Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic leukemia reveals downregulation of retained introns

Autor: Alison D. Tang, Cameron M. Soulette, Marijke J. van Baren, Kevyn Hart, Eva Hrabeta-Robinson, Catherine J. Wu, Angela N. Brooks

Publikováno v: Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)

Long-read sequencing is useful in determining exon-connectivity of full-length mRNA isoforms. Here, by long-read nanopore sequencing, the authors report that intron retention is downregulated in SF3B1 mutant chronic lymphocytic leukemia cells than no

Externí odkaz: https://doaj.org/article/6a806ecaedad4c65b48bc9c6561be042

Responses of the picoprasinophyte Micromonas commoda to light and ultraviolet stress.

Autor: Marie L Cuvelier, Jian Guo, Alejandra C Ortiz, Marijke J van Baren, Muhammad Akram Tariq, Frédéric Partensky, Alexandra Z Worden

Publikováno v: PLoS ONE, Vol 12, Iss 3, p e0172135 (2017)

Micromonas is a unicellular marine green alga that thrives from tropical to polar ecosystems. We investigated the growth and cellular characteristics of acclimated mid-exponential phase Micromonas commoda RCC299 over multiple light levels and over th

Externí odkaz: https://doaj.org/article/2fe3d870f12448cd9d437992f80b07df

Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic leukemia reveals downregulation of retained introns

Autor: Catherine J. Wu, Eva Hrabeta-Robinson, Cameron M. Soulette, Angela N. Brooks, Kevyn Hart, Alison D. Tang, Marijke J. van Baren

Publikováno v: Nature communications, vol 11, iss 1
Nature Communications
Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)

While splicing changes caused by somatic mutations in SF3B1 are known, identifying full-length isoform changes may better elucidate the functional consequences of these mutations. We report nanopore sequencing of full-length cDNA from CLL samples wit

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6b80d2c5d56a024699fa8e01cdebfd44
https://escholarship.org/uc/item/672470gc

Estimating the Nucleotide Diversity in Ceratodon purpureus (Ditrichaceae) from 218 Conserved Exon-Primed, Intron-Spanning Nuclear Loci

Autor: Stuart F. McDaniel, Marijke J. van Baren, Kelly S. Jones, Adam C. Payton, Ralph S. Quatrano

Publikováno v: Applications in Plant Sciences, Vol 1, Iss 4, p 1200387 (2013)

Premise of the study: We developed and tested primers for 218 nuclear loci for studying population genetics, phylogeography, and genome evolution in bryophytes. Methods and Results: We aligned expressed sequence tags (ESTs) from Ceratodon purpureu

Externí odkaz: https://doaj.org/article/6bc6873d34ee47dd8b54c06875b0015c

Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants

Autor: Emily Nahas Reistetter, Sebastian Sudek, Jane Grimwood, Jeremy Schmutz, Charles Bachy, Samuel O. Purvine, Camille Poirier, Richard D. Smith, Alan Kuo, Marijke J. van Baren, Chee Hong Wong, Thomas J. Deerinck, Igor V. Grigoriev, Hang Yu, Chia-Lin Wei, Alexandra Z. Worden, Stephen J. Callister

Publikováno v: BMC genomics, vol 17, iss 1
BMC Genomics, 17 (1). Art.Nr. 267.
van Baren, MJ; Bachy, C; Reistetter, EN; Purvine, SO; Grimwood, J; Sudek, S; et al.(2016). Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants. BMC Genomics, 17(1). doi: 10.1186/s12864-016-2585-6. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/4n11p2r6
BMC Genomics

Background Prasinophytes are widespread marine green algae that are related to plants. Cellular abundance of the prasinophyte Micromonas has reportedly increased in the Arctic due to climate-induced changes. Thus, studies of these unicellular eukaryo

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a2d651bd1e6bf0645a094b276a6fc95c
https://escholarship.org/uc/item/4n11p2r6