Group: BergmanLab - with tag transposon [62 articles] Export

Recent papers posted by members of the BergmanLab group with tag transposon

	Exaptation of an ancient Alu short interspersed element provides a highly conserved vitamin D-mediated innate immune response in humans and primates. [My Copy] BMC genomics, Vol. 10, No. 1. (16 July 2009), 321. by Adrian F. Gombart, Tsuyako Saito, H. Phillip Koeffler posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2009-07-22 09:32:06 as along with 2 people and 1 group KGelling maximilianh cis-regulatory-evolution
	The regulated retrotransposon transcriptome of mammalian cells [My Copy] Nature Genetics, Vol. 41, No. 5. (19 April 2009), pp. 563-571. by Geoffrey J. Faulkner, Yasumasa Kimura, Carsten O. Daub, et al.Shivangi Wani, Charles Plessy, Katharine M. Irvine, Kate Schroder, Nicole Cloonan, Anita L. Steptoe, Timo Lassmann, Kazunori Waki, Nadine Hornig, Takahiro Arakawa, Hazuki Takahashi, Jun Kawai, Alistair R. R. Forrest, Harukazu Suzuki, Yoshihide Hayashizaki, David A. Hume, Valerio Orlando, Sean M. Grimmond, Piero Carninci posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2009-05-18 23:14:56 as along with 13 people and 1 group inesdesantiago guhjy gdb galka8_diploma tonamswish renatomilani robfsouza dchughes mtagaya fenghezi jbhiatt natstreet antonkratz cis-regulatory-evolution
	Weak preservation of local neutral mutation rates across mammalian genomes [My Copy] BMC Evolutionary Biology, Vol. 9 (05 May 2009), 89. by Hideo, Jeffrey H. Chuang posted to mammals noncoding transposon by cisevol to the group BergmanLab on 2009-05-13 09:58:51 as along with 1 group cis-regulatory-evolution
	Retrotransposon silencing and telomere integrity in somatic cells of Drosophila depends on the cytosine-5 methyltransferase DNMT2. [My Copy] Nature genetics (3 May 2009) by Sameer Phalke, Olaf Nickel, Diana Walluscheck, Frank Hortig, Maria Cristina C. Onorati, Gunter Reuter posted to chromatin transposon by cisevol to the group BergmanLab on 2009-05-05 21:42:14 as along with 2 people tonamswish clearbluespring
	Structure-based prediction of insertion-site preferences of transposons into chromosomes. [My Copy] Nucleic acids research, Vol. 34, No. 9. (2006), pp. 2803-2811. by A. M. Geurts, C. S. Hackett, J. B. Bell, et al.T. L. Bergemann, L. S. Collier, C. M. Carlson, D. A. Largaespada, P. B. Hackett posted to mobile_element transposon by daveGerrard to the group BergmanLab on 2009-03-24 10:15:20 as along with 1 person and 1 group operon LabDros
	Retroviral integration sites (RIS) mark cis-regulatory elements. [My Copy] Critical reviews in oncology/hematology (27 November 2008) by Cherry Ee Lin E. Ng, Yoshiaki Ito, Motomi Osato posted to cis-regulatory transposon by cisevol to the group BergmanLab on 2008-12-09 20:03:28 as along with 1 group cis-regulatory-evolution
	Does Selection against Transcriptional Interference Shape Retroelement-Free Regions in Mammalian Genomes? [My Copy] PLoS ONE, Vol. 3, No. 11. (19 November 2008), e3760. by Tobias Mourier, Eske Willerslev posted to mammals transposon by cisevol to the group BergmanLab on 2008-11-25 08:41:30 as along with 3 people oatelet operon bpcusack
	Genome-Wide Analysis of Transposon Insertion Polymorphisms Reveals Intraspecific Variation in Cultivated Rice [My Copy] Plant Physiol., Vol. 148, No. 1. (1 September 2008), pp. 25-40. by Xuehui Huang, Guojun Lu, Qiang Zhao, Xiaohui Liu, Bin Han posted to alignment comparative_genomics rice transposon by cisevol to the group BergmanLab on 2008-10-01 14:03:02 as along with 3 people operon orzenil Neeperando
	Evolution of the mammalian transcription factor binding repertoire via transposable elements [My Copy] Genome Research, Vol. 18, No. 11. (5 November 2008), pp. 1752-1762. by Guillaume Bourque, Bernard Leong, Vinsensius B. Vega, et al.Xi Chen, Yen L. Lee, Kandhadayar G. Srinivasan, Joon-Lin Chew, Yijun Ruan, Chia-Lin Wei, Huck H. Ng, Edison T. Liu posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-09-30 08:23:52 as along with 3 people and 1 group operon mhiromi maximilianh cis-regulatory-evolution
	A novel mode of enhancer evolution: The Tal1 stem cell enhancer recruited a MIR element to specifically boost its activity [My Copy] Genome Research, Vol. 18, No. 9. (7 September 2008), pp. 1422-1432. by Aileen M. Smith, Maria-Jose Sanchez, George A. Follows, et al.Sarah Kinston, Ian J. Donaldson, Anthony R. Green, Berthold GÃ¶ttgens posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-08-11 19:50:59 as along with 4 people and 1 group operon cisstem emptyhb maximilianh cis-regulatory-evolution
	Transgenesis upgrades for Drosophila melanogaster [My Copy] Development, Vol. 134, No. 20. (15 October 2007), pp. 3571-3584. by Koen J. Venken, Hugo J. Bellen posted to drosophila transposon by cisevol to the group BergmanLab on 2008-07-03 13:58:43 as along with 1 person emmahe
	Evolutionary rates and patterns for human transcription factor binding sites derived from repetitive DNA. [My Copy] BMC genomics, Vol. 9 (17 May 2008), 226. by Nalini Polavarapu, Leonardo Mariño-Ramírez, David Landsman, John F. McDonald, I. King Jordan posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-05-29 22:08:58 as along with 3 people and 1 group daforerog pradiptaray bryankr cis-regulatory-evolution
	Report of a chimeric origin of transposable elements in a bovine-coding gene. [My Copy] Genetics and molecular research : GMR, Vol. 7, No. 1. (2008), pp. 107-116. by L. M. Almeida, M. E. Amaral, I. T. Silva, W. A. Silva, P. K. Riggs, C. M. Carareto posted to mammals transposon by cisevol to the group BergmanLab on 2008-05-16 15:24:54 as
	Transcription of two human genes from a bidirectional endogenous retrovirus promoter. [My Copy] Gene (7 November 2005) by Catherine A A. Dunn, Mark T T. Romanish, Leanne E E. Gutierrez, Louie N N. van de Lagemaat, Dixie L L. Mager posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-05-16 15:21:47 as along with 1 person and 3 groups dchughes G4ID Genetics-of-Gambling cis-regulatory-evolution
	Possible involvement of SINEs in mammalian-specific brain formation [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 11. (18 March 2008), pp. 4220-4225. by Takeshi Sasaki, Hidenori Nishihara, Mika Hirakawa, et al.Koji Fujimura, Mikiko Tanaka, Nobuhiro Kokubo, Chiharu Kimura-Yoshida, Isao Matsuo, Kenta Sumiyama, Naruya Saitou, Tomomi Shimogori, Norihiro Okada posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-04-26 19:38:10 as along with 2 people and 1 group operon FMoncini cis-regulatory-evolution
	Birth and death of gene overlaps in vertebrates [My Copy] BMC Evolutionary Biology, Vol. 7 (16 October 2007), 193. by Izabela Makalowska, Chiao-Feng Lin, Kristina Hernandez posted to mammals overlapping_gene transposon by cisevol to the group BergmanLab on 2008-04-16 13:01:04 as along with 1 person pradiptaray
	Gene function and expression level influence the insertion/fixation dynamics of distinct transposon families in mammalian introns [My Copy] Genome Biology, Vol. 7 (20 December 2006), R120. by Manuela Sironi, Giorgia Menozzi, Giacomo P. Comi, et al.Matteo Cereda, Rachele Cagliani, Nereo Bresolin, Uberto Pozzoli posted to families fixation insertion intron mammal transposon by paulcartwright to the group BergmanLab on 2008-03-26 12:39:42 as along with 2 people and 2 groups dchughes FMoncini G4ID Genetics-of-Gambling
	Fixation of conserved sequences shapes human intron size and influences transposon-insertion dynamics. [My Copy] Trends Genet, Vol. 21, No. 9. (September 2005), pp. 484-488. by M. Sironi, G. Menozzi, G. P. Comi, N. Bresolin, R. Cagliani, U. Pozzoli posted to human insertion intron transposon by paulcartwright to the group BergmanLab on 2008-03-26 12:30:56 as along with 2 people dchughes FMoncini
	The origin of recent introns: transposons? [My Copy] Genome Biol, Vol. 5, No. 12. (2004) by S. W. Roy posted to intron transposon by paulcartwright to the group BergmanLab on 2008-03-26 12:24:37 as
	Chimeric retrogenes suggest a role for the nucleolus in LINE amplification. [My Copy] FEBS Lett, Vol. 581, No. 16. (26 June 2007), pp. 2877-2882. by A. Buzdin, E. Gogvadze, M. H. Lebrun posted to chimera transposon by cisevol to the group BergmanLab on 2008-03-26 11:43:00 as
	At least 50% of human-specific HERV-K (HML-2) long terminal repeats serve in vivo as active promoters for host nonrepetitive DNA transcription. [My Copy] J Virol, Vol. 80, No. 21. (November 2006), pp. 10752-10762. by A. Buzdin, E. Kovalskaya-Alexandrova, E. Gogvadze, E. Sverdlov posted to mammals transposon by cisevol to the group BergmanLab on 2008-03-26 11:40:35 as along with 1 person yoanjacquemin
	Exonization of the LTR transposable elements in human genome. [My Copy] BMC genomics, Vol. 8 (28 August 2007), 291. by Jittima Piriyapongsa, Nalini Polavarapu, Mark Borodovsky, John McDonald posted to mammals transposon by cisevol to the group BergmanLab on 2008-03-25 22:07:43 as along with 4 people operon yoanjacquemin FMoncini wenhan
	Characterization of new hAT transposable elements in 12 Drosophila genomes [My Copy] Genetica, Vol. 135, No. 1. (1 January 2009), pp. 67-75. by Mauro de Freitas Ortiz, Elgion Loreto posted to flies transposon by cisevol to the group BergmanLab on 2008-03-15 19:59:35 as along with 2 people gwallau operon
	Great exaptations [My Copy] Journal of Biology, Vol. 7 (15 February 2008), 5. by Kathleen H. Burns, Jef D. Boeke posted to mammals transposon by cisevol to the group BergmanLab on 2008-02-26 11:48:41 as along with 1 person bpcusack
	Transposable elements as tools for genomics and genetics in Drosophila [My Copy] Brief Funct Genomic Proteomic, Vol. 2, No. 1. (1 January 2003), pp. 57-71. by Edward Ryder, Steven Russell posted to drosophila p-element transposon by cisevol to the group BergmanLab on 2008-02-23 13:48:18 as along with 5 people cmor orzenil RMGraze yulian2108 pradiptaray
	Functional persistence of exonized mammalian-wide interspersed repeat elements (MIRs). [My Copy] Genome Res, Vol. 17, No. 8. (August 2007), pp. 1139-1145. by M. Krull, M. Petrusma, W. Makalowski, J. Brosius, J. Schmitz posted to mammals transposon by cisevol to the group BergmanLab on 2008-02-20 11:30:01 as along with 2 people dchughes FMoncini
	Biased exonization of transposed elements in duplicated genes: A lesson from the TIF-IA gene [My Copy] BMC Molecular Biology, Vol. 8 (29 November 2007), 109. by Maayan Amit, Noa Sela, Hadas Keren, et al.Ze'ev Melamed, Inna Muler, Noam Shomron, Shai Izraeli, Gil Ast posted to mammals transposon by cisevol to the group BergmanLab on 2008-02-18 23:25:35 as along with 2 people noasela bpcusack
	TranspoGene and microTranspoGene: transposed elements influence on the transcriptome of seven vertebrates and invertebrates. [My Copy] Nucleic Acids Res, Vol. 36, No. Database issue. (January 2008) by A. Levy, N. Sela, G. Ast posted to transposon by cisevol to the group BergmanLab on 2008-02-18 15:18:17 as along with 1 person and 1 group noasela Computational-Genomics
	Transposable elements in Coffea (Gentianales: Rubiacea) transcripts and their role in the origin of protein diversity in flowering plants [My Copy] Molecular Genetics and Genomics, Vol. 279, No. 4. (1 April 2008), pp. 385-401. by Fabrício Lopes, Marcelo Carazzolle, Gonçalo Pereira, Carlos Colombo, Claudia Carareto posted to plants transposon by cisevol to the group BergmanLab on 2008-02-11 22:45:30 as along with 4 people ramonvidal GustavoLacerda natstreet kiara
	Origin and Evolution of Human microRNAs From Transposable Elements [My Copy] Genetics, Vol. 176, No. 2. (1 June 2007), pp. 1323-1337. by Jittima Piriyapongsa, Leonardo Marino-Ramirez, I. King Jordan posted to mammals mirna transposon by cisevol to the group BergmanLab on 2008-02-05 21:22:12 as along with 9 people and 4 groups tonamswish daforerog coldmeadow gpappas tardigrade andersbj dchughes mtagaya emptyhb microRNA G4ID Genetics-of-Gambling cis-regulatory-evolution
	Plant LTR-retrotransposons and MITEs: control of transposition and impact on the evolution of plant genes and genomes. [My Copy] Gene, Vol. 311 (5 June 2003), pp. 1-11. by J. M. Casacuberta, N. Santiago posted to plants transposon by cisevol to the group BergmanLab on 2008-02-05 21:20:36 as along with 2 people gpappas saru
	Genome-wide B1 retrotransposon binds the transcription factors dioxin receptor and Slug and regulates gene expression in vivo. [My Copy] Proc Natl Acad Sci U S A (25 January 2008) by Angel Carlos C. Roman, Dixan A A. Benitez, Jose M M. Carvajal-Gonzalez, Pedro M M. Fernandez-Salguero posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-02-05 21:18:50 as along with 1 person and 1 group maximilianh cis-regulatory-evolution
	Gene-breaking: a new paradigm for human retrotransposon-mediated gene evolution. [My Copy] Genome Res, Vol. 15, No. 8. (August 2005), pp. 1073-1078. by S. J. Wheelan, Y. Aizawa, J. S. Han, J. D. Boeke posted to mammals transposon by cisevol to the group BergmanLab on 2008-02-05 21:08:47 as along with 1 person paulcartwright
	Do Alu repeats shape the primate transcriptome? [My Copy] Genome Biology, Vol. 9, No. 2. (2008) by Araxi Urrutia, Leandro B. Ocana, Laurence Hurst posted to cis-regulatory mammals microarray transposon by cisevol to the group BergmanLab on 2008-02-04 22:40:36 as along with 4 people and 1 group djkt biomcgary bpcusack dchughes cis-regulatory-evolution
	Evidence for recent horizontal transfer of gypsy-homologous LTR-retrotransposon gtwin into Drosophila erecta followed by its amplification with multiple aberrations. [My Copy] Gene, Vol. 396, No. 1. (1 July 2007), pp. 39-45. by A. P. Kotnova, I. A. Glukhov, N. N. Karpova, V. B. Salenko, N. V. Lyubomirskaya, Y. V. Ilyin posted to drosophila transposon by cisevol to the group BergmanLab on 2008-01-29 23:53:50 as
	Human cis natural antisense transcripts initiated by transposable elements. [My Copy] Trends Genet (11 January 2008) by Andrew B B. Conley, Wolfgang J J. Miller, I King K. Jordan posted to cis-regulatory mammals transposon by cisevol to the group BergmanLab on 2008-01-20 22:36:40 as along with 6 people and 1 group gpappas balicea dchughes sebastien_vigneau timflutre yoanjacquemin cis-regulatory-evolution
	Survey of Human Genes of Retroviral Origin: Identification and Transcriptome of the Genes with Coding Capacity for Complete Envelope Proteins [My Copy] J. Virol., Vol. 77, No. 19. (1 October 2003), pp. 10414-10422. by Nathalie de Parseval, Vladimir Lazar, Jean-Francois Casella, Laurence Benit, Thierry Heidmann posted to mammals transposon by cisevol to the group BergmanLab on 2008-01-18 00:50:14 as along with 1 person yoanjacquemin
	Methods for estimating human endogenous retrovirus activities from EST databases. [My Copy] BMC Bioinformatics, Vol. 8 Suppl 2 (2007) by M. Oja, J. Peltonen, J. Blomberg, S. Kaski posted to est transposon by cisevol to the group BergmanLab on 2008-01-18 00:49:17 as along with 2 people Terkko yoanjacquemin
	Which transposable elements are active in the human genome? [My Copy] Trends Genet, Vol. 23, No. 4. (April 2007), pp. 183-191. by R. E. Mills, E. A. Bennett, R. C. Iskow, S. E. Devine posted to mammals transposon by cisevol to the group BergmanLab on 2008-01-18 00:48:52 as along with 4 people bpb gpappas N0131826 yoanjacquemin
	Mobile DNA elements in primate and human evolution [My Copy] American Journal of Physical Anthropology, Vol. 134, No. S45. (2007), pp. 2-19. by Jinchuan Xing, David J. Witherspoon, David A. Ray, Mark A. Batzer, Lynn B. Jorde posted to mammals transposon by cisevol to the group BergmanLab on 2007-12-31 18:25:37 as along with 7 people andreasapostolides operon dchughes timflutre ryanraaum urgi pradiptaray
	Maintenance of transposon-free regions throughout vertebrate evolution [My Copy] BMC Genomics, Vol. 8, No. 1. (20 December 2007), 470. by Cas Simons, Igor Makunin, Michael Pheasant, John Mattick posted to mammals noncoding transposon by cisevol to the group BergmanLab on 2007-12-22 13:26:58 as along with 3 people and 1 group operon blobbybirdman idonaldson cis-regulatory-evolution
	Alu and LINE1 Distributions in the Human Chromosomes: Evidence of Global Genomic Organization Expressed in the Form of Power Laws [My Copy] Mol Biol Evol, Vol. 24, No. 11. (1 November 2007), pp. 2385-2399. by Diamantis Sellis, Astero Provata, Yannis Almirantis posted to mammals transposon by cisevol to the group BergmanLab on 2007-12-14 14:17:39 as along with 3 people andreasapostolides diamantis dchughes
	Transcriptional cosuppression of yeast Ty1 retrotransposons. [My Copy] Genes Dev, Vol. 16, No. 4. (15 February 2002), pp. 467-478. by Y. W. Jiang posted to fungi transposon by cisevol to the group BergmanLab on 2007-12-10 23:12:53 as
	454 sequencing put to the test using the complex genome of barley [My Copy] BMC Genomics, Vol. 7 (26 October 2006), 275. by Thomas Wicker, Edith Schlagenhauf, Andreas Graner, Timothy J. Close, Beat Keller, Nils Stein posted to 454 transposon by cisevol to the group BergmanLab on 2007-12-10 21:56:39 as along with 7 people and 2 groups orzenil GustavoLacerda jmeppley balicea ghattem azazello tpreeprem MBLAB gatech-compgenomics
	Global repeat discovery and estimation of genomic copy number in a large, complex genome using a high-throughput 454 sequence survey [My Copy] BMC Genomics, Vol. 8 (24 May 2007), 132. by Kankshita Swaminathan, Kranthi Varala, Matthew E. Hudson posted to 454 transposon by cisevol to the group BergmanLab on 2007-12-10 20:17:23 as along with 6 people and 1 group orzenil floatingpoint ghattem GustavoLacerda tpreeprem bozdagd gatech-compgenomics
	HIV integration site selection: Analysis by massively parallel pyrosequencing reveals association with epigenetic modifications [My Copy] Genome Research, Vol. 17, No. 8. (1 August 2007), pp. 1186-1194. by Gary P. Wang, Angela Ciuffi, Jeremy Leipzig, Charles C. Berry, Frederic D. Bushman posted to pyrosequencing transposon by cisevol to the group BergmanLab on 2007-12-07 13:39:27 as along with 2 people operon cberry
	Genome-wide changes in expression profile of murine endogenous retroviruses (MuERVs) in distant organs after burn injury [My Copy] BMC Genomics, Vol. 8 (28 November 2007), 440. by Young-Kwan Lee, Alex Chew, Lauren Fitzsimon, Rita Thomas, David Greenhalgh, Kiho Cho posted to cis-regulatory transposon by cisevol to the group BergmanLab on 2007-12-03 11:16:30 as
	Evaluating the protein coding potential of exonized transposable element sequences [My Copy] Biology Direct, Vol. 2 (26 November 2007), 31. by Jittima Piriyapongsa, Mark T. Rutledge, Sanil Patel, Mark Borodovsky, King I. Jordan posted to transposon by cisevol to the group BergmanLab on 2007-12-02 23:42:47 as along with 2 people GustavoLacerda wenhan
	A transposable element inserted just 5' to a Drosophila glue protein gene alters gene expression and chromatin structure. [My Copy] Cell, Vol. 34, No. 1. (August 1983), pp. 75-84. by W. McGinnis, A. W. Shermoen, S. K. Beckendorf posted to cis-regulatory flies transposon by cisevol to the group BergmanLab on 2007-12-01 16:48:38 as along with 1 person and 1 group aaltenburger cis-regulatory-evolution
	Repetitive DNA in the pea (Pisum sativum L.) genome: comprehensive characterization using 454 sequencing and comparison to soybean and Medicago truncatula [My Copy] BMC Genomics, Vol. 8 (21 November 2007), 427. by Jiri Macas, Pavel Neumann, Alice Navratilova posted to 454 transposon by cisevol to the group BergmanLab on 2007-11-26 17:08:31 as along with 2 people orzenil operon

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evolution	369
mammals	126
cis-regulatory	101
genomics	99
retroelement	59
annotation	51
phylogenetics	45
drosophila	42
repeats	34
arthropod	33
genome	27
repeat	26
transposition	25
doctorate	24
retrotransposon	21
flies	20
horizontal_transfer	20
plant	20
retrotransposition	20
bioinformatics	19
epigenetics	19
noncoding	18
genetics	16
methylation	16
review	16
mammal	15
transcription	15
dna	12
human	12
gene	11
helitron	11
population	11
genome_evolution	10
insect	10
pathogenics	10
selection	10
duplication	9
rice	9
software	9
bacteria	8
elements	8
transposable_elements	8
tree	8
454	7
expression	7
intron	7
maize	7
method	7
p-element	7
rnai	7
alternative	6
alu	6
chromatin	6
dna-methylation	6
genome_size	6
ipomoea	6
master	6
mirna	6
mite	6
mobile	6
promoter	6
rare_genomic_characters	6
rna	6
single_strand	6
structure	6
tip100	6
transposable	6
cell	5
eukaryotic	5
grass	5
molecular	5
mutagenesis	5
pirna	5
plant_biology	5
plants	5
prokaryote	5
regulation	5
sandmeyerproject	5
transposase	5
ty3	5
yeast	5
biology	4
centromere	4
chromosome	4
coalescence	4
francisella	4
genetic_genomics	4
imprinting	4
indel	4
insertion	4
microarray	4
mutation	4
screen	4
simulation	4
sine	4
solanaceae	4
variation	4
cpg	3
ncrna	3
transposable_element	3

Group: BergmanLab - with tag transposon [62 articles] Export

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