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Sharad Ramanathan, Ph.D.

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Anand GM, Megale HC, Murphy SH, Weis T, Lin Z, He Y, Wang X, Liu J, Ramanathan S. Controlling organoid symmetry breaking uncovers an excitable system underlying human axial elongation. Cell. 2023 Jan 11. PMID: 36657443.
    Citations:    Fields:    
  2. Yaman YI, Ramanathan S. Controlling human organoid symmetry breaking reveals signaling gradients drive segmentation clock waves. Cell. 2023 Jan 10. PMID: 36657441.
    Citations:    Fields:    
  3. Valcourt JR, Huang RE, Kundu S, Venkatasubramanian D, Kingston RE, Ramanathan S. Modulating mesendoderm competence during human germ layer differentiation. Cell Rep. 2021 11 09; 37(6):109990. PMID: 34758327; PMCID: PMC8601596.
    Citations: 1     Fields:    Translation:HumansCells
  4. Melton S, Ramanathan S. Discovering a sparse set of pairwise discriminating features in high-dimensional data. Bioinformatics. 2021 04 19; 37(2):202-212. PMID: 32730566; PMCID: PMC8599814.
    Citations: 1     Fields:    Translation:Animals
  5. Zhang Z, Zwick S, Loew E, Grimley JS, Ramanathan S. Mouse embryo geometry drives formation of robust signaling gradients through receptor localization. Nat Commun. 2019 10 04; 10(1):4516. PMID: 31586065; PMCID: PMC6778081.
    Citations: 23     Fields:    Translation:HumansAnimalsCells
  6. Lee JB, Yonar A, Hallacy T, Shen CH, Milloz J, Srinivasan J, Kocabas A, Ramanathan S. A compressed sensing framework for efficient dissection of neural circuits. Nat Methods. 2019 01; 16(1):126-133. PMID: 30573831.
    Citations: 4     Fields:    Translation:AnimalsCells
  7. Close JL, Yao Z, Levi BP, Miller JA, Bakken TE, Menon V, Ting JT, Wall A, Krostag AR, Thomsen ER, Nelson AM, Mich JK, Hodge RD, Shehata SI, Glass IA, Bort S, Shapovalova NV, Ngo NK, Grimley JS, Phillips JW, Thompson CL, Ramanathan S, Lein E. Single-Cell Profiling of an In Vitro Model of Human Interneuron Development Reveals Temporal Dynamics of Cell Type Production and Maturation. Neuron. 2017 11 15; 96(4):949. PMID: 29144976.
    Citations: 4     Fields:    
  8. Furchtgott LA, Melton S, Menon V, Ramanathan S. Discovering sparse transcription factor codes for cell states and state transitions during development. Elife. 2017 03 15; 6. PMID: 28296636.
    Citations: 12     Fields:    Translation:HumansCells
  9. Jang S, Choubey S, Furchtgott L, Zou LN, Doyle A, Menon V, Loew EB, Krostag AR, Martinez RA, Madisen L, Levi BP, Ramanathan S. Dynamics of embryonic stem cell differentiation inferred from single-cell transcriptomics show a series of transitions through discrete cell states. Elife. 2017 03 15; 6. PMID: 28296635.
    Citations: 21     Fields:    Translation:AnimalsCells
  10. Close JL, Yao Z, Levi BP, Miller JA, Bakken TE, Menon V, Ting JT, Wall A, Krostag AR, Thomsen ER, Nelson AM, Mich JK, Hodge RD, Shehata SI, Glass IA, Bort S, Shapovalova NV, Ngo NK, Grimley JS, Phillips JW, Thompson CL, Ramanathan S, Lein E. Single-Cell Profiling of an In Vitro Model of Human Interneuron Development Reveals Temporal Dynamics of Cell Type Production and Maturation. Neuron. 2017 Mar 08; 93(5):1035-1048.e5. PMID: 28279351.
    Citations: 20     Fields:    Translation:HumansCells
  11. Yao Z, Mich JK, Ku S, Menon V, Krostag AR, Martinez RA, Furchtgott L, Mulholland H, Bort S, Fuqua MA, Gregor BW, Hodge RD, Jayabalu A, May RC, Melton S, Nelson AM, Ngo NK, Shapovalova NV, Shehata SI, Smith MW, Tait LJ, Thompson CL, Thomsen ER, Ye C, Glass IA, Kaykas A, Yao S, Phillips JW, Grimley JS, Levi BP, Wang Y, Ramanathan S. A Single-Cell Roadmap of Lineage Bifurcation in Human ESC Models of Embryonic Brain Development. Cell Stem Cell. 2017 01 05; 20(1):120-134. PMID: 28094016.
    Citations: 51     Fields:    Translation:HumansAnimalsCells
  12. Thomsen ER, Mich JK, Yao Z, Hodge RD, Doyle AM, Jang S, Shehata SI, Nelson AM, Shapovalova NV, Levi BP, Ramanathan S. Fixed single-cell transcriptomic characterization of human radial glial diversity. Nat Methods. 2016 Jan; 13(1):87-93. PMID: 26524239; PMCID: PMC4869711.
    Citations: 110     Fields:    Translation:HumansCells
  13. Kocabas A, Shen CH, Guo ZV, Ramanathan S. Controlling interneuron activity in Caenorhabditis elegans to evoke chemotactic behaviour. Nature. 2012 Oct 11; 490(7419):273-7. PMID: 23000898.
    Citations: 63     Fields:    Translation:AnimalsCells
  14. Müller P, Rogers KW, Jordan BM, Lee JS, Robson D, Ramanathan S, Schier AF. Differential diffusivity of Nodal and Lefty underlies a reaction-diffusion patterning system. Science. 2012 May 11; 336(6082):721-4. PMID: 22499809.
    Citations: 138     Fields:    Translation:AnimalsCells
  15. Thomson M, Liu SJ, Zou LN, Smith Z, Meissner A, Ramanathan S. Pluripotency factors in embryonic stem cells regulate differentiation into germ layers. Cell. 2011 Jun 10; 145(6):875-89. PMID: 21663792.
    Citations: 235     Fields:    Translation:AnimalsCells
  16. McClean MN, Hersen P, Ramanathan S. Measuring in vivo signaling kinetics in a mitogen-activated kinase pathway using dynamic input stimulation. Methods Mol Biol. 2011; 734:101-19. PMID: 21468987.
    Citations: 3     Fields:    Translation:AnimalsCells
  17. Guo ZV, Hart AC, Ramanathan S. Optical interrogation of neural circuits in Caenorhabditis elegans. Nat Methods. 2009 Dec; 6(12):891-6. PMID: 19898486.
    Citations: 114     Fields:    Translation:AnimalsCells
  18. Mody A, Weiner J, Ramanathan S. Modularity of MAP kinases allows deformation of their signalling pathways. Nat Cell Biol. 2009 Apr; 11(4):484-91. PMID: 19295513.
    Citations: 29     Fields:    Translation:AnimalsCells
  19. McClean MN, Hersen P, Ramanathan S. In vivo measurement of signaling cascade dynamics. Cell Cycle. 2009 Feb 01; 8(3):373-6. PMID: 19177008.
    Citations: 4     Fields:    Translation:AnimalsCells
  20. Hersen P, McClean M, Ramanathan S. [Dynamic analysis of cell signalling: the example of the Saccharomyces cerevisiae osmotic response]. Med Sci (Paris). 2008 Dec; 24(12):1020-2. PMID: 19116106.
    Citations:    Fields:    Translation:AnimalsCells
  21. Hersen P, McClean MN, Mahadevan L, Ramanathan S. Signal processing by the HOG MAP kinase pathway. Proc Natl Acad Sci U S A. 2008 May 20; 105(20):7165-70. PMID: 18480263.
    Citations: 112     Fields:    Translation:AnimalsCells
  22. Nachman I, Ramanathan S. HIV-1 positive feedback and lytic fate. Nat Genet. 2008 Apr; 40(4):382-3. PMID: 18368125.
    Citations: 1     Fields:    Translation:HumansCells
  23. Hallatschek O, Hersen P, Ramanathan S, Nelson DR. Genetic drift at expanding frontiers promotes gene segregation. Proc Natl Acad Sci U S A. 2007 Dec 11; 104(50):19926-30. PMID: 18056799.
    Citations: 202     Fields:    Translation:AnimalsCells
  24. Nachman I, Regev A, Ramanathan S. Dissecting timing variability in yeast meiosis. Cell. 2007 Nov 02; 131(3):544-56. PMID: 17981121.
    Citations: 72     Fields:    Translation:AnimalsCells
  25. McClean MN, Mody A, Broach JR, Ramanathan S. Cross-talk and decision making in MAP kinase pathways. Nat Genet. 2007 Mar; 39(3):409-14. PMID: 17259986.
    Citations: 67     Fields:    Translation:AnimalsCells
  26. Ramanathan S, Swain PS. Tracing the sources of cellular variation. Dev Cell. 2005 Nov; 9(5):576-8. PMID: 16256732.
    Citations: 2     Fields:    Translation:AnimalsCells
  27. Ramanathan S, Detwiler PB, Sengupta AM, Shraiman BI. G-protein-coupled enzyme cascades have intrinsic properties that improve signal localization and fidelity. Biophys J. 2005 May; 88(5):3063-71. PMID: 15681646; PMCID: PMC1305458.
    Citations: 8     Fields:    Translation:AnimalsCells
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.