Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D.

scientific article

Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1093/NAR/GKM683
P932PMC publication ID2095812
P698PubMed publication ID17897965
P5875ResearchGate publication ID5946712

P50authorFabiana PerocchiQ21259697
Lars M SteinmetzQ55154863
P2093author name stringZhenyu Xu
Sandra Clauder-Münster
P2860cites workBioconductor: open software development for computational biology and bioinformaticsQ21194861
The transcriptional landscape of the mammalian genomeQ27861110
RNA expression analysis using a 30 base pair resolution Escherichia coli genome arrayQ28139158
Empirical analysis of transcriptional activity in the Arabidopsis genomeQ28181133
Do natural antisense transcripts make sense in eukaryotes?Q28269882
Global identification of human transcribed sequences with genome tiling arraysQ29614335
A high-resolution map of transcription in the yeast genomeQ30014822
A large-scale full-length cDNA analysis to explore the budding yeast transcriptomeQ33263481
Transcription of antisense RNA leading to gene silencing and methylation as a novel cause of human genetic diseaseQ34194830
Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experimentsQ34386366
Global identification of noncoding RNAs in Saccharomyces cerevisiae by modulating an essential RNA processing pathwayQ34424972
Genome-wide natural antisense transcription: coupling its regulation to its different regulatory mechanismsQ35630476
RNA regulation: a new genetics?Q35766845
Basis of actinomycin action. I. DNA binding and inhibition of RNA-polymerase synthetic reactions by actinomycinQ36397639
Overlapping transcripts, double-stranded RNA and antisense regulation: a genomic perspectiveQ36539036
Second-strand cDNA synthesis: mRNA fragments as primersQ44847209
Inhibitors acting on nucleic acid synthesis in an oncogenic RNA virus.Q45812372
Transcript mapping with high-density oligonucleotide tiling arraysQ48442774
DNA-directed DNA Polymerase Activity in Oncogenic RNA VirusesQ59058493
Second-strand cDNA synthesis: classical methodQ69405739
Conditions for the selective synthesis of DNA complementary to template RNAQ93734922
P433issue19
P407language of work or nameEnglishQ1860
P921main subjecttranscriptomeQ252857
P304page(s)e128
P577publication date2007-09-26
P1433published inNucleic Acids ResearchQ135122
P1476titleAntisense artifacts in transcriptome microarray experiments are resolved by actinomycin D.
P478volume35

Reverse relations

cites work (P2860)
Q40967512A Double-Hybridization Approach for the Transcription- and Amplification-Free Detection of Specific mRNA on a Microarray
Q41336121A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
Q43155322A canonical promoter organization of the transcription machinery and its regulators in the Saccharomyces genome
Q34711883A compendium of nucleosome and transcript profiles reveals determinants of chromatin architecture and transcription
Q33597335A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data
Q42562720A pre-initiation complex at the 3'-end of genes drives antisense transcription independent of divergent sense transcription
Q33509458A simple method for directional transcriptome sequencing using Illumina technology
Q37122084A super-family of transcriptional activators regulates bacteriophage packaging and lysis in Gram-positive bacteria.
Q27939839A systematic characterization of Cwc21, the yeast ortholog of the human spliceosomal protein SRm300.
Q27931165A systems biology approach reveals the role of a novel methyltransferase in response to chemical stress and lipid homeostasis
Q35373798A tiling microarray for global analysis of chloroplast genome expression in cucumber and other plants.
Q37406030A transcriptomic analysis of human centromeric and pericentric sequences in normal and tumor cells
Q40675548A variant of the KLK4 gene is expressed as a cis sense-antisense chimeric transcript in prostate cancer cells
Q51561415AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling.
Q35157724Accumulation of noncoding RNA due to an RNase P defect in Saccharomyces cerevisiae.
Q34287213Amplification-free digital gene expression profiling from minute cell quantities
Q41818612An effort to make sense of antisense transcription in bacteria
Q34549972An experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803.
Q33375207Analysis of wheat SAGE tags reveals evidence for widespread antisense transcription
Q21091110Apparent Non-Canonical Trans-Splicing Is Generated by Reverse Transcriptase In Vitro
Q39225436Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array
Q41880960At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana
Q34537427Bacterial antisense RNAs: how many are there, and what are they doing?
Q37916225Bacterial transcriptomics: what is beyond the RNA horiz-ome?
Q28537794Base pairing interaction between 5'- and 3'-UTRs controls icaR mRNA translation in Staphylococcus aureus
Q29614766Bidirectional promoters generate pervasive transcription in yeast
Q38320462CHD1 remodelers regulate nucleosome spacing in vitro and align nucleosomal arrays over gene coding regions in S. pombe.
Q52364252Capturing the 'ome': the expanding molecular toolbox for RNA and DNA library construction.
Q33901627Comprehensive expressional analyses of antisense transcripts in colon cancer tissues using artificial antisense probes
Q37809199Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods
Q38261031Current status of antisense RNA-mediated gene regulation in Listeria monocytogenes
Q41597733Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms
Q38669635Determinants of RNA metabolism in the Schizosaccharomyces pombe genome
Q24644698Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model
Q33762465Digital transcriptome profiling from attomole-level RNA samples
Q35004834Direct RNA sequencing
Q42442592Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation.
Q36881872Dynamic transcriptome of Schizosaccharomyces pombe shown by RNA-DNA hybrid mapping
Q30437064EXPRSS: an Illumina based high-throughput expression-profiling method to reveal transcriptional dynamics.
Q27931099Effects of the Paf1 complex and histone modifications on snoRNA 3'-end formation reveal broad and locus-specific regulation
Q37615737Establishing legitimacy and function in the new transcriptome
Q36543281Evidence classification of high-throughput protocols and confidence integration in RegulonDB.
Q24655847Evidence for a major role of antisense RNAs in cyanobacterial gene regulation
Q33432706Evidence for antisense transcription associated with microRNA target mRNAs in Arabidopsis
Q35272458Evidence-based annotation of transcripts and proteins in the sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough
Q24634279Execution of the meiotic noncoding RNA expression program and the onset of gametogenesis in yeast require the conserved exosome subunit Rrp6
Q34080266Experimental annotation of the human pathogen Candida albicans coding and noncoding transcribed regions using high-resolution tiling arrays
Q34035053Experimental annotation of the human pathogen Histoplasma capsulatum transcribed regions using high-resolution tiling arrays
Q37207163Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays.
Q36589002Extensive transcript diversity and novel upstream open reading frame regulation in yeast
Q38161766Gene regulation by antisense transcription
Q35378348Genetic and genomic analyses of RNA polymerase II-pausing factor in regulation of mammalian transcription and cell growth
Q34481061Genetic requirements for Moraxella catarrhalis growth under iron-limiting conditions
Q42225375Genome-wide allele- and strand-specific expression profiling
Q90643396Global Transcription Profiles of Anaplasma phagocytophilum at Key Stages of Infection in Tick and Human Cell Lines and Granulocytes
Q36732737Global analysis of SUMO chain function reveals multiple roles in chromatin regulation
Q98665052Global identification of a marine diatom long noncoding natural antisense transcripts (NATs) and their response to phosphate fluctuations
Q30043364H3.3 demarcates GC-rich coding and subtelomeric regions and serves as potential memory mark for virulence gene expression in Plasmodium falciparum
Q38296480High-resolution analysis of the m-xylene/toluene biodegradation subtranscriptome of Pseudomonas putida mt-2.
Q37514183How eukaryotic genes are transcribed
Q38928720Human cells contain natural double-stranded RNAs with potential regulatory functions
Q42182347Identification of a novel metastasis inducing lncRNA which suppresses the KAI1/CD82 metastasis suppressor gene and is upregulated in triple-negative breast cancer
Q33483666Identification of differentially expressed sense and antisense transcript pairs in breast epithelial tissues
Q51860493Identification of potential antisense transcripts in rice using conventional microarray.
Q37844017Informatics for mass spectrometry-based RNA analysis
Q26995193Library construction for next-generation sequencing: overviews and challenges
Q38179760Library preparation methods for next-generation sequencing: tone down the bias
Q58778006Long noncoding RNA repertoire and targeting by nuclear exosome, cytoplasmic exonuclease, and RNAi in fission yeast
Q42176573Meiosis-induced alterations in transcript architecture and noncoding RNA expression in S. cerevisiae
Q42663815Modulation of primary cell function of host Pseudomonas bacteria by the conjugative plasmid pCAR1.
Q36497535MvaT Family Proteins Encoded on IncP-7 Plasmid pCAR1 and the Host Chromosome Regulate the Host Transcriptome Cooperatively but Differently
Q21263031Natural antisense transcript of natriuretic peptide precursor A (NPPA): structural organization and modulation of NPPA expression
Q34987014Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast
Q33565393Natural single-nucleosome epi-polymorphisms in yeast.
Q34147576Noncoding RNAs as emerging regulators of Plasmodium falciparum virulence gene expression.
Q42598151Paf1 restricts Gcn4 occupancy and antisense transcription at the ARG1 promoter
Q37262286Prevalence of transcription promoters within archaeal operons and coding sequences.
Q41862314Protein Abundance Control by Non-coding Antisense Transcription.
Q24321777RNA exosome depletion reveals transcription upstream of active human promoters
Q36273689RNA sequencing provides exquisite insight into the manipulation of the alveolar macrophage by tubercle bacilli
Q29619605RNA sequencing: advances, challenges and opportunities
Q49977542RNA-DNA hybrids promote the expansion of Friedreich's ataxia (GAA)n repeats via break-induced replication
Q33834393RNA-seq analysis of gene expression and alternative splicing by double-random priming strategy
Q35183286RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
Q36690973RNA-seq of human reference RNA samples using a thermostable group II intron reverse transcriptase.
Q34471541Regulation of glucose-dependent gene expression by the RNA helicase Dbp2 in Saccharomyces cerevisiae.
Q34742558Replication of avocado sunblotch viroid in the yeast Saccharomyces cerevisiae
Q34125334Repression of meiotic genes by antisense transcription and by Fkh2 transcription factor in Schizosaccharomyces pombe
Q36464974Rho and NusG suppress pervasive antisense transcription in Escherichia coli
Q35121889Selective expression of sense and antisense transcripts of the sushi-ichi-related retrotransposon--derived family during mouse placentogenesis
Q42365532Similarity-Based Segmentation of Multi-Dimensional Signals
Q35737744Single-molecule direct RNA sequencing without cDNA synthesis
Q34156146Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species
Q33558324Strand-specific RNA-Seq reveals widespread and developmentally regulated transcription of natural antisense transcripts in Plasmodium falciparum
Q33793569Strand-specific transcriptome profiling with directly labeled RNA on genomic tiling microarrays
Q36673434Systematic analysis of transcribed loci in ENCODE regions using RACE sequencing reveals extensive transcription in the human genome
Q35826318TARDIS, a targeted RNA directional sequencing method for rare RNA discovery
Q35108825The A-repeat links ASF/SF2-dependent Xist RNA processing with random choice during X inactivation
Q38677249The Antisense Transcriptome and the Human Brain.
Q88781926The Long Noncoding RNA Cancer Susceptibility 9 and RNA Binding Protein Heterogeneous Nuclear Ribonucleoprotein L Form a Complex and Coregulate Genes Linked to AKT Signaling
Q27931130The Role of Transcription Factors at Antisense-Expressing Gene Pairs in Yeast
Q39218777The agr locus regulates virulence and colonization genes in Clostridium difficile 027.
Q21145045The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus
Q37634306The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs
Q57935557The differential response of thePbenpromoter ofPseudomonas putida mt-2 to BenR and XylS prevents metabolic conflicts inm-xylene biodegradation
Q33781137The prevalence and regulation of antisense transcripts in Schizosaccharomyces pombe.
Q24633693The transcriptional landscape of the yeast genome defined by RNA sequencing
Q24649142The transcriptionally active regions in the genome of Bacillus subtilis
Q34299545The yin and yang of yeast transcription: elements of a global feedback system between metabolism and chromatin
Q33784478Tiling array analysis of UV treated Escherichia coli predicts novel differentially expressed small peptides
Q54015095Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response.
Q34767064Transcription mediated insulation and interference direct gene cluster expression switches
Q33475513Transcriptional landscape estimation from tiling array data using a model of signal shift and drift
Q35459444Transcriptional response of Saccharomyces cerevisiae to potassium starvation
Q37393534Transcriptome analysis by strand-specific sequencing of complementary DNA.
Q64900257Tumor innate immunity primed by specific interferon-stimulated endogenous retroviruses.
Q46294991Upregulation of SPS100 gene expression by an antisense RNA via a switch of mRNA isoforms with different stabilities
Q34403892Wavelet-based detection of transcriptional activity on a novel Staphylococcus aureus tiling microarray
Q51243255Widespread anti-sense transcription in apple is correlated with siRNA production and indicates a large potential for transcriptional and/or post-transcriptional control.
Q89017348Widespread antisense transcription of Populus genome under drought
Q34338855Yeast X-chromosome-associated protein 5 (Xap5) functions with H2A.Z to suppress aberrant transcripts
Q37850790cis-antisense RNA, another level of gene regulation in bacteria.

Search more.