Transcriptional landscape of the human and fly genomes: nonlinear and multifunctional modular model of transcriptomes.
作者： A.T. WILLINGHAM , S. DIKE , J. CHENG , J.R. MANAK , I. BELL
关键词:
摘要: Regions of the genome not coding for proteins or involved in cis-acting regulatory activities are frequently viewed as lacking functional value. However, a number recent large-scale studies have revealed significant regulated transcription unannotated portions variety plant and animal genomes, allowing new appreciation widespread large genome. High-resolution mapping sites human fly genomes has provided an alternative picture extent organization offered insights biological functions some newly identified transcripts. Considerable observed developmental cell-type-specific parts protein-coding transcripts, often serving novel, 5' transcriptional start sites. These distal situated at distances from annotated gene alternatively join with ignore other intervening genes to comprise novel data support interlaced model which many regions serve multifunctional purposes highly modular their utilization. This illustrates underappreciated organizational complexity one roles
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John S. Mattick, RNA regulation: a new genetics? Nature Reviews Genetics. ,vol. 5, pp. 316- 323 ,(2004) , 10.1038/NRG1321
Aurora Esquela-Kerscher, Frank J. Slack, Oncomirs — microRNAs with a role in cancer Nature Reviews Cancer. ,vol. 6, pp. 259- 269 ,(2006) , 10.1038/NRC1840
Stefan Washietl, Ivo L Hofacker, Melanie Lukasser, Alexander Hüttenhofer, Peter F Stadler, Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome Nature Biotechnology. ,vol. 23, pp. 1383- 1390 ,(2005) , 10.1038/NBT1144
Yea Okazaki, M Furuno, T_ Kasukawa, J Adachi, H Bono, Shinji Kondo, I Nikaido, N Osato, Rintaro Saito, H Suzuki, I Yamanaka, H Kiyosawa, K Yagi, Y Tomaru, Y Hasegawa, A Nogami, Christian Schönbach, Takashi Gojobori, R Baldarelli, DP Hill, C Bult, DA Hume, J Quackenbush, LM Schriml, A Kanapin, H Matsuda, S Batalov, KW Beisel, JA Blake, D Bradt, V Brusic, C Chothia, LE Corbani, S Cousins, E Dalla, TA Dragani, CF Fletcher, A Forrest, KS Frazer, T Gaasterland, M Gariboldi, C Gissi, A Godzik, J Gough, S Grimmond, Stefano Gustincich, N Hirokawa, IJ Jackson, ED Jarvis, Akio Kanai, H Kawaji, Y Kawasawa, RM Kedzierski, BL King, A Konagaya, IV Kurochkin, Y Lee, B Lenhard, PA Lyons, DR Maglott, L Maltais, L Marchionni, L McKenzie, H Miki, T Nagashima, K Numata, T Okido, WJ Pavan, G Pertea, G Pesole, N Petrovsky, R Pillai, JU Pontius, D Qi, S Ramachandran, Timothy Ravasi, JC Reed, DJ Reed, J Reid, BZ Ring, M Ringwald, A Sandelin, C Schneider, CAM Semple, M Setou, K Shimada, R Sultana, Y Takenaka, MS Taylor, RD Teasdale, Masaru Tomita, R Verardo, L Wagner, C Wahlestedt, Y Wang, Y Watanabe, C Wells, LG Wilming, A Wynshaw-Boris, Masashi Yanagisawa, I Yang, L Yang, Z Yuan, M Zavolan, Y Zhu, A Zimmer, P Carninci, N Hayatsu, T Hirozane-Kishikawa, H Konno, M Nakamura, N Sakazume, K Sato, T Shiraki, K Waki, J Kawai, K Aizawa, T Arakawa, S Fukuda, A Hara, W Hashizume, K Imotani, Y Ishii, M Itoh, I Kagawa, A Miyazaki, K Sakai, D Sasaki, K Shibata, A Shinagawa, A Yasunishi, M Yoshino, R Waterston, ES Lander, J Rogers, E Birney, Y Hayashizaki, Fantom Consortium, RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs Nature. ,vol. 420, pp. 563- 573 ,(2002) , 10.1038/NATURE01266
Elfar Torarinsson, Milena Sawera, Jakob H Havgaard, Merete Fredholm, Jan Gorodkin, Thousands of corresponding human and mouse genomic regions unalignable in primary sequence contain common RNA structure Genome Research. ,vol. 16, pp. 885- 889 ,(2006) , 10.1101/GR.5226606
Saurabh Saha, Andrew B. Sparks, Carlo Rago, Viatcheslav Akmaev, Clarence J. Wang, Bert Vogelstein, Kenneth W. Kinzler, Victor E. Velculescu, Using the transcriptome to annotate the genome. Nature Biotechnology. ,vol. 20, pp. 508- 512 ,(2002) , 10.1038/NBT0502-508
James A. Goodrich, Jennifer F. Kugel, Non-coding-RNA regulators of RNA polymerase II transcription Nature Reviews Molecular Cell Biology. ,vol. 7, pp. 612- 616 ,(2006) , 10.1038/NRM1946
Thomas R Gingeras, The multitasking genome. Nature Genetics. ,vol. 38, pp. 608- 609 ,(2006) , 10.1038/NG0606-608
Philipp Kapranov, Simon E Cawley, Jorg Drenkow, Stefan Bekiranov, Robert L Strausberg, Stephen PA Fodor, Thomas R Gingeras, Large-scale transcriptional activity in chromosomes 21 and 22. Science. ,vol. 296, pp. 916- 919 ,(2002) , 10.1126/SCIENCE.1068597
Ilya Shamovsky, Maxim Ivannikov, Eugene S. Kandel, David Gershon, Evgeny Nudler, RNA-mediated response to heat shock in mammalian cells Nature. ,vol. 440, pp. 556- 560 ,(2006) , 10.1038/NATURE04518