FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2024133637> ?p ?o ?g. }

• W2024133637 endingPage "e1002531" @default.
• W2024133637 startingPage "e1002531" @default.
• W2024133637 abstract "Transcriptional enhancers integrate the contributions of multiple classes of transcription factors (TFs) to orchestrate the myriad spatio-temporal gene expression programs that occur during development. A molecular understanding of enhancers with similar activities requires the identification of both their unique and their shared sequence features. To address this problem, we combined phylogenetic profiling with a DNA-based enhancer sequence classifier that analyzes the TF binding sites (TFBSs) governing the transcription of a co-expressed gene set. We first assembled a small number of enhancers that are active in Drosophila melanogaster muscle founder cells (FCs) and other mesodermal cell types. Using phylogenetic profiling, we increased the number of enhancers by incorporating orthologous but divergent sequences from other Drosophila species. Functional assays revealed that the diverged enhancer orthologs were active in largely similar patterns as their D. melanogaster counterparts, although there was extensive evolutionary shuffling of known TFBSs. We then built and trained a classifier using this enhancer set and identified additional related enhancers based on the presence or absence of known and putative TFBSs. Predicted FC enhancers were over-represented in proximity to known FC genes; and many of the TFBSs learned by the classifier were found to be critical for enhancer activity, including POU homeodomain, Myb, Ets, Forkhead, and T-box motifs. Empirical testing also revealed that the T-box TF encoded by org-1 is a previously uncharacterized regulator of muscle cell identity. Finally, we found extensive diversity in the composition of TFBSs within known FC enhancers, suggesting that motif combinatorics plays an essential role in the cellular specificity exhibited by such enhancers. In summary, machine learning combined with evolutionary sequence analysis is useful for recognizing novel TFBSs and for facilitating the identification of cognate TFs that coordinate cell type-specific developmental gene expression patterns." @default.
• W2024133637 created "2016-06-24" @default.
• W2024133637 creator A5000503032 @default.
• W2024133637 creator A5018636972 @default.
• W2024133637 creator A5045376264 @default.
• W2024133637 creator A5049400056 @default.
• W2024133637 creator A5053257775 @default.
• W2024133637 creator A5071763912 @default.
• W2024133637 creator A5090387178 @default.
• W2024133637 date "2012-03-08" @default.
• W2024133637 modified "2023-10-14" @default.
• W2024133637 title "A Machine Learning Approach for Identifying Novel Cell Type–Specific Transcriptional Regulators of Myogenesis" @default.
• W2024133637 cites W1571471008 @default.
• W2024133637 cites W1756743071 @default.
• W2024133637 cites W1851393085 @default.
• W2024133637 cites W1944377017 @default.
• W2024133637 cites W1965425724 @default.
• W2024133637 cites W1968313211 @default.
• W2024133637 cites W1968465765 @default.
• W2024133637 cites W1969655939 @default.
• W2024133637 cites W1972289087 @default.
• W2024133637 cites W1973518241 @default.
• W2024133637 cites W1977620504 @default.
• W2024133637 cites W1978822051 @default.
• W2024133637 cites W1986256707 @default.
• W2024133637 cites W1987084599 @default.
• W2024133637 cites W1995775187 @default.
• W2024133637 cites W1995854414 @default.
• W2024133637 cites W1999909705 @default.
• W2024133637 cites W2001770641 @default.
• W2024133637 cites W2002645541 @default.
• W2024133637 cites W2003527666 @default.
• W2024133637 cites W2004993370 @default.
• W2024133637 cites W2006918465 @default.
• W2024133637 cites W2008005638 @default.
• W2024133637 cites W2008448536 @default.
• W2024133637 cites W2008807237 @default.
• W2024133637 cites W2015303237 @default.
• W2024133637 cites W2020633968 @default.
• W2024133637 cites W2020708064 @default.
• W2024133637 cites W2021841129 @default.
• W2024133637 cites W2027946350 @default.
• W2024133637 cites W2029271116 @default.
• W2024133637 cites W2032828021 @default.
• W2024133637 cites W2033201031 @default.
• W2024133637 cites W2033348165 @default.
• W2024133637 cites W2034719432 @default.
• W2024133637 cites W2036666073 @default.
• W2024133637 cites W2037611829 @default.
• W2024133637 cites W2038783223 @default.
• W2024133637 cites W2042254824 @default.
• W2024133637 cites W2049129660 @default.
• W2024133637 cites W2052112605 @default.
• W2024133637 cites W2053817688 @default.
• W2024133637 cites W2054228491 @default.
• W2024133637 cites W2059490316 @default.
• W2024133637 cites W2073727170 @default.
• W2024133637 cites W2076313473 @default.
• W2024133637 cites W2079283074 @default.
• W2024133637 cites W2080152736 @default.
• W2024133637 cites W2080506913 @default.
• W2024133637 cites W2081399343 @default.
• W2024133637 cites W2081965566 @default.
• W2024133637 cites W2083220979 @default.
• W2024133637 cites W2085315537 @default.
• W2024133637 cites W2086067046 @default.
• W2024133637 cites W2088292216 @default.
• W2024133637 cites W2089194762 @default.
• W2024133637 cites W2091641911 @default.
• W2024133637 cites W2093477438 @default.
• W2024133637 cites W2095847047 @default.
• W2024133637 cites W2095925603 @default.
• W2024133637 cites W2104582907 @default.
• W2024133637 cites W2104698381 @default.
• W2024133637 cites W2107740756 @default.
• W2024133637 cites W2110492953 @default.
• W2024133637 cites W2111164126 @default.
• W2024133637 cites W2111525541 @default.
• W2024133637 cites W2112221859 @default.
• W2024133637 cites W2116015974 @default.
• W2024133637 cites W2116251070 @default.
• W2024133637 cites W2117549173 @default.
• W2024133637 cites W2117792884 @default.
• W2024133637 cites W2119804413 @default.
• W2024133637 cites W2119932644 @default.
• W2024133637 cites W2121607820 @default.
• W2024133637 cites W2121958135 @default.
• W2024133637 cites W2122535550 @default.
• W2024133637 cites W2122814955 @default.
• W2024133637 cites W2124025352 @default.
• W2024133637 cites W2125427437 @default.
• W2024133637 cites W2127043599 @default.
• W2024133637 cites W2127325366 @default.
• W2024133637 cites W2129920058 @default.
• W2024133637 cites W2130410032 @default.
• W2024133637 cites W2130892490 @default.
• W2024133637 cites W2135030836 @default.
• W2024133637 cites W2135185213 @default.

• next