Richard Szubin

Title(s)SRA 3, Bioengineering
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    1. CyuR is a dual regulator for L-cysteine dependent antimicrobial resistance in Escherichia coli. Commun Biol. 2024 Sep 17; 7(1):1160. Rodionova IA, Lim HG, Gao Y, Rodionov DA, Hutchison Y, Szubin R, Dalldorf C, Monk J, Palsson BO. PMID: 39289465; PMCID: PMC11408624.
      View in: PubMed   Mentions: Translation:Cells
    2. Machine learning reveals the transcriptional regulatory network and circadian dynamics of Synechococcus elongatus PCC 7942. Proc Natl Acad Sci U S A. 2024 Sep 17; 121(38):e2410492121. Yuan Y, Al Bulushi T, Sastry AV, Sancar C, Szubin R, Golden SS, Palsson BO. PMID: 39269777; PMCID: PMC11420160.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    3. The hallmarks of a tradeoff in transcriptomes that balances stress and growth functions. mSystems. 2024 Jul 23; 9(7):e0030524. Dalldorf C, Rychel K, Szubin R, Hefner Y, Patel A, Zielinski DC, Palsson BO. PMID: 38829048; PMCID: PMC11264592.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    4. Advancing the scale of synthetic biology via cross-species transfer of cellular functions enabled by iModulon engraftment. Nat Commun. 2024 Mar 15; 15(1):2356. Choe D, Olson CA, Szubin R, Yang H, Sung J, Feist AM, Palsson BO. PMID: 38490991; PMCID: PMC10943186.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    5. Reconstructing the transcriptional regulatory network of probiotic L. reuteri is enabled by transcriptomics and machine learning. mSystems. 2024 Mar 19; 9(3):e0125723. Josephs-Spaulding J, Rajput A, Hefner Y, Szubin R, Balasubramanian A, Li G, Zielinski DC, Jahn L, Sommer M, Phaneuf P, Palsson BO. PMID: 38349131; PMCID: PMC10949432.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    6. Independent component analysis reveals 49 independently modulated gene sets within the global transcriptional regulatory architecture of multidrug-resistant Acinetobacter baumannii. mSystems. 2024 Feb 20; 9(2):e0060623. Menon ND, Poudel S, Sastry AV, Rychel K, Szubin R, Dillon N, Tsunemoto H, Hirose Y, Nair BG, Kumar GB, Palsson BO, Nizet V. PMID: 38189271; PMCID: PMC10878099.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    7. Global pathogenomic analysis identifies known and candidate genetic antimicrobial resistance determinants in twelve species. Nat Commun. 2023 Nov 24; 14(1):7690. Hyun JC, Monk JM, Szubin R, Hefner Y, Palsson BO. PMID: 38001096; PMCID: PMC10673929.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    8. Laboratory evolution, transcriptomics, and modeling reveal mechanisms of paraquat tolerance. Cell Rep. 2023 09 26; 42(9):113105. Rychel K, Tan J, Patel A, Lamoureux C, Hefner Y, Szubin R, Johnsen J, Mohamed ETT, Phaneuf PV, Anand A, Olson CA, Park JH, Sastry AV, Yang L, Feist AM, Palsson BO. PMID: 37713311; PMCID: PMC10591938.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    9. Adaptive evolution of a minimal organism with a synthetic genome. iScience. 2023 Sep 15; 26(9):107500. Sandberg TE, Wise KS, Dalldorf C, Szubin R, Feist AM, Glass JI, Palsson BO. PMID: 37636038; PMCID: PMC10448532.
      View in: PubMed   Mentions: 6  
    10. Elucidation of independently modulated genes in Streptococcus pyogenes reveals carbon sources that control its expression of hemolytic toxins. mSystems. 2023 Jun 29; 8(3):e0024723. Hirose Y, Poudel S, Sastry AV, Rychel K, Lamoureux CR, Szubin R, Zielinski DC, Lim HG, Menon ND, Bergsten H, Uchiyama S, Hanada T, Kawabata S, Palsson BO, Nizet V. PMID: 37278526; PMCID: PMC10308926.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    11. The hallmarks of a tradeoff in transcriptomes that balances stress and growth functions. Res Sq. 2023 Apr 12. Dalldorf C, Rychel K, Szubin R, Hefner Y, Patel A, Zielinski DC, Palsson BO. PMID: 37090546; PMCID: PMC10120744.
      View in: PubMed   Mentions:
    12. Comprehensive whole genome sequencing with hybrid assembly of multi-drug resistant Candida albicans isolate causing cerebral abscess. Curr Res Microb Sci. 2023; 4:100180. Kumaraswamy M, Coady A, Szubin R, Martin TC, Palsson B, Nizet V, Monk JM. PMID: 36685102; PMCID: PMC9852921.
      View in: PubMed   Mentions: 2  
    13. An unexpected role for leucyl aminopeptidase in UV tolerance revealed by a genome-wide fitness assessment in a model cyanobacterium. Proc Natl Acad Sci U S A. 2022 Nov 08; 119(45):e2211789119. Weiss EL, Fang M, Taton A, Szubin R, Palsson BØ, Mitchell BG, Golden SS. PMID: 36322730; PMCID: PMC9659335.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    14. Coordination of CcpA and CodY Regulators in Staphylococcus aureus USA300 Strains. mSystems. 2022 12 20; 7(6):e0048022. Poudel S, Hefner Y, Szubin R, Sastry A, Gao Y, Nizet V, Palsson BO. PMID: 36321827; PMCID: PMC9765215.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    15. Experimental Evolution Reveals Unifying Systems-Level Adaptations but Diversity in Driving Genotypes. mSystems. 2022 12 20; 7(6):e0016522. Kavvas ES, Long CP, Sastry A, Poudel S, Antoniewicz MR, Ding Y, Mohamed ET, Szubin R, Monk JM, Feist AM, Palsson BO. PMID: 36226969; PMCID: PMC9765567.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    16. Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of Pseudomonas aeruginosa. Nucleic Acids Res. 2022 09 23; 50(17):9675-9688. Rajput A, Tsunemoto H, Sastry AV, Szubin R, Rychel K, Chauhan SM, Pogliano J, Palsson BO. PMID: 36095122; PMCID: PMC9508857.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    17. Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity. Nat Commun. 2022 06 27; 13(1):3682. Anand A, Patel A, Chen K, Olson CA, Phaneuf PV, Lamoureux C, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 35760776; PMCID: PMC9237125.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    18. A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli. Sci Rep. 2022 05 04; 12(1):7274. Rodionova IA, Gao Y, Monk J, Hefner Y, Wong N, Szubin R, Lim HG, Rodionov DA, Zhang Z, Saier MH, Palsson BO. PMID: 35508583; PMCID: PMC9068703.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    19. Machine learning from Pseudomonas aeruginosa transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators. Nucleic Acids Res. 2022 04 22; 50(7):3658-3672. Rajput A, Tsunemoto H, Sastry AV, Szubin R, Rychel K, Sugie J, Pogliano J, Palsson BO. PMID: 35357493; PMCID: PMC9023270.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    20. Escherichia coli Data-Driven Strain Design Using Aggregated Adaptive Laboratory Evolution Mutational Data. ACS Synth Biol. 2021 12 17; 10(12):3379-3395. Phaneuf PV, Zielinski DC, Yurkovich JT, Johnsen J, Szubin R, Yang L, Kim SH, Schulz S, Wu M, Dalldorf C, Ozdemir E, Lennen RM, Palsson BO, Feist AM. PMID: 34762392; PMCID: PMC8870144.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    21. Rapid resistance development to three antistaphylococcal therapies in antibiotic-tolerant staphylococcus aureus bacteremia. PLoS One. 2021; 16(10):e0258592. Miller CR, Monk JM, Szubin R, Berti AD. PMID: 34669727; PMCID: PMC8528304.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    22. Unraveling the functions of uncharacterized transcription factors in Escherichia coli using ChIP-exo. Nucleic Acids Res. 2021 09 27; 49(17):9696-9710. Gao Y, Lim HG, Verkler H, Szubin R, Quach D, Rodionova I, Chen K, Yurkovich JT, Cho BK, Palsson BO. PMID: 34428301; PMCID: PMC8464067.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    23. RiboRid: A low cost, advanced, and ultra-efficient method to remove ribosomal RNA for bacterial transcriptomics. PLoS Genet. 2021 09; 17(9):e1009821. Choe D, Szubin R, Poudel S, Sastry A, Song Y, Lee Y, Cho S, Palsson B, Cho BK. PMID: 34570751; PMCID: PMC8496792.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    24. Machine Learning of Bacterial Transcriptomes Reveals Responses Underlying Differential Antibiotic Susceptibility. mSphere. 2021 08 25; 6(4):e0044321. Sastry AV, Dillon N, Anand A, Poudel S, Hefner Y, Xu S, Szubin R, Feist AM, Nizet V, Palsson B. PMID: 34431696; PMCID: PMC8386450.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    25. Environmental conditions dictate differential evolution of vancomycin resistance in Staphylococcus aureus. Commun Biol. 2021 06 25; 4(1):793. Machado H, Seif Y, Sakoulas G, Olson CA, Hefner Y, Anand A, Jones YZ, Szubin R, Palsson BO, Nizet V, Feist AM. PMID: 34172889; PMCID: PMC8233327.
      View in: PubMed   Mentions: 13  Translation:HumansCells
    26. Restoration of fitness lost due to dysregulation of the pyruvate dehydrogenase complex is triggered by ribosomal binding site modifications. Cell Rep. 2021 04 06; 35(1):108961. Anand A, Olson CA, Sastry AV, Patel A, Szubin R, Yang L, Feist AM, Palsson BO. PMID: 33826886; PMCID: PMC8489512.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    27. Identifying the effect of vancomycin on health care-associated methicillin-resistant Staphylococcus aureus strains using bacteriological and physiological media. Gigascience. 2021 01 09; 10(1). Rajput A, Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Seif Y, Lamsa A, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Knight R, Pogliano J, Nizet V, Feist AM, Palsson BO. PMID: 33420779; PMCID: PMC7794652.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    28. High-Quality Genome-Scale Models From Error-Prone, Long-Read Assemblies. Front Microbiol. 2020; 11:596626. Broddrick JT, Szubin R, Norsigian CJ, Monk JM, Palsson BO, Parenteau MN. PMID: 33281796; PMCID: PMC7688782.
      View in: PubMed   Mentions: 2  
    29. Elucidation of Regulatory Modes for Five Two-Component Systems in Escherichia coli Reveals Novel Relationships. mSystems. 2020 Nov 10; 5(6). Choudhary KS, Kleinmanns JA, Decker K, Sastry AV, Gao Y, Szubin R, Seif Y, Palsson BO. PMID: 33172971; PMCID: PMC7657598.
      View in: PubMed   Mentions: 16     Fields:    
    30. Synthetic cross-phyla gene replacement and evolutionary assimilation of major enzymes. Nat Ecol Evol. 2020 10; 4(10):1402-1409. Sandberg TE, Szubin R, Phaneuf PV, Palsson BO. PMID: 32778753; PMCID: PMC7529951.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    31. Revealing 29 sets of independently modulated genes in Staphylococcus aureus, their regulators, and role in key physiological response. Proc Natl Acad Sci U S A. 2020 07 21; 117(29):17228-17239. Poudel S, Tsunemoto H, Seif Y, Sastry AV, Szubin R, Xu S, Machado H, Olson CA, Anand A, Pogliano J, Nizet V, Palsson BO. PMID: 32616573; PMCID: PMC7382225.
      View in: PubMed   Mentions: 40     Fields:    Translation:Cells
    32. Genome Sequence Comparison of Staphylococcus aureus TX0117 and a Beta-Lactamase-Cured Derivative Shows Increased Cationic Peptide Resistance Accompanying Mutations in relA and mnaA. Microbiol Resour Announc. 2020 Apr 30; 9(18). Sales MJ, Sakoulas G, Szubin R, Palsson B, Arias C, Singh KV, Murray BE, Monk JM. PMID: 32354985; PMCID: PMC7193940.
      View in: PubMed   Mentions: 3  
    33. Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant Staphylococcus aureus. mSystems. 2020 Mar 31; 5(2). Salazar MJ, Machado H, Dillon NA, Tsunemoto H, Szubin R, Dahesh S, Pogliano J, Sakoulas G, Palsson BO, Nizet V, Feist AM. PMID: 32234776; PMCID: PMC7112963.
      View in: PubMed   Mentions: 5     Fields:    
    34. OxyR Is a Convergent Target for Mutations Acquired during Adaptation to Oxidative Stress-Prone Metabolic States. Mol Biol Evol. 2020 03 01; 37(3):660-667. Anand A, Chen K, Catoiu E, Sastry AV, Olson CA, Sandberg TE, Seif Y, Xu S, Szubin R, Yang L, Feist AM, Palsson BO. PMID: 31651953; PMCID: PMC7038661.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    35. Distinct Subpopulations of Intravalvular Methicillin-Resistant Staphylococcus aureus with Variable Susceptibility to Daptomycin in Tricuspid Valve Endocarditis. Antimicrob Agents Chemother. 2020 02 21; 64(3). Miller CR, Dey S, Smolenski PD, Kulkarni PS, Monk JM, Szubin R, Sakoulas G, Berti AD. PMID: 31932377; PMCID: PMC7038235.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    36. Reduced Production of Bacterial Membrane Vesicles Predicts Mortality in ST45/USA600 Methicillin-Resistant Staphylococcus aureus Bacteremia. Antibiotics (Basel). 2019 Dec 18; 9(1). Dey S, Gudipati S, Giuliano C, Zervos MJ, Monk JM, Szubin R, Jorgensen SCJ, Sakoulas G, Berti AD. PMID: 31861446; PMCID: PMC7168145.
      View in: PubMed   Mentions: 5  
    37. Profiling the effect of nafcillin on HA-MRSA D712 using bacteriological and physiological media. Sci Data. 2019 12 17; 6(1):322. Rajput A, Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Lamsa A, Seif Y, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Knight R, Nizet V, Palsson BO, Feist AM, Pogliano J. PMID: 31848353; PMCID: PMC6917727.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    38. The Escherichia coli transcriptome mostly consists of independently regulated modules. Nat Commun. 2019 12 04; 10(1):5536. Sastry AV, Gao Y, Szubin R, Hefner Y, Xu S, Kim D, Choudhary KS, Yang L, King ZA, Palsson BO. PMID: 31797920; PMCID: PMC6892915.
      View in: PubMed   Mentions: 109     Fields:    Translation:Cells
    39. Adaptive evolution reveals a tradeoff between growth rate and oxidative stress during naphthoquinone-based aerobic respiration. Proc Natl Acad Sci U S A. 2019 12 10; 116(50):25287-25292. Anand A, Chen K, Yang L, Sastry AV, Olson CA, Poudel S, Seif Y, Hefner Y, Phaneuf PV, Xu S, Szubin R, Feist AM, Palsson BO. PMID: 31767748; PMCID: PMC6911176.
      View in: PubMed   Mentions: 26     Fields:    Translation:Cells
    40. Adaptive laboratory evolution of Escherichia coli under acid stress. Microbiology (Reading). 2020 02; 166(2):141-148. Du B, Olson CA, Sastry AV, Fang X, Phaneuf PV, Chen K, Wu M, Szubin R, Xu S, Gao Y, Hefner Y, Feist AM, Palsson BO. PMID: 31625833; PMCID: PMC7273327.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    41. Cellular responses to reactive oxygen species are predicted from molecular mechanisms. Proc Natl Acad Sci U S A. 2019 07 09; 116(28):14368-14373. Yang L, Mih N, Anand A, Park JH, Tan J, Yurkovich JT, Monk JM, Lloyd CJ, Sandberg TE, Seo SW, Kim D, Sastry AV, Phaneuf P, Gao Y, Broddrick JT, Chen K, Heckmann D, Szubin R, Hefner Y, Feist AM, Palsson BO. PMID: 31270234; PMCID: PMC6628673.
      View in: PubMed   Mentions: 30     Fields:    Translation:Cells
    42. Comparative Genome-Scale Metabolic Modeling of Metallo-Beta-Lactamase-Producing Multidrug-Resistant Klebsiella pneumoniae Clinical Isolates. Front Cell Infect Microbiol. 2019; 9:161. Norsigian CJ, Attia H, Szubin R, Yassin AS, Palsson BØ, Aziz RK, Monk JM. PMID: 31179245; PMCID: PMC6543805.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    43. Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media. Sci Data. 2019 04 26; 6(1):43. Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Lamsa A, Seif Y, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Pogliano J, Knight R, Nizet V, Palsson BO, Feist AM. PMID: 31028276; PMCID: PMC6486602.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    44. Draft Genome Sequences of Four Metallo-Beta-Lactamase-Producing Multidrug-Resistant Klebsiella pneumoniae Clinical Isolates, Including Two Colistin-Resistant Strains, from Cairo, Egypt. Microbiol Resour Announc. 2019 Feb; 8(7). Attia H, Szubin R, Yassin AS, Monk JM, Aziz RK. PMID: 30801061; PMCID: PMC6376420.
      View in: PubMed   Mentions: 5  
    45. Pseudogene repair driven by selection pressure applied in experimental evolution. Nat Microbiol. 2019 03; 4(3):386-389. Anand A, Olson CA, Yang L, Sastry AV, Catoiu E, Choudhary KS, Phaneuf PV, Sandberg TE, Xu S, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30692668.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    46. Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient. Front Microbiol. 2018; 9:2559. Fang X, Monk JM, Nurk S, Akseshina M, Zhu Q, Gemmell C, Gianetto-Hill C, Leung N, Szubin R, Sanders J, Beck PL, Li W, Sandborn WJ, Gray-Owen SD, Knight R, Allen-Vercoe E, Palsson BO, Smarr L. PMID: 30425690; PMCID: PMC6218438.
      View in: PubMed   Mentions: 31  
    47. Gapless, Unambiguous Genome Sequence for Escherichia coli C, a Workhorse of Industrial Biology. Microbiol Resour Announc. 2018 Oct; 7(13). Pekar JE, Phaneuf P, Szubin R, Palsson B, Feist A, Monk JM. PMID: 30533692; PMCID: PMC6256561.
      View in: PubMed   Mentions: 2  
    48. Evolution of gene knockout strains of E. coli reveal regulatory architectures governed by metabolism. Nat Commun. 2018 09 18; 9(1):3796. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30228271; PMCID: PMC6143558.
      View in: PubMed   Mentions: 29     Fields:    Translation:Cells
    49. Multiple Optimal Phenotypes Overcome Redox and Glycolytic Intermediate Metabolite Imbalances in Escherichia coli pgi Knockout Evolutions. Appl Environ Microbiol. 2018 10 01; 84(19). McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30054360; PMCID: PMC6146989.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    50. Growth Adaptation of gnd and sdhCB Escherichia coli Deletion Strains Diverges From a Similar Initial Perturbation of the Transcriptome. Front Microbiol. 2018; 9:1793. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30131786; PMCID: PMC6090065.
      View in: PubMed   Mentions: 17  
    51. Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the Phosphotransferase System. Metab Eng. 2018 07; 48:233-242. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 29906504.
      View in: PubMed   Mentions: 22     Fields:    Translation:Cells
    52. Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes. Metab Eng. 2018 07; 48:82-93. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 29842925.
      View in: PubMed   Mentions: 22     Fields:    Translation:Cells
    53. ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions. PLoS One. 2018; 13(5):e0197272. Latif H, Federowicz S, Ebrahim A, Tarasova J, Szubin R, Utrilla J, Zengler K, Palsson BO. PMID: 29771928; PMCID: PMC5957442.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    54. Genome-scale analysis of Methicillin-resistant Staphylococcus aureus USA300 reveals a tradeoff between pathogenesis and drug resistance. Sci Rep. 2018 02 02; 8(1):2215. Choe D, Szubin R, Dahesh S, Cho S, Nizet V, Palsson B, Cho BK. PMID: 29396540; PMCID: PMC5797083.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    55. Revealing genome-scale transcriptional regulatory landscape of OmpR highlights its expanded regulatory roles under osmotic stress in Escherichia coli K-12 MG1655. Sci Rep. 2017 05 19; 7(1):2181. Seo SW, Gao Y, Kim D, Szubin R, Yang J, Cho BK, Palsson BO. PMID: 28526842; PMCID: PMC5438342.
      View in: PubMed   Mentions: 28     Fields:    Translation:Cells
    56. Multi-omic data integration enables discovery of hidden biological regularities. Nat Commun. 2016 10 26; 7:13091. Ebrahim A, Brunk E, Tan J, O'Brien EJ, Kim D, Szubin R, Lerman JA, Lechner A, Sastry A, Bordbar A, Feist AM, Palsson BO. PMID: 27782110; PMCID: PMC5095171.
      View in: PubMed   Mentions: 72     Fields:    Translation:Cells
    57. Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655. Cell Rep. 2015 Aug 25; 12(8):1289-99. Seo SW, Kim D, Szubin R, Palsson BO. PMID: 26279566.
      View in: PubMed   Mentions: 92     Fields:    Translation:Cells
    58. Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli. Nat Commun. 2015 Aug 10; 6:7970. Seo SW, Kim D, O'Brien EJ, Szubin R, Palsson BO. PMID: 26258987; PMCID: PMC4918353.
      View in: PubMed   Mentions: 60     Fields:    Translation:Cells
    59. A streamlined ribosome profiling protocol for the characterization of microorganisms. Biotechniques. 2015 Jun; 58(6):329-32. Latif H, Szubin R, Tan J, Brunk E, Lechner A, Zengler K, Palsson BO. PMID: 26054770.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    60. Use of adaptive laboratory evolution to discover key mutations enabling rapid growth of Escherichia coli K-12 MG1655 on glucose minimal medium. Appl Environ Microbiol. 2015 Jan; 81(1):17-30. LaCroix RA, Sandberg TE, O'Brien EJ, Utrilla J, Ebrahim A, Guzman GI, Szubin R, Palsson BO, Feist AM. PMID: 25304508; PMCID: PMC4272732.
      View in: PubMed   Mentions: 120     Fields:    Translation:Cells
    61. Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli. Nat Commun. 2014 Sep 15; 5:4910. Seo SW, Kim D, Latif H, O'Brien EJ, Szubin R, Palsson BO. PMID: 25222563; PMCID: PMC4167408.
      View in: PubMed   Mentions: 148     Fields:    Translation:Cells
    62. The early interferon alpha subtype response in infant macaques infected orally with SIV. J Acquir Immune Defic Syndr. 2010 Sep; 55(1):14-28. Easlick J, Szubin R, Lantz S, Baumgarth N, Abel K. PMID: 20616742; PMCID: PMC2927738.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    63. Human cytomegalovirus suppresses type I interferon secretion by plasmacytoid dendritic cells through its interleukin 10 homolog. Virology. 2009 Aug 01; 390(2):330-7. Chang WL, Barry PA, Szubin R, Wang D, Baumgarth N. PMID: 19524994; PMCID: PMC2747589.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansCells
    64. Rigid interferon-alpha subtype responses of human plasmacytoid dendritic cells. J Interferon Cytokine Res. 2008 Dec; 28(12):749-63. Szubin R, Chang WL, Greasby T, Beckett L, Baumgarth N. PMID: 18937549; PMCID: PMC2956691.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansCells
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