Web-based resources for comparative genomics (Q36273644)

13 August 2017

3 references

25 November 2020

7 April 2021

Web-based resources for comparative genomics (English)

1 reference

13 August 2017

1 reference

25 November 2020

1 reference

7 April 2021

Xun Gu

1

1 reference

13 August 2017

Zhixi Su

series ordinal

2

1 reference

13 August 2017

1 September 2005

3 references

13 August 2017

25 November 2020

7 April 2021

3 references

13 August 2017

25 November 2020

7 April 2021

2

1 reference

13 August 2017

3

1 reference

13 August 2017

187-190

1 reference

Fast and reliable prediction of noncoding RNAs

13 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Rapid evolution of expression and regulatory divergences after yeast gene duplication

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

RNAdb--a comprehensive mammalian noncoding RNA database

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

NONCODE: an integrated knowledge database of non-coding RNAs

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

TRED: a Transcriptional Regulatory Element Database and a platform for in silico gene regulation studies

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

PhyME: a probabilistic algorithm for finding motifs in sets of orthologous sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

MSARI: multiple sequence alignments for statistical detection of RNA secondary structure

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Statistical framework for phylogenomic analysis of gene family expression profiles

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

zPicture: dynamic alignment and visualization tool for analyzing conservation profiles

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

EnsMart: a generic system for fast and flexible access to biological data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

FootPrinter: A program designed for phylogenetic footprinting

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Gibbs Recursive Sampler: finding transcription factor binding sites

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

MAVID multiple alignment server

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

GALA, a database for genomic sequence alignments and annotations

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Induced gene expression in human brain after the split from chimpanzee

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Comparative gene prediction in human and mouse

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Human-mouse alignments with BLASTZ

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Strategies and tools for whole-genome alignments

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Intra- and interspecific variation in primate gene expression patterns

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

DIVERGE: phylogeny-based analysis for functional-structural divergence of a protein family.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Noncoding RNA gene detection using comparative sequence analysis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Genome-scale evolution: reconstructing gene orders in the ancestral species.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Database resources of the National Center for Biotechnology Information: 2002 update

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

VISTA : visualizing global DNA sequence alignments of arbitrary length

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

The TRANSFAC system on gene expression regulation.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Human and mouse gene structure: comparative analysis and application to exon prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

PipMaker--a web server for aligning two genomic DNA sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

PAML: a program package for phylogenetic analysis by maximum likelihood

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Prediction of complete gene structures in human genomic DNA

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

The value of prior knowledge in discovering motifs with MEME

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Basic local alignment search tool

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Integrating genomic homology into gene structure prediction.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Assembling genes from predicted exons in linear time with dynamic programming.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Embryonic epsilon and gamma globin genes of a prosimian primate (Galago crassicaudatus). Nucleotide and amino acid sequences, developmental regulation and phylogenetic footprints.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Comparative ab initio prediction of gene structures using pair HMMs

29 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

ddbRNA: detection of conserved secondary structures in multiple alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

Improved microarray methods for profiling the Yeast Knockout strain collection

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

Electrochemically directed synthesis of oligonucleotides for DNA microarray fabrication

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

Discovery of a novel restriction endonuclease by genome comparison and application of a wheat-germ-based cell-free translation assay: PabI (5'-GTA/C) from the hyperthermophilic archaeon Pyrococcus abyssi

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

Algorithms for multiple genome rearrangement by signed reversals.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Multiple genome rearrangement by reversals.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

ANN-Spec: a method for discovering transcription factor binding sites with improved specificity.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Modeling transcription factor binding sites with Gibbs Sampling and Minimum Description Length encoding.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525128

Numerous potentially functional but non-genic conserved sequences on human chromosome 21

22 September 2018

1 reference

https://api.crossref.org/works/10.1186%2F1479-7364-2-3-187

Statistical methods for testing functional divergence after gene duplication

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16197736

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The unseen genome: gems among the junk

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16197736

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1479-7364-2-3-187

1 reference

Dimensions Publication ID

13 August 2017

0 references

1 reference

13 August 2017

PubMed publication ID

16197736

1 reference