(Q33509394)

27 July 2017

title

Riboswitch detection using profile hidden Markov models (English)

1 reference

27 July 2017

3

Sudha Bhattacharya

1 reference

27 July 2017

Payal Singh

1

1 reference

27 July 2017

Pradipta Bandyopadhyay

series ordinal

2

1 reference

27 July 2017

A Krishnamachari

series ordinal

4

1 reference

27 July 2017

Supratim Sengupta

series ordinal

5

1 reference

27 July 2017

publication date

8 October 2009

1 reference

27 July 2017

1 reference

27 July 2017

volume

10

1 reference

27 July 2017

page(s)

325

1 reference

Infernal 1.0: inference of RNA alignments

27 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Small RNAs in transcriptional gene silencing and genome defence

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Artificial riboswitches: synthetic mRNA-based regulators of gene expression

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Support Vector Machine-based method for predicting subcellular localization of mycobacterial proteins using evolutionary information and motifs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Query-dependent banding (QDB) for faster RNA similarity searches

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Sequence-based heuristics for faster annotation of non-coding RNA families.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

RibEx: a web server for locating riboswitches and other conserved bacterial regulatory elements

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Tracking down noncoding RNAs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Rfam: annotating non-coding RNAs in complete genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Exploiting conserved structure for faster annotation of non-coding RNAs without loss of accuracy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Riboswitch finder--a tool for identification of riboswitch RNAs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

A Hidden Markov Model method, capable of predicting and discriminating beta-barrel outer membrane proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Adenine riboswitches and gene activation by disruption of a transcription terminator

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Regulation of lysine biosynthesis and transport genes in bacteria: yet another RNA riboswitch?

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

An mRNA structure that controls gene expression by binding FMN

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Non–coding RNA genes and the modern RNA world

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Assessing the accuracy of prediction algorithms for classification: an overview

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Adenosylcobalamin inhibits ribosome binding to btuB RNA

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Hidden Markov models for detecting remote protein homologies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Profile hidden Markov models

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Combining evidence using p-values: application to sequence homology searches

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Relics from the RNA world

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Hidden Markov models for sequence analysis: extension and analysis of the basic method

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Hidden Markov models in computational biology. Applications to protein modeling

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Fitting a mixture model by expectation maximization to discover motifs in biopolymers

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

In vitro selection of RNA molecules that bind specific ligands

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

miRNA, siRNA, piRNA: Knowns of the unknown.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Antibacterial lysine analogs that target lysine riboswitches.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Thiamine pyrophosphate riboswitches are targets for the antimicrobial compound pyrithiamine

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Regulation of bacterial gene expression by riboswitches

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Riboswitches as versatile gene control elements

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Gene regulation by riboswitches

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

The path from the RNA world.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

RNA sequence analysis using covariance models

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Maximum discrimination hidden Markov models of sequence consensus

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2770071

Analysis of the Intrinsic Transcription Termination Mechanism and Its Control

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19814811

12 December 2020

inferred from PubMed ID database lookup

Conserved regulatory motifs in bacteria: riboswitches and beyond

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19814811

12 December 2020

inferred from PubMed ID database lookup

'Turning on' riboswitches to their antibacterial potential

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19814811

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1186/1471-2105-10-325

1 reference

journals/bmcbi/SinghBBKS09

27 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1027824586

0 references

Fatcat ID

release_i32tnn7jgzbzjd7rsxka4mzk5u

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/i32tnn7jgzbzjd7rsxka4mzk5u

24 November 2022

mapped directly with Wikidata item

PMC publication ID

2770071

1 reference

27 July 2017

1 reference