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Iterative gene prediction and pseudogene removal improves genome annotation
scientific article
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instance of
scholarly article
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title
Iterative gene prediction and pseudogene removal improves genome annotation
(English)
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main subject
genome annotation
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based on heuristic
inferred from title
author name string
Marijke J van Baren
series ordinal
1
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Michael R Brent
series ordinal
2
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language of work or name
English
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publication date
May 2006
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published in
Genome Research
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volume
16
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page(s)
678-85
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issue
5
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cites work
NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
retrieved
24 March 2017
The Vertebrate Genome Annotation (Vega) database
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PubMed Central
reference URL
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retrieved
24 March 2017
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PubMed Central
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24 March 2017
A genome-wide survey of human pseudogenes
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24 March 2017
Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates
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24 March 2017
Human-mouse alignments with BLASTZ
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24 March 2017
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PubMed Central
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24 March 2017
Genome sequence, comparative analysis and haplotype structure of the domestic dog
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24 March 2017
The DNA sequence of human chromosome 7
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24 March 2017
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PubMed Central
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24 March 2017
Prediction of complete gene structures in human genomic DNA
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24 March 2017
The DNA sequence of human chromosome 22
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24 March 2017
Evolutionary Rate at the Molecular Level
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24 March 2017
Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome
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24 March 2017
Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome
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24 March 2017
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7 April 2017
Processed pseudogenes: characteristics and evolution
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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7 April 2017
Integrated pseudogene annotation for human chromosome 22: evidence for transcription
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
Retroelements and formation of chimeric retrogenes
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
Large-scale analysis of pseudogenes in the human genome
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
ASmodeler: gene modeling of alternative splicing from genomic alignment of mRNA, EST and protein sequences
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
SLAM: cross-species gene finding and alignment with a generalized pair hidden Markov model
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
Comparative gene prediction in human and mouse
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
Leveraging the mouse genome for gene prediction in human: from whole-genome shotgun reads to a global synteny map.
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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27 September 2017
Integrating genomic homology into gene structure prediction.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
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30 May 2018
Using multiple alignments to improve gene prediction.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
retrieved
28 November 2018
A simple method for estimating the intensity of purifying selection in protein-coding genes.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1457044
retrieved
28 November 2018
Identifiers
DOI
10.1101/GR.4766206
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PMCID
1457044
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PubMed ID
16651666
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ResearchGate publication ID
7129201
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