682302v1
  154. www.biorxiv.org www.biorxiv.org
    Digitalizing heterologous gene expression in Gram-negative bacteria with a portable on/off module
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    biorxiv.org/content/10.1101/783506v1
  155. www.biorxiv.org www.biorxiv.org
    Machine characterization of rat toxin responses identifies disease states, tolerance mechanisms and organ to whole-body communication
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  156. www.biorxiv.org www.biorxiv.org
    The impact of the genetic background on gene deletion phenotypes in Saccharomyces cerevisiae
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  157. www.biorxiv.org www.biorxiv.org
    Stochastic transcription in the p53-mediated response to DNA damage is modulated by burst frequency
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    biorxiv.org/content/10.1101/679449v1
  158. www.biorxiv.org www.biorxiv.org
    Robust and conserved stochastic self-assembly mechanism for dynamic ParB-parS partition complexes on bacterial chromosomes and plasmids
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  159. www.biorxiv.org www.biorxiv.org
    Temporal perturbation of Erk dynamics reveals network architecture of FGF2-MAPK signaling
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  160. Jun 2020
  161. www.biorxiv.org www.biorxiv.org
    A natural variant of the sole pyruvate kinase of fission yeast lowers glycolytic flux triggering increased respiration and oxidative-stress resistance but decreased growth
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  162. www.biorxiv.org www.biorxiv.org
    Regulatory kinase genetic interaction profiles differ between environmental conditions and cellular states
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  163. www.biorxiv.org www.biorxiv.org
    Impact of C-terminal amino acid composition on protein expression in bacteria
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  164. www.biorxiv.org www.biorxiv.org
    Translational efficiency across healthy and tumor tissues is proliferation-related
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  165. www.biorxiv.org www.biorxiv.org
    Time-resolved genome-scale profiling reveals a causal expression network
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  166. www.biorxiv.org www.biorxiv.org
    Patient-specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies
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  167. www.biorxiv.org www.biorxiv.org
    Mammalian gene expression variability is explained by underlying cell state
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    biorxiv.org/content/10.1101/626424v1
  168. Nov 2019
  169. www.biorxiv.org www.biorxiv.org
    Combinatorial prediction of gene-marker panels from single-cell transcriptomic data.
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    Paralog dependency indirectly affects the robustness of human cells
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  171. www.biorxiv.org www.biorxiv.org
    Endogenous fluctuations of OCT4 and SOX2 bias pluripotent cell fate decisions
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  172. www.biorxiv.org www.biorxiv.org
    An integrated workflow for cross-linking/mass spectrometry
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  173. Sep 2019
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    Mapping In Vivo O-Glycoproteome Using Site-specific Extraction of O-linked glycopeptides (EXoO)
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    Disentangling bacterial invasiveness from lethality in an experimental host-pathogen system
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    Absolute quantification of translational regulation and burden using combined sequencing approaches
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  177. www.biorxiv.org www.biorxiv.org
    Mechanistic causes of constrained phenotypic variation revealed by synthetic gene regulatory networks
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    The fitness cost and benefit of phase separated protein deposits
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    Defining the RNA Interactome by Total RNA-Associated Protein Purification
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    Genome-wide prediction of synthetic rescue mediators of resistance to targeted and immunotherapy
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    Evidence that the cell cycle is a series of uncoupled, memoryless phases
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    netDx: Patient classification using integrated patient similarity networks
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    De novo Gene Signature Identification from Single-Cell RNA-Seq with Hierarchical Poisson Factorization
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    Quantification and discovery of sequence determinants of protein per mRNA amount in 29 human tissues
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    A deep proteome and transcriptome abundance atlas of 29 healthy human tissues
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    Widespread inter-individual gene expression variability in Arabidopsis thaliana
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    Complex-centric proteome profiling by SEC-SWATH-MS
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    High-resolution mapping of cancer cell networks using co-functional interactions
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    Synthesis and degradation of FtsZ determines the first cell division in starved bacteria
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    Fibroblasts from metastatic sites induce broad-spectrum drug desensitization via modulation of mitochondrial priming
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    Non-canonical circadian oscillations in Drosophila S2 cells drive gene-expression cycles coupled to metabolic oscillations
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    Bicoid gradient formation mechanism and dynamics revealed by protein lifetime analysis
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    Ratiometric Distribution Of OCT4 During Stem Cell Division Controls The Balance Between Self-Renewal And Differentiation
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    Multi-Omics factor analysis disentangles heterogeneity in blood cancer
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    Fibroblast state switching orchestrates dermal maturation and wound healing
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    Genomics of cellular proliferation under periodic stress
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    MODELING SIGNALING-DEPENDENT PLURIPOTENT CELL STATES WITH BOOLEAN LOGIC CAN PREDICT CELL FATE TRANSITIONS
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    Genome-wide phenotypic analysis of growth, cell morphogenesis and cellcycle events in Escherichia coli.
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    A synthesis of over 9,000 mass spectrometry experiments reveals the core set of human protein complexes
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    A two-state photoconversion model predicts the spectral response dynamics of optogenetic systems
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    Unraveling mitotic protein networks by 3D multiplexed epitope drug screening
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    Mapping DNA damage-dependent genetic interactions in yeast via orgy mating and barcode fusion genetics
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    Redesigning chromosomes to optimize conformation capture (Hi-C) assays
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    Deciphering microbial interactions in synthetic human gut microbiome communities
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    Expression variation and covariation impair analog and enable binary signaling control
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    Timing of gene expression in a cell-fate decision system
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    Photoperiodic control of the Arabidopsis proteome reveals a translational coincidence mechanism
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    A Map Of Genetic Interactions In Cancer Cells
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    Antisense transcription-dependent chromatin signature modulates sense transcription and transcript dynamics
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    Assigning Function To Natural Allelic Variation Via Dynamic Modeling Of Gene Network Induction
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    Expanding the Atlas of Functional Missense Variation for Human Genes
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    Resolving Drug Effects In Patient-Derived Cancer Cells Links Organoid Responses To Genome Alterations
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    The Landscape Of Human Mutually Exclusive Splicing
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    From word models to executable models of signaling networks using automated assembly
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    CRISPR/Cas9 screening using unique molecular identifiers
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    In Situ Genotyping Of A Pooled Strain Library After Characterizing Complex Phenotypes
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    A Theory That Predicts Behaviors Of Disordered Cytoskeletal Networks
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    High-throughput CRISPRi phenotyping in Streptococcus pneumoniae identifies new essential genes involved in cell wall synthesis and competence development
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    A living vector field reveals constraints on galactose network induction in yeast
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    Distinct Cellular States Determine Calcium Signaling Response
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    An Atlas of Human Kinase Regulation
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    A population-based temporal logic gate for timing and recording chemical events
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    Determinants of RNA metabolism in the Schizosaccharomyces pombe genome
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    Differential dynamics of the mammalian mRNA and protein expression response to misfolding stress
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    Efficient Search, Mapping, and Optimization of Multi-protein Genetic Systems in Diverse Bacteria
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    Measuring error rates in genomic perturbation screens: gold standards for human functional genomics
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