Journal Articles

Carter JL, Morales R, Johnson SM. 2018. Chemotaxis based enrichment for transgenic animals containing the rol-6 marker. microPublication Biology. 3.  doi:/10.17912/KEDF-YN42

Weber KS, Bridgewater LC, Jensen JL, Breakwell DP, Nielsen B, Johnson SM. 2018. Personal microbiome analysis improves student engagement and interest in Immunology, Molecular Biology, and Genomics undergraduate courses. PLoS One. 13(4):20 pages.  doi:10.1071/FP17281

Kieffer-Kwon KR, Nimura K, Rao SS, Xu J, Jung S, Pekowska A, Dose M, Stevens E, Mathe E, Dong P, et al. 2017. Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation. Molecular Cell. 67(4):566-578.

Kempton CE, Weber KS, Johnson SM. 2017. Method to increase undergraduate laboratory student confidence in performing independent research. Journal of Microbiology & Biology Eudcation. 18(1).  doi:10.1128/jmbe.v18i1.1230

Weber KS, Jensen JL, Johnson SM. 2015. Anticipation of personal genomics data enhances interest and learning environment in genomics and molecular biology undergraduate courses. PLoS One. 10(8):e0133486.  doi:10.1371/journal.pone.0133486

Kempton CE, Heninger JR, Johnson SM. 2014. Reproducibility and Consistency of In Vitro Nucleosome Reconstitutions Demonstrated by Invitrosome Isolation and Sequencing. PLoS One. 9(8):e103752.  doi:10.1371/journal.pone.0103752

Locke G, Haberman D, Johnson SM, Morozov AV. 2013. Global remodeling of nucleosome positions in C. elegans. BMC Genomics. 14:284.

Kundaje A, Kyriazopoulou-Panagiotopoulou S, Libbrecht M, Smith CL, Raha D, Winters EE, Johnson SM, Snyder MP, Batzoglou S, Sidow A. 2012. Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements. Genome Research. 22:1735-1747.

Valouev A, Johnson SM, Boyd SD, Smith CL, Fire AZ, Sidow A. 2011. Determinants of nucleosome organization in primary human cells. Nature. 474:516-520.

Johnson SM. 2010. Painting a perspective on the landscape of nucleosome positioning. Journal of Biomolecular Structure and Dynamics. 27(6):795-802.

Valouev A, Ichikawa J, Tonthat T, Stuart J, Ranade S, Peckham H, Zeng K, Malek JA, Costa G, McKernan K, et al. 2008. A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning. Genome Research. 18:1051-1063.

Johnson SM, Tan FJ, McCullough HL, Riordan DP, Fire AZ. 2006. Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin. Genome Research. 16:1505-1516.

Moreno-Herrero F, Seidel R, Johnson SM, Fire A, Dekker NH. 2006. Structural analysis of hyperperiodic DNA from Caenorhabditis elegans. Nucleic Acids Research. 34:3057-3066.

Esquela-Kerscher A, Johnson SM, Bai L, Saito K, Partridge J, Reinert KL, Slack FJ. 2005. Post-embryonic expression of C. elegans microRNAs belonging to the lin-4 and let-7 families in the hypodermis and the reproductive system. Developmental Dynamics. 234:868-877.

Johnson SM, Grosshans H, Shingara J, Byrom M, Jarvis R, Cheng A, Labourier E, Reinert KL, Brown D, Slack FJ. 2005. RAS is regulated by the let-7 microRNA family. Cell. 120:635-647.

Lin S, Johnson SM, Abraham M, Vella MC, Pasquinelli A, Gamberi C, Gottlieb E, Slack FJ. 2003. The C. elegans hunchback homolog, hbl-1 controls temporal patterning and is a probable microRNA target. Developmental Cell. 4:639-650.

Johnson SM, Lin S, Slack FJ. 2003. The time of appearance of the C. elegans let-7 microRNA is transcriptionally controlled utilizing a temporal regulatory element in its promoter. Developmental Biology. 259:364-379.

Ma X, Husain T, Peng H, Lin S, Mironenko O, Maun N, Johnson SM, Tuck D, Berliner N, Krause DS, et al. 2002. Development of a murine hematopoietic progenitor complementary DNA microarray using a subtracted complementary DNA library. Blood. 100:833-844.


Snyder M, Raha D, Johnson SM, Winters EE, Sidow A, Weng Z, Smith C, Lacroute P, Cayting P, Kundaje A. 2011. Nucleosome Position by MNase-seq from ENCODE/Stanford/BYU.

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