Literature DB >> 11292856

Optimizing the detection of nascent transcripts by RNA fluorescence in situ hybridization.

C D van Raamsdonk1, S M Tilghman.   

Abstract

An unusual feature of the mammalian genome is the number of genes exhibiting monoallelic expression. Recently random monoallelic expression of autosomal genes has been reported for olfactory and Ly-49 NK receptor genes, as well as for Il-2, Il-4 and Pax5. RNA fluorescence in situ hybridization (FISH) has been exploited to monitor allelic expression by visualizing the number of sites of transcription in individual nuclei. However, the sensitivity of this technique is difficult to determine for a given gene. We show that by combining DNA and RNA FISH it is possible to control for the hybridization efficiency and the accessibility and visibility of fluorescent probes within the nucleus.

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Year:  2001        PMID： 11292856      PMCID： PMC31326          DOI： 10.1093/nar/29.8.e42

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  12 in total

1.  Gene expression in individual cells: analysis using global single cell reverse transcription polymerase chain reaction (GSC RT-PCR).

Authors:  L H Brail; A Jang; F Billia; N N Iscove; H J Klamut; R P Hill
Journal:  Mutat Res       Date:  1999-08       Impact factor: 2.433

2.  Visualization of single RNA transcripts in situ.

Authors:  A M Femino; F S Fay; K Fogarty; R H Singer
Journal:  Science       Date:  1998-04-24       Impact factor: 47.728

3.  Mouse small eye results from mutations in a paired-like homeobox-containing gene.

Authors:  R E Hill; J Favor; B L Hogan; C C Ton; G F Saunders; I M Hanson; J Prosser; T Jordan; N D Hastie; V van Heyningen
Journal:  Nature       Date:  1991 Dec 19-26       Impact factor: 49.962

4.  Allelic inactivation regulates olfactory receptor gene expression.

Authors:  A Chess; I Simon; H Cedar; R Axel
Journal:  Cell       Date:  1994-09-09       Impact factor: 41.582

5.  Independent regulation of the two Pax5 alleles during B-cell development.

Authors:  S L Nutt; S Vambrie; P Steinlein; Z Kozmik; A Rolink; A Weith; M Busslinger
Journal:  Nat Genet       Date:  1999-04       Impact factor: 38.330

6.  Allele-specific expression patterns of interleukin-2 and Pax-5 revealed by a sensitive single-cell RT-PCR analysis.

Authors:  K L Rhoades; N Singh; I Simon; B Glidden; H Cedar; A Chess
Journal:  Curr Biol       Date:  2000-06-29       Impact factor: 10.834

7.  Monoallelic expression of the interleukin-2 locus.

Authors:  G A Holländer; S Zuklys; C Morel; E Mizoguchi; K Mobisson; S Simpson; C Terhorst; W Wishart; D E Golan; A K Bhan; S J Burakoff
Journal:  Science       Date:  1998-03-27       Impact factor: 47.728

8.  Independent and epigenetic regulation of the interleukin-4 alleles in CD4+ T cells.

Authors:  M Bix; R M Locksley
Journal:  Science       Date:  1998-08-28       Impact factor: 47.728

9.  Higher level organization of individual gene transcription and RNA splicing.

Authors:  Y Xing; C V Johnson; P R Dobner; J B Lawrence
Journal:  Science       Date:  1993-02-26       Impact factor: 47.728

10.  Dosage requirement and allelic expression of PAX6 during lens placode formation.

Authors:  C D van Raamsdonk; S M Tilghman
Journal:  Development       Date:  2000-12       Impact factor: 6.868
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  9 in total

1.  Quantitative spatial analysis of transcripts in multinucleate cells using single-molecule FISH.

Authors:  ChangHwan Lee; Samantha E Roberts; Amy S Gladfelter
Journal:  Methods       Date:  2015-12-12       Impact factor: 3.608

2.  Beta-globin intergenic transcription and histone acetylation dependent on an enhancer.

Authors:  Aeri Kim; Hui Zhao; Ina Ifrim; Ann Dean
Journal:  Mol Cell Biol       Date:  2007-02-05       Impact factor: 4.272

3.  Analysis of allele-specific RNA transcription in FSHD by RNA-DNA FISH in single myonuclei.

Authors:  Peter S Masny; On Ying A Chan; Jessica C de Greef; Ulla Bengtsson; Melanie Ehrlich; Rabi Tawil; Leslie F Lock; Jane E Hewitt; Jennifer Stocksdale; Jorge H Martin; Silvere M van der Maarel; Sara T Winokur
Journal:  Eur J Hum Genet       Date:  2009-11-04       Impact factor: 4.246

4.  Suggestive evidence for chromosomal localization of non-coding RNA from imprinted LIT1.

Authors:  Kazuhiro Murakami; Mitsuo Oshimura; Hiroyuki Kugoh
Journal:  J Hum Genet       Date:  2007-10-05       Impact factor: 3.172

5.  X chromosomes alternate between two states prior to random X-inactivation.

Authors:  Susanna Mlynarczyk-Evans; Morgan Royce-Tolland; Mary Kate Alexander; Angela A Andersen; Sundeep Kalantry; Joost Gribnau; Barbara Panning
Journal:  PLoS Biol       Date:  2006-05-09       Impact factor: 8.029

6.  Genomic imprinting of IGF2 in marsupials is methylation dependent.

Authors:  Betty R Lawton; Benjamin R Carone; Craig J Obergfell; Gianni C Ferreri; Christina M Gondolphi; John L Vandeberg; Ikhide Imumorin; Rachel J O'Neill; Michael J O'Neill
Journal:  BMC Genomics       Date:  2008-05-02       Impact factor: 3.969

7.  Female mice lacking Ftx lncRNA exhibit impaired X-chromosome inactivation and a microphthalmia-like phenotype.

Authors:  Yusuke Hosoi; Miki Soma; Hirosuke Shiura; Takashi Sado; Hidetoshi Hasuwa; Kuniya Abe; Takashi Kohda; Fumitoshi Ishino; Shin Kobayashi
Journal:  Nat Commun       Date:  2018-09-20       Impact factor: 14.919

8.  The status of dosage compensation in the multiple X chromosomes of the platypus.

Authors:  Janine E Deakin; Timothy A Hore; Edda Koina; Jennifer A Marshall Graves
Journal:  PLoS Genet       Date:  2008-07-25       Impact factor: 5.917

9.  Heterogeneity of miR-10b expression in circulating tumor cells.

Authors:  Christin Gasch; Prue N Plummer; Lidija Jovanovic; Linda M McInnes; David Wescott; Christobel M Saunders; Andreas Schneeweiss; Markus Wallwiener; Colleen Nelson; Kevin J Spring; Sabine Riethdorf; Erik W Thompson; Klaus Pantel; Albert S Mellick
Journal:  Sci Rep       Date:  2015-11-02       Impact factor: 4.379
  9 in total

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