Ariadne: a database search engine for identification and chemical analysis of RNA using tandem mass spectrometry data (Q33415909)

26 July 2017

Ariadne: a database search engine for identification and chemical analysis of RNA using tandem mass spectrometry data (English)

1 reference

26 July 2017

1 reference

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Masato Taoka

3

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author name string

Hiroshi Nakayama

1

1 reference

26 July 2017

Misaki Akiyama

2

1 reference

26 July 2017

Yoshio Yamauchi

4

1 reference

26 July 2017

Yuko Nobe

5

1 reference

26 July 2017

Hideaki Ishikawa

6

1 reference

26 July 2017

Nobuhiro Takahashi

7

1 reference

26 July 2017

Toshiaki Isobe

8

1 reference

26 July 2017

language of work or name

English

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publication date

6 March 2009

1 reference

26 July 2017

Nucleic Acids Research

1 reference

26 July 2017

37

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26 July 2017

6

1 reference

26 July 2017

e47

1 reference

An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

26 July 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

GtRNAdb: a database of transfer RNA genes detected in genomic sequence

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Trans-splicing in C. elegans generates the negative RNAi regulator ERI-6/7.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Identification of ATPases pontin and reptin as telomerase components essential for holoenzyme assembly

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Deciphering the assembly pathway of Sm-class U snRNPs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Tumour invasion and metastasis initiated by microRNA-10b in breast cancer

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

The spliceosome: caught in a web of shifting interactions

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Post-transcriptional modification mapping in the Clostridium acetobutylicum 16S rRNA by mass spectrometry and reverse transcriptase assays

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Stepwise protein-mediated RNA folding directs assembly of telomerase ribonucleoprotein

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Non-coding RNAs: lessons from the small nuclear and small nucleolar RNAs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

The structure and function of small nucleolar ribonucleoproteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Mass spectrometry-based detection of transfer RNAs by their signature endonuclease digestion products

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

MicroRNAs in gene regulation: when the smallest governs it all

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Biosynthesis of wybutosine, a hyper-modified nucleoside in eukaryotic phenylalanine tRNA

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

The principles of guiding by RNA: chimeric RNA-protein enzymes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Mass spectrometry of RNA.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

The transcriptional landscape of the mammalian genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: sensitivity and specificity analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Transcription and processing of human microRNA precursors

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Proteomic snapshot analyses of preribosomal ribonucleoprotein complexes formed at various stages of ribosome biogenesis in yeast and mammalian cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Comparative sequencing of nucleic acids by liquid chromatography-tandem mass spectrometry.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Small nucleolar RNA-guided post-transcriptional modification of cellular RNAs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Large-scale analysis of the yeast proteome by multidimensional protein identification technology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Ribosome synthesis in Saccharomyces cerevisiae

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Probability-based protein identification by searching sequence databases using mass spectrometry data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

2'-O-methyl-5-formylcytidine (f5Cm), a new modified nucleotide at the 'wobble' of two cytoplasmic tRNAs Leu (NAA) from bovine liver

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Summary: the modified nucleosides of RNA.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

Structure of yeast phenylalanine-tRNA genes: an intervening DNA segment within the region coding for the tRNA

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2665244

The 3' termini of mouse Piwi-interacting RNAs are 2'-O-methylated.

21 June 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Modifications in Thermus thermophilus 23 S ribosomal RNA are centered in regions of RNA-RNA contact.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Interpretation of oligonucleotide mass spectra for determination of sequence using electrospray ionization and tandem mass spectrometry.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

SOS: a simple interactive program for ab initio oligonucleotide sequencing by mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Expression cloning of Siamois, a Xenopus homeobox gene expressed in dorsal-vegetal cells of blastulae and able to induce a complete secondary axis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Analysis of Oligonucleotides by HPLC-Electrospray Ionization Mass Spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Gas-phase dissociation of oligoribonucleotides and their analogs studied by electrospray ionization tandem mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Automated identification of amino acid sequence variations in proteins by HPLC/microspray tandem mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Structural basis for template-independent RNA polymerization.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Lectin affinity capture, isotope-coded tagging and mass spectrometry to identify N-linked glycoproteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Molecular medicine: MicroRNAs and the tell-tale heart

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP099

Automated de novo sequencing of nucleic acids by liquid chromatography-tandem mass spectrometry

21 January 2018

1 reference

12 December 2020

Electrospray tandem mass spectrometry of mixed-sequence RNA/DNA oligonucleotides

1 reference

12 December 2020

Tandem Mass Spectrometry of Small, Multiply Charged Oligonucleotides

1 reference

12 December 2020

A direct nanoflow liquid chromatography-tandem mass spectrometry system for interaction proteomics

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKP099

1 reference

26 July 2017

1 reference

26 July 2017

1 reference