[1] Levinson B, Kenwrick S, Lakich D, Hammonds Jr G, Gitschier J. A transcribed gene in an intron of the human factor VIII gene. Genomics, 1990, 7(1): 1–11.
[2] Rahkonen OP, Koskivirta IM, Oksjoki SM, Jokinen E, Vuorio EI. Characterization of the murine Timp4 gene, localization within intron 5 of the synapsin 2 gene and tissue distribution of the mRNA. Biochim Biophys Acta, 2002, 1577(1): 45–52.
[3] Jaworski DM, Beem-Miller M, Lluri G, Barrantes- Reynolds R. Potential regulatory relationship between the nested gene DDC8 and its host gene tissue inhibitor of metalloproteinase-2. Physiol Genomics, 2007, 28(2): 168–178.
[4] Yu P, Ma D, Xu M. Nested genes in the human genome. Genomics, 2005, 86(4): 414–422.
[5] Assis R, Kondrashov AS, Koonin EV, Kondrashov FA, Kondrashov. Nested genes and increasing organizational complexity of metazoan genomes. Trends Genet, 2008, 24(10): 475–478.
[6] Karolchik D, Hinrichs AS, Furey TS, Roskin KM, Sugnet CW, Haussler D, Kent WJ. The UCSC Table Browser data retrieval tool. Nucleic Acids Res, 2004, 32 (Database issue): D493–D496.
[7] Down TA, Hubbard TJ. Computational detection and location of transcription start sites in mammalian genomic DNA. Genome Res, 2002, 12(3): 458–461.
[8] Zhang H, Hu J, Recce M, Tian B. PolyA_DB: a database for mammalian mRNA polyadenylation. Nucleic Acids Res, 2005, 33(Database issue): D116–D120.
[9] Durinck S, Moreau Y, Kasprzyk A, Davis S, De Moor B, Brazma A, Huber W. BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics, 2005, 21(16): 3439–3440.
[10] Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-Mouse Alignments with BLASTZ. Genome Res, 2003, 13(1): 103–107.
[11] Thompson JD, Gibson TJ, Higgins DG. Multiple sequence alignment using ClustalW and ClustalX. Curr Protoc Bioinformatics, 2002, Chapter 2: Unit 2.3.
[12] Cheng Y, Miura RM, Tian B. Prediction of mRNA polyadenylation sites by support vector machine. Bioinformatics, 2006, 22(19): 2320–2325.
[13] Huang da W, Sherman BT, Tan Q, Kir J, Liu D, Bryant D, Guo Y, Stephens R, Baseler MW, Lane HC, Lempicki RA. DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists. Nucleic Acids Res, 2007, 35(Web Server issue): W169–W175.
[14] Martin D, Brun C, Remy E, Mouren P, Thieffry D, Jacq B. GOToolBox: functional analysis of gene datasets based on Gene Ontology. Genome Biol, 2004, 5(12): R101.
[15] Huang da W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc, 2009, 4(1): 44–57.
[16] Kent WJ. BLAT–the BLAST-like alignment tool. Genome Res, 2002, 12(4): 656–664. |