-
1
-
-
0017693139
-
A pseudogene in 5S DNA of Xenopus laevis
-
Jacq C et al (1977) A pseudogene in 5S DNA of Xenopus laevis. Cell 13:109-120.
-
(1977)
Cell
, vol.13
, pp. 109-120
-
-
Jacq, C.1
-
2
-
-
0022293979
-
Processed pseudogenes characteristics and evolution
-
Vanin EF (1985) Processed pseudogenes characteristics and evolution. Anal Rev Genet 19:253-272.
-
(1985)
Anal Rev Genet
, vol.19
, pp. 253-272
-
-
Vanin, E.F.1
-
3
-
-
0346155809
-
Pseudogenes: Are they "junk" or functional DNA?
-
DOI 10.1146/annurev.genet.37.040103.103949
-
Balakirev ES, Ayala FJ (2003) Pseudogenes: are they "junk" or functional DNA? Annu Rev Genet 37:123-151. (Pubitemid 38041423)
-
(2003)
Annual Review of Genetics
, vol.37
, pp. 123-151
-
-
Balakirev, E.S.1
Ayala, F.J.2
-
4
-
-
0036180936
-
Molecular fossils in the human genome: Identification and analysis of the pseudogenes in chromosomes 21 and 22
-
DOI 10.1101/gr.207102
-
Harrison PM et al (2002) Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22. Genome Res 12:272-280. (Pubitemid 34162993)
-
(2002)
Genome Research
, vol.12
, Issue.2
, pp. 272-280
-
-
Harrison, P.M.1
Hegyi, H.2
Balasubramanian, S.3
Luscombe, N.M.4
Bertone, P.5
Echols, N.6
Johnson, T.7
Gerstein, M.8
-
5
-
-
20844463584
-
Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation
-
DOI 10.1038/nmeth733
-
Ng P et al (2005) Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation patrick. Nat Method 2:105-111. (Pubitemid 41131031)
-
(2005)
Nature Methods
, vol.2
, Issue.2
, pp. 105-111
-
-
Ng, P.1
Wei, C.-L.2
Sung, W.-K.3
Chiu, K.P.4
Lipovich, L.5
Ang, C.C.6
Gupta, S.7
Shahab, A.8
Ridwan, A.9
Wong, C.H.10
Liu, E.T.11
Ruan, Y.12
-
6
-
-
3142594265
-
Large-scale analysis of pseudogenes in the human genome
-
DOI 10.1016/j.gde.2004.06.003, PII S0959437X04000826
-
Zhang Z, Gerstein M (2004) Large-scale analysis of pseudogenes in the human genome. Curr Opin Genet Dev 14:328-335. (Pubitemid 38903122)
-
(2004)
Current Opinion in Genetics and Development
, vol.14
, Issue.4
, pp. 328-335
-
-
Zhang, Z.1
Gerstein, M.2
-
7
-
-
0346752110
-
Millions of years of evolution preserved: A comprehensive catalog of the processed pseudogenes in the human genome
-
DOI 10.1101/gr.1429003
-
Zhang Z et al (2003) Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome. Genome Res 13:2541-2558. (Pubitemid 37541143)
-
(2003)
Genome Research
, vol.13
, Issue.12
, pp. 2541-2558
-
-
Zhang, Z.1
Harrison, P.M.2
Liu, Y.3
Gerstein, M.4
-
8
-
-
80052428807
-
The real life of pseudogene
-
Gerstein M, Zheng D (2006) The real life of pseudogene. Sci Am 10:49-55.
-
(2006)
Sci Am
, vol.10
, pp. 49-55
-
-
Gerstein, M.1
Zheng, D.2
-
11
-
-
0029588403
-
MRNA retroposition in human cells: Processed pseudogene formation
-
Maestre J et al (1995) mRNA retroposition in human cells: processed pseudogene formation. EMBO J 14:6333-6338. (Pubitemid 26007320)
-
(1995)
EMBO Journal
, vol.14
, Issue.24
, pp. 6333-6338
-
-
Maestre, J.1
Tchenio, T.2
Dhellin, O.3
Heidmann, T.4
-
12
-
-
0036796620
-
Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome
-
Zhang Z et al (2002) Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome. Genome Res 12:1476-1482.
-
(2002)
Genome Res
, vol.12
, pp. 1476-1482
-
-
Zhang, Z.1
-
13
-
-
34250377325
-
Pseudogenes in the ENCODE regions: Consensus annotation, analysis of transcription, and evolution
-
DOI 10.1101/gr.5586307
-
Zheng D et al (2007) Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription and evolution. Genome 17:839-851. (Pubitemid 46919719)
-
(2007)
Genome Research
, vol.17
, Issue.6
, pp. 839-851
-
-
Zheng, D.1
Frankish, A.2
Baertsch, R.3
Kapranov, P.4
Reymond, A.5
Siew, W.C.6
Lu, Y.7
Denoeud, F.8
Antonarakis, S.E.9
Snyder, M.10
Ruan, Y.11
Wei, C.-L.12
Gingeras, T.R.13
Guigo, R.14
Harrow, J.15
Gerstein, M.B.16
-
14
-
-
0021670513
-
The gene and the pseudogene for mouse p53 cellular tumor antigen are located on different chromosomes
-
Czosnek HH et al (1984) The gene and the pseudogene for mouse p53 cellular tumor antigen are located on different chromosomes. Mol Cell Biol 4:1638-1640. (Pubitemid 15131926)
-
(1984)
Molecular and Cellular Biology
, vol.4
, Issue.8
, pp. 1638-1640
-
-
Czosnek, H.H.1
Bienz, B.2
Givol, D.3
-
15
-
-
0031803462
-
A map of 75 human ribosomal protein genes
-
Kenmochi N et al (1998) A map of 75 human ribosomal protein genes. Genome Res 8:509-523. (Pubitemid 28256799)
-
(1998)
Genome Research
, vol.8
, Issue.5
, pp. 509-523
-
-
Kenmochi, N.1
Kawaguchi, T.2
Rozen, S.3
Davis, E.4
Goodman, N.5
Hudson, T.J.6
Tanaka, T.7
Page, D.C.8
-
16
-
-
0035868428
-
A complete map of the human ribosomal protein genes: Assignment of 80 genes to the cytogenetic map and implications for human disorders
-
DOI 10.1006/geno.2000.6470
-
Uechi T et al (2001) A complete map of the human ribosomal protein genes: assignment of 80 genes to the cytogenetic map and implications for human disorders. Genomics 72:223-230. (Pubitemid 32281523)
-
(2001)
Genomics
, vol.72
, Issue.3
, pp. 223-230
-
-
Uechi, T.1
Tanaka, T.2
Kenmochi, N.3
-
17
-
-
0036125672
-
The human ribosomal protein genes: Sequencing and comparative analysis of 73 genes
-
DOI 10.1101/gr.214202
-
Yoshihama M et al (2002) The human ribosomal protein genes: Sequencing and comparative analysis of 73 genes. Genome Res 12:379-390. (Pubitemid 34233012)
-
(2002)
Genome Research
, vol.12
, Issue.3
, pp. 379-390
-
-
Yoshihama, M.1
Uechi, T.2
Asakawa, S.3
Kawasaki, K.4
Kato, S.5
Higa, S.6
Maeda, N.7
Minoshima, S.8
Tanaka, T.9
Shimizu, N.10
Kenmochi, N.11
-
18
-
-
0032033749
-
The human ortholog of rhesus mannose-binding protein-A gene is an expressed pseudogene that localizes to Chromosome 10
-
DOI 10.1007/s003359900735
-
Guo N et al (1998) The human ortholog of rhesus mannosebinding protein-A gene is an expressed pseudogene that localizes to chromosome 10. Mamm Genome 9:246-249. (Pubitemid 28165433)
-
(1998)
Mammalian Genome
, vol.9
, Issue.3
, pp. 246-249
-
-
Guo, N.1
Mogues, T.2
Weremowicz, S.3
Morton, C.C.4
Sastry, K.N.5
-
19
-
-
0033524377
-
Identification of a novel cytokeratin 19 pseudogene that may interfere with reverse transcriptase-polymerase chain reaction assays used to detect micrometastatic tumor cells
-
DOI 10.1002/(SICI)1097-0215(19990105)80:1<119::AID-IJC22>3.0.CO;2-X
-
Ruud P et al (1999) Identification of a novel cytokeratin 19 pseudogene that may interfere with reverse transcriptase-polymerase chain reaction assays used to detect micrometastatic tumor cells. Int J Cancer 80:119-125. (Pubitemid 28559787)
-
(1999)
International Journal of Cancer
, vol.80
, Issue.1
, pp. 119-125
-
-
Ruud, P.1
Fodstad, O.2
Hovig, E.3
-
20
-
-
0034907535
-
Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus
-
Williams ST, Knowlton N (2001) Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus. Mol Biol Evol 18:1481-1493.
-
(2001)
Mol Biol Evol
, vol.18
, pp. 1481-1493
-
-
Williams, S.T.1
Knowlton, N.2
-
21
-
-
0035988979
-
Amplification of multiple copies of mitochondrial Cytochrome b gene fragments in the Australian freshwater crayfish, Cherax destructor Clark (Parastacidae: Decapoda)
-
Nguyen T et al (2002) Amplification of multiple copies of mitochondrial Cytochrome b gene fragments in the Australian freshwater crayfish, Cherax destructor Clark (Parastacidae: Decapoda). Anim Genet 33:304-308.
-
(2002)
Anim Genet
, vol.33
, pp. 304-308
-
-
Nguyen, T.1
-
22
-
-
0031667780
-
PCR bias Toward the wild-type k-ras and p53 sequences: Implications for PCR detection of mutations and cancer diagnosis
-
Barnard R et al (1998) PCR bias toward the wild-type k-ras and p53 sequences: implications for PCR detection of mutations and cancer diagnosis. Biotechniques 25:684-691. (Pubitemid 28465702)
-
(1998)
BioTechniques
, vol.25
, Issue.4
, pp. 684-691
-
-
Barnard, R.1
Futo, V.2
Pecheniuk, N.3
Slattery, M.4
Walsh, T.5
-
23
-
-
33748645500
-
GENCODE: Producing a reference annotation for ENCODE
-
Harrow J et al (2006) GENCODE: producing a reference annotation for ENCODE. Genome Biol 7:S4.
-
(2006)
Genome Biol
, vol.7
-
-
Harrow, J.1
-
25
-
-
33748664359
-
A computational approach for identifying pseudogenes in the ENCODE regions
-
Zheng D et al (2006) A computational approach for identifying pseudogenes in the ENCODE regions. Genome Biol 7(Suppl 1):S13.
-
(2006)
Genome Biol
, vol.7
, Issue.SUPPL. 1
-
-
Zheng, D.1
-
27
-
-
0141815478
-
Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
-
DOI 10.1073/pnas.1932072100
-
Kent WJ et al (2003) Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. PNAS 100:11484-11489. (Pubitemid 37205962)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.20
, pp. 11484-11489
-
-
Kent, W.J.1
Baertsch, R.2
Hinrichs, A.3
Miller, W.4
Haussler, D.5
-
28
-
-
0037267806
-
Human-mouse alignments with BLASTZ
-
Schwartz S et al (2003) Human-mouse alignments with BLASTZ. Genome Res 13:103-107.
-
(2003)
Genome Res
, vol.13
, pp. 103-107
-
-
Schwartz, S.1
-
29
-
-
80052468747
-
PseudoFinder: A genome-wide pseudogene finding method
-
Program No: 1284
-
Lu YT et al. (2006) PseudoFinder: a genome-wide pseudogene finding method. ASHG Annual Meeting. Program No: 1284.
-
(2006)
ASHG Annual Meeting
-
-
Lu, Y.T.1
-
30
-
-
34547468538
-
Pathway aberrations of murine melanoma cells observed in paired-end ditag transcriptomes
-
Chiu KP et al (2007) Pathway aberrations of murine melanoma cells observed in paired-end ditag transcriptomes. BMC Cancer 7:109.
-
(2007)
BMC Cancer
, vol.7
, pp. 109
-
-
Chiu, K.P.1
-
31
-
-
63849091245
-
Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses
-
Fullwood MJ et al (2009) Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses. Genome Res 19:521-532.
-
(2009)
Genome Res
, vol.19
, pp. 521-532
-
-
Fullwood, M.J.1
-
32
-
-
0036226603
-
BLAT-The BLAST-like alignment tool
-
Kent WJ (2002) BLAT-the BLAST-like alignment tool. Genome Res 12(4):656-664.
-
(2002)
Genome Res
, vol.12
, Issue.4
, pp. 656-664
-
-
Kent, W.J.1
-
33
-
-
0021683812
-
Processed pseudogenes for rat cytochrome c are preferentially derived from one of three alternate mRNAs
-
Scarpulla RC (1984) Processed pseudogenes for rat cytochrome C are preferentially derived from one of three alternate mRNAs. Mol Cell Biol 4:2279-2288. (Pubitemid 15212240)
-
(1984)
Molecular and Cellular Biology
, vol.4
, Issue.11
, pp. 2279-2288
-
-
Scarpulla, R.C.1
-
34
-
-
0021186181
-
The gene family encoding the mouse ribosomal protein L32 contains a uniquely expressed intron-containing gene and an unmutated processed gene
-
Dudov KP, Perry RP (1984) The gene family encoding the mouse ribosomal protein L32 contains a uniquely expressed introncontaining gene and an unmutated processed pseudogene. Cell 37:457-468. (Pubitemid 14079040)
-
(1984)
Cell
, vol.37
, Issue.2
, pp. 457-468
-
-
Dudov, K.P.1
Perry, R.P.2
-
35
-
-
1642473033
-
Comparative analysis of processed pseudogenes in the mouse and human genomes
-
DOI 10.1016/j.tig.2003.12.005
-
Zhang Z et al (2004) Comparative analysis of processed pseudogenes in the mouse and human genomes. Trends Genet 20:62-67. (Pubitemid 38121355)
-
(2004)
Trends in Genetics
, vol.20
, Issue.2
, pp. 62-67
-
-
Zhang, Z.1
Carriero, N.2
Gerstein, M.3
-
36
-
-
0345149784
-
Characterization of angiosperm nrDNA polymorphism, paralogy, and pseudogenes
-
DOI 10.1016/j.ympev.2003.08.021
-
Bailey CD et al (2003) Characterization of angiosperm nrDNA polymorphism, paralogy, and pseudogenes. Mol Phylogenet Evol 29:435-455. (Pubitemid 37491889)
-
(2003)
Molecular Phylogenetics and Evolution
, vol.29
, Issue.3
, pp. 435-455
-
-
Bailey, C.D.1
Carr, T.G.2
Harris, S.A.3
Hughes, C.E.4
-
37
-
-
17844396017
-
Transcribed processed pseudogenes in the human genome: An intermediate form of expressed retrosequence lacking protein-coding ability
-
DOI 10.1093/nar/gki531
-
Harrison PM et al (2005) Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability. Nucleic Acids Res 33:2374-2383. (Pubitemid 41511257)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.8
, pp. 2374-2383
-
-
Harrison, P.M.1
Zheng, D.2
Zhang, Z.3
Carriero, N.4
Gerstein, M.5
-
38
-
-
33846934758
-
Genome-wide exploration of the drug action of capreomycin on Mycobacterium tuberculosis using Affymetrix oligonucleotide GeneChips
-
DOI 10.1016/j.jinf.2006.05.012, PII S0163445306001824
-
Fu LM et al (2007) Genome-wide analysis of intergenic regions of Mycobacterium tuberculosis H37Rv using Affymetrix Gene-Chips. J Bioinform Syst Biol 10:277-284. (Pubitemid 46238171)
-
(2007)
Journal of Infection
, vol.54
, Issue.3
, pp. 277-284
-
-
Fu, L.M.1
Shinnick, T.M.2
-
39
-
-
34250340889
-
The DART classification of unannotated transcription within the ENCODE regions: Associating transcription with known and novel loci
-
DOI 10.1101/gr.5696007
-
Rozowsky JS et al (2007) The DART classification of unannotated transcription within the ENCODE regions: associating transcription with known and novel loci. Genome Res 17:732-745. (Pubitemid 46919710)
-
(2007)
Genome Research
, vol.17
, Issue.6
, pp. 732-745
-
-
Rozowsky, J.S.1
Newburger, D.2
Sayward, F.3
Wu, J.4
Jordan, G.5
Korbel, J.O.6
Nagalakshmi, U.7
Yang, J.8
Zheng, D.9
Guigo, R.10
Gingeras, T.R.11
Weissman, S.12
Miller, P.13
Snyder, M.14
Gerstein, M.B.15
-
40
-
-
44349159416
-
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes
-
DOI 10.1038/nature06904, PII NATURE06904
-
Tam OH (2008) Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature 453:534-538. (Pubitemid 351733314)
-
(2008)
Nature
, vol.453
, Issue.7194
, pp. 534-538
-
-
Tam, O.H.1
Aravin, A.A.2
Stein, P.3
Girard, A.4
Murchison, E.P.5
Cheloufi, S.6
Hodges, E.7
Anger, M.8
Sachidanandam, R.9
Schultz, R.M.10
Hannon, G.J.11
-
41
-
-
0033568856
-
Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene
-
Korneev SA et al (1999) Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene. J Neurosci 19:7711-7720. (Pubitemid 30225771)
-
(1999)
Journal of Neuroscience
, vol.19
, Issue.18
, pp. 7711-7720
-
-
Korneev, S.A.1
Park, J.-H.2
O'Shea, M.3
-
42
-
-
0038414560
-
An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene
-
DOI 10.1038/nature01535
-
Hirotsune S, Yoshida N et al (2003) An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene. Nature 423:91-96. (Pubitemid 36569588)
-
(2003)
Nature
, vol.423
, Issue.6935
, pp. 91-96
-
-
Hirotsune, S.1
Yoshida, N.2
Chen, A.3
Garrett, L.4
Sugiyama, F.5
Takahashi, S.6
Yagami, K.-I.7
Wynshaw-Boris, A.8
Yoshiki, A.9
-
43
-
-
33646200506
-
Origin and evolution of processed pseudogenes that stabilize functional makorin1 mRNAs in mice, primates and other mammals
-
Kaneko S et al (2006) Origin and evolution of processed pseudogenes that stabilize functional makorin1 mRNAs in mice, primates and other mammals. GSA 172:2421-2429.
-
(2006)
GSA
, vol.172
, pp. 2421-2429
-
-
Kaneko, S.1
-
44
-
-
57249095884
-
An olfactory receptor pseudogene whose function emerged in humans: A case study in the evolution of structure-function in GPCRs
-
Lai PC et al (2008) An olfactory receptor pseudogene whose function emerged in humans: a case study in the evolution of structure-function in GPCRs. J Struct Funct Genomics 9:29-40.
-
(2008)
J Struct Funct Genomics
, vol.9
, pp. 29-40
-
-
Lai, P.C.1
-
45
-
-
33847076790
-
Stem cell regulatory function mediated by expression of a novel mouse Oct4 pseudogene
-
DOI 10.1016/j.bbrc.2007.01.106, PII S0006291X07001702
-
Lin H et al (2007) Stem cell regulatory function mediated by expression of a novel mouse Oct4 pseudogene. Biochem Biophys Res Commun 355:111-116. (Pubitemid 46273373)
-
(2007)
Biochemical and Biophysical Research Communications
, vol.355
, Issue.1
, pp. 111-116
-
-
Lin, H.1
Shabbir, A.2
Molnar, M.3
Lee, T.4
-
46
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
The ENCODE Project Consortium
-
The ENCODE Project Consortium (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447:799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
|