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Mon Jul 31 15:49:44 2006

Rat Genome Sequencing Project Consortium
Genome sequence of the Brown Norway rat
yields insights into mammalian evolution
NATURE 428 (6982): 493-521 APR 1 2004
and the citing papers
Nodes: 353, Authors: 2563, Journals: 153, Outer References: 13847, Words: 1363
Yearly output  |  Document Type  |  Language  |  Institution  |  Institution with Subdivision  |  Country
Collection span: 2004 - 2006
View: Overview   Sorted by first author.

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#LCRNCRNode / Date / Journal / AuthorLCSGCS
20115629 2004 GENOME BIOLOGY 5 (9): Art. No. R68
Miska EA; Alvarez-Saavedra E; Townsend M; Yoshii A; Sestan N; et al.
Microarray analysis of microRNA expression in the developing mammalian brain
048
20214444 2004 GENOMICS 84 (5): 814-823
Mortlock DP; Portnoy ME; Chandler RL; Green ED
Comparative sequence analysis of the Gdf6 locus reveals a duplicon-mediated chromosomal rearrangement in rodents and rapidly diverging coding and regulatory sequences
13
203154147 2005 FEBS JOURNAL 272 (19): 4884-4898
Mujica AO; Brauksiepe B; Saaler-Reinhardt S; Reuss S; Schmidt ER
Differential expression pattern of the novel serine/threonine kinase, STK33, in mice and men
00
204135312 2006 GENOME BIOLOGY 7 (4): Art. No. R33
Mularoni L; Guigo R; Alba MM
Mutation patterns of amino acid tandem repeats in the human proteome
00
2051827 2004 GENOME BIOLOGY 5 (5): Art. No. 221
Mullins LJ; Mullins JJ
Insights from the rat genome sequence
04
2062396345 2006 PHYSIOLOGICAL REVIEWS 86 (2): 709-746
Mullins LJ; Bailey MA; Mullins JJ
Hypertension, kidney, and transgenics: A fresh perspective
00
207144234 2005 NATURE 435 (7044): 903-910
Muotri AR; Chu VT; Marchetto MCN; Deng W; Moran JV; et al.
Somatic mosaicism in neuronal precursor cells mediated by L1 retrotransposition
124
208296337 2006 NATURE 441 (7097): 1087-1093
Muotri AR; Gage FH
Generation of neuronal variability and complexity
00
209166207 2005 JOURNAL OF BIOMEDICAL OPTICS 10 (4): Art. No. 041204
Murakami T; Kobayashi E
Color-engineered rats and luminescent LacZ imaging: a new platform to visualize biological processes
02
21018689 2004 TRENDS IN GENETICS 20 (12): 631-639
Murphy WJ; Pevzner PA; O'Brien SJ
Mammalian phylogenomics comes of age
424
#LCRNCRNode / Date / Journal / AuthorLCSGCS
211231279 2005 SCIENCE 309 (5734): 613-617
Murphy WJ; Larkin DM; Everts-van der Wind A; Bourque G; Tesler G; et al.
Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps
216
2121145146 2005 FASEB JOURNAL 19 (12): 1602-1616
Mutch DM; Wahli W; Williamson G
Nutrigenomics and nutrigenetics: the emerging faces of nutrition
04
213133124 2005 BMC GENOMICS 6: Art. No. 11
Nalbant D; Youn H; Nalbant SI; Sharma S; Cobos E; et al.
FAM20: an evolutionarily conserved family of secreted proteins expressed in hematopoietic cells
00
21411858 2004 JOURNAL OF MOLECULAR EVOLUTION 59 (5): 703-708
Nekrutenko A
Identification of novel exons from rat-mouse comparisons
00
215230241 2005 NATURE METHODS 2 (2): 105-111
Ng P; Wei CL; Sung WK; Chiu KP; Lipovich L; et al.
Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation
015
21616065 2004 MOLECULAR THERAPY 10 (2): 344-354
Nicol CG; Graham D; Miller WH; White SJ; Smith TAG; et al.
Effect of adenovirus serotype 5 fiber and penton modifications on in vivo tropism in rats
011
217115149 2005 GENE 346: 23-28
Niimura Y; Nei M
Evolutionary changes of the number of olfactory receptor genes in the human and mouse lineages
05
21812398 2005 APMIS 113 (9): 613-620
Niittymaki J; Mattila P; Renkonen R
Cloning and expression of rat fucosyltransferase VII at sites of inflammation
00
21922870 2004 NATURE 431 (7011): 988-993
Nobrega MA; Zhu YW; Plajzer-Frick I; Afzal V; Rubin EM
Megabase deletions of gene deserts result in viable mice
725
220342309 2006 GENE 365: 130-136
Noda AO; Ikeo K; Gojobori T
Comparative genome analyses of nervous system-specific genes
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
2212116287 2006 ANATOMICAL RECORD PART A-DISCOVERIES IN MOLECULAR CELLULAR AND EVOLUTIONARY BIOLOGY 288A (4): 409-423
Nothwang HG; Koehl A; Friauf E
Comparative gene expression analysis reveals a characteristic molecular profile of the superior olivary complex
00
222634236 2005 NATURE 437 (7058): 551-555
Nusbaum C; Zody MC; Borowsky ML; Kamal M; Kodira CD; et al.
DNA sequence and analysis of human chromosome 18
03
223243144 2005 EUROPEAN JOURNAL OF IMMUNOLOGY 35 (1): 261-272
Nylenna O; Naper C; Vaage JT; Woon PY; Gauguier D; et al.
The genes and gene organization of the Ly49 region of the rat natural killer cell gene complex
05
22412233 2004 GENOME RESEARCH 14 (8): 1610-1616
Ogurtsov AY; Sunyaev S; Kondrashov AS
Indel-based evolutionary distance and mouse-human divergence
16
225111210 2005 JOURNAL OF HEALTH SCIENCE 51 (2): 253-256
Ohta K; Osada S; Nishikawa J; Nishihara T
Cloning and characterization of a cDNA encoding the histone acetyltransferase monocytic leukemia zinc finger protein (MOZ) in the rat
00
22618121 2004 EXPERT OPINION ON THERAPEUTIC TARGETS 8 (6): 587-596
Orth AP; Batalov S; Perrone M; Chanda SK
The promise of genomics to identify novel therapeutic targets
06
227121140 2005 DNA SEQUENCE 16 (2): 151-155
Osada S; Imagawa M; Nishihara T
Organization of gene structure and expression of nuclear factor 1 family in rat
00
228357126 2005 BMC GENOMICS 6: Art. No. 139
Otto H; Reche PA; Bazan F; Dittmar K; Haag F; et al.
In silico characterization of the family of PARP-like poly(ADP-ribosyl) transferases (pARTs)
02
229234166 2005 GENOME RESEARCH 15 (1): 137-145
Ovcharenko I; Loots GG; Nobrega MA; Hardison RC; Miller W; et al.
Evolution and functional classification of vertebrate gene deserts
523
23013846 2004 GENOMICS 84 (6): 1051-1059
Pall GS; Wallis J; Axton R; Brownstein DG; Gautier P; et al.
A novel transmembrane MSP-containing protein that plays a role in right ventricle development
02
#LCRNCRNode / Date / Journal / AuthorLCSGCS
231130112 2005 BIOINFORMATICS 21 (17): 3461-3468
Pan XK; Stein L; Brendel V
SynBrowse: a synteny browser for comparative sequence analysis
00
232418264 2005 PLOS GENETICS 1 (6): 672-675
Pardi F; Goldman N
Species choice for comparative genomics: Being greedy works
00
233268263 2005 PLOS GENETICS 1 (5): 507-513
Parker HG; Ostrander EA
Canine genomics and genetics: Running with the pack
01
234343338 2006 NATURE 441 (7097): 1103-1108
Patterson N; Richter DJ; Gnerre S; Lander ES; Reich D
Genetic evidence for complex speciation of humans and chimpanzees
00
235279302 2006 COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING 9 (5): 389-397
Pedroso S; Guillen IA
Microarray and nanotechnology applications of functional nanoparticles
00
23618493 2005 AMERICAN JOURNAL OF PHARMACOGENOMICS 5 (1): 53-62
Penny MA; McHale D
Pharmacogenomics and the drug discovery pipeline - When should it be implemented?
06
23714710 2004 BMC EVOLUTIONARY BIOLOGY 4: Art. No. 17
Pereira SL; Baker AJ
Low number of mitochondrial pseudogenes in the chicken (Gallus gallus) nuclear genome: implications for molecular inference of population history and phylogenetics
011
238268347 2006 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 103 (15): 5676-5681
Pereira TV; Salzano FM; Mostowska A; Trzeciak WH; Ruiz-Linares A; et al.
Natural selection and molecular evolution in primate PAX9 gene, a major determinant of tooth development
00
239117251 2005 NUCLEIC ACIDS RESEARCH 33: D492-D494
Petersen G; Johnson P; Andersson L; Klinga-Levan K; Gomez-Fabre PM; et al.
RatMap - rat genome tools and data
01
240348330 2006 MAMMALIAN GENOME 17 (6): 480-489
Petretto E; Mangion J; Pravanec M; Hubner N; Aitman TJ
Integrated gene expression profiling and linkage analysis in the rat
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
24116487 2004 TOXICOLOGY 202 (1-2): 21-32
Plant N
Interaction networks: coordinating responses to xenobiotic exposure
04
242144226 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (9): 1845-1852
Podlaha O; Webb DM; Tucker PK; Zhang JZ
Positive selection for indel substitutions in the rodent sperm protein Catsper1
14
243280182 2005 GENOME RESEARCH 15 (12): 1809-1819
Pollinger JP; Bustamante CD; Fledel-Alon A; Schmutz S; Gray MM; et al.
Selective sweep mapping of genes with large phenotypic effects
00
244284292 2006 BIOESSAYS 28 (5): 495-503
Popova NK
From genes to aggressive behavior: the role of serotonergic system
00
245444186 2005 GENOMICS 86 (3): 295-305
Portnoy ME; McDermott KJ; Antonellis A; Margulies EH; Prasad AB; et al.
Detection of potential GDF6 regulatory elements by multispecies sequence comparisons and identification of a skeletal joint enhancer
00
246126109 2005 BIOINFORMATICS 21: I351-I358
Price AL; Jones NC; Pevzner PA
De novo identification of repeat families in large genomes
00
247119102 2005 BIOCHEMICAL SOCIETY TRANSACTIONS 33: 331-334
Puente XS; Sanchez LM; Gutierrez-Fernandez A; Velasco G; Lopez-Otin C
A genomic view of the complexity of mammalian proteolytic systems
03
248259188 2005 GENOMICS 86 (6): 638-647
Puente XS; Gutierrez-Fernandez A; Ordonez GR; Hillier LDW; Lopez-Otin C
Comparative genomic analysis of human and chimpanzee proteases
01
24916554 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279 (25): 26627-26634
Quesada C; Sanchez LM; Alvarez J; Lopez-Otin C
Identification and characterization of human and mouse ovastacin - A novel metalloproteinase similar to hatching enzymes from arthropods, birds, amphibians, and fish
02
250142162 2005 GENOME BIOLOGY 6 (10): Art. No. R83
Quignon P; Giraud M; Rimbault M; Lavigne P; Tacher S; et al.
The dog and rat olfactory receptor repertoires
02
#LCRNCRNode / Date / Journal / AuthorLCSGCS
251167304 2006 CURRENT OPINION IN PLANT BIOLOGY 9 (2): 149-156
Rabinowicz PD; Bennetzen JL
The maize genome as a model for efficient sequence analysis of large plant genomes
00
252221189 2005 GENOMICS 86 (6): 759-766
Raymond CK; Subramanian S; Paddock M; Qiu RL; Deodato C; et al.
Targeted, haplotype-resolved resequencing of long segments of the human genome
01
2531162341 2006 NEUROBIOLOGY OF AGING 27 (8): 1060-1077
Reddy PH; McWeeney S
Mapping cellular transcriptosomes in autopsied Alzheimer's disease subjects and relevant animal models
02
2541418 2004 EJSO 30 (8): 905-906
Rew DA
The sequencing of the rat genone
00
25511926 2004 GENETICS 168 (2): 1077-1080
Robertson HM
Genes encoding vitamin-K epoxide reductase are present in Drosophila and trypanosomatid protists
02
256318270 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (19): 6639-6640
Rodriguez I
Remarkable diversity of mammalian pheromone receptor repertoires
00
257157119 2005 BMC BIOINFORMATICS 6: Art. No. 278
Rosenberg MS
Multiple sequence alignment accuracy and evolutionary distance estimation
01
258267231 2005 NATURE 434 (7031): 325-337
Ross MT; Grafham DV; Coffey AJ; Scherer S; McLay K; et al.
The DNA sequence of the human X chromosome
360
259136197 2005 IMMUNOGENETICS 57 (10): 739-749
Rothenburg S; Haag F; Koch-Nolte F; Carter C; Graham M; et al.
Characterization of multiple alleles of the T-cell differentiation marker ART2 (RT6) in inbred and wild rats
00
260137118 2005 BMC BIOINFORMATICS 6: Art. No. 175
Rouchka EC; Khalyfa A; Cooper NGF
MPrime: efficient large scale multiple primer and oligonucleotide design for customized gene microarrays
01
#LCRNCRNode / Date / Journal / AuthorLCSGCS
26113937 2004 GENOME RESEARCH 14 (10B): 2128-2135
Rual JF; Hirozane-Kishikawa T; Hao T; Bertin N; Li SM; et al.
Human ORFeome version 1.1: A platform for reverse proteomics
112
262135273 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (40): 14302-14307
Ryu BY; Kubota H; Avarbock MR; Brinster RL
Conservation of spermatogonial stem cell self-renewal signaling between mouse and rat
17
263365211 2005 JOURNAL OF LIPID RESEARCH 46 (10): 2151-2167
Sabol SL; Brewer HB; Santamarina-Fojo S
The human ABCG1 gene: identification of LXR response elements that modulate expression in macrophages and liver
04
264245256 2005 PHARMACOGENOMICS 6 (7): 749-754
Salter AH
Large-scale databases in toxicogenomics
02
265514594 2005 ANAIS DA ACADEMIA BRASILEIRA DE CIENCIAS 77 (4): 627-650
Salzano FM
Evolutionary change - patterns and processes
00
266154101 2005 BIOCHEMICAL JOURNAL 390: 115-123
Sandy J; Mushtaq A; Holton SJ; Schartau P; Noble MEM; et al.
Investigation of the catalytic triad of arylamine N-acetyltransferases: essential residues required for acetyl transfer to arylamines
01
267130150 2005 GENE 346: 51-61
Santini S; Bernardi G
Organization and base composition of tilapia Hox genes: implications for the evolution of Hox clusters in fish
03
268133240 2005 NATURE IMMUNOLOGY 6 (7): 689-697
Saveanu L; Carroll O; Lindo V; Del Val M; Lopez D; et al.
Concerted peptide trimming by human ERAP1 and ERAP2 aminopeptidase complexes in the endoplasmic reticulum
012
269244308 2006 EUROPEAN JOURNAL OF IMMUNOLOGY 36 (1): 107-117
Savithri B; Khar A
A transmembrane-anchored rat RAE-1-like transcript as a ligand for NKR-P2, the rat ortholog of human and mouse NKG2D
00
270231335 2006 NATURE 440 (7082): 346-351
Scherer SE; Muzny DM; Buhay CJ; Chen R; Cree A; et al.
The finished DNA sequence of human chromosome 12
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
271113856 2004 JOURNAL OF COMPARATIVE NEUROLOGY 476 (2): 186-201
Schoenfeld TA; Knott TK
Evidence for the disproportionate mapping of olfactory airspace onto the main olfactory bulb of the hamster
15
2722123300 2006 CHEMICAL SENSES 31 (2): 131-144
Schoenfeld TA; Cleland TA
Anatomical contributions to odorant sampling and representation in rodents: Zoning in on sniffing behavior
00
273338261 2005 PLANT PHYSIOLOGY 138 (3): 1301-1309
Schoof H; Spannagl M; Yang L; Ernst R; Gundlach H; et al.
Munich Information Center for Protein Sequences plant genome resources. A framework for integrative and comparative analyses
00
274294305 2006 CYTOGENETIC AND GENOME RESEARCH 112 (3-4): 261-269
Scott LA; Kuroiwa A; Matsuda Y; Wichman HA
X accumulation of LINE-1 retrotransposons in Tokudaia osimensis, a spiny rat with the karyotype XO
00
27514792 2005 AMERICAN JOURNAL OF PATHOLOGY 166 (5): 1427-1439
Sebbane F; Gardner D; Long D; Gowen BB; Hinnebusch BJ
Kinetics of disease progression and host response in a rat model of bubonic plague
05
276117123 2004 FOLIA BIOLOGICA 50 (2): 43-57
Seda O
Comparative gene map of hypertriglyceridaemia
03
277142121 2005 BMC EVOLUTIONARY BIOLOGY 5: Art. No. 32
Semple CAM; Maxwell A; Gautier P; Kilanowski FM; Eastwood H; et al.
The complexity of selection at the major primate beta-defensin locus
03
2781172277 2005 PROTEOMICS 5 (11): 2819-2838
Shakib K; Norman JT; Fine LG; Brown LR; Godovac-Zimmermann J
Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus
02
27912368 2004 NATURE 431 (7011): 927-930
She XW; Jiang ZX; Clark RL; Liu G; Cheng Z; et al.
Shotgun sequence assembly and recent segmental duplications within the human genome
437
280110615 2004 CHEMICO-BIOLOGICAL INTERACTIONS 150 (1): 53-70
Shenton JM; Chen J; Uetrecht JP
Animal models of idiosyncratic drug reactions
18
#LCRNCRNode / Date / Journal / AuthorLCSGCS
281152213 2005 JOURNAL OF MOLECULAR EVOLUTION 60 (5): 566-576
Shi P; Bielawski JP; Yang H; Zhang YP
Adaptive diversification of vomeronasal receptor 1 genes in rodents
14
282549295 2006 BMC BIOINFORMATICS 7: Art. No. 103
Shih ACC; Lee DT; Lin L; Peng CL; Chen SH; et al.
SinicView: A visualization environment for comparisons of multiple nucleotide sequence alignment tools
00
2831192170 2005 GENOME RESEARCH 15 (8): 1034-1050
Siepel A; Bejerano G; Pedersen JS; Hinrichs AS; Hou MM; et al.
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
333
284251178 2005 GENOME RESEARCH 15 (11): 1519-1534
Smith AV; Thomas DJ; Munro HM; Abecasis GR
Sequence features in regions of weak and strong linkage disequilibrium
01
285184157 2005 GENETICS 171 (3): 1161-1171
Smith JJ; Kump DK; Walker JA; Parichy DM; Voss SR
A comprehensive expressed sequence tag linkage map for tiger salamander and Mexican axolotl: enabling gene mapping and comparative genomics in ambystoma
01
28613843 2004 GENOMICS 84 (5): 806-813
Smith NGC; Brandstrom M; Ellegren H
Evidence for turnover of functional noncoding DNA in mammalian genome evolution
37
287238127 2005 BMC GENOMICS 6: Art. No. 170
Smits BMG; Guryev V; Zeegers D; Wedekind D; Hedrich HJ; et al.
Efficient single nucleotide polymorphism discovery in laboratory rat strains using wild rat-derived SNP candidates
00
288144156 2005 GENETICS 170 (4): 1887-1896
Smits BMG; Peters TA; Mul JD; Croes HJ; Fransen JAM; et al.
Identification of a rat model for usher syndrome type 1B by N-ethyl-N-nitrosourea mutagenesis-driven forward genetics
11
289492352 2006 TRENDS IN GENETICS 22 (4): 232-240
Smits BMG; Cuppen E
Rat genetics: the next episode
00
290283288 2006 ANIMAL SCIENCE JOURNAL 77 (1): 1-9
Soares MJ; Alam SMK; Konno T; Ho-Chen JK; Ain R
The prolactin family and pregnancy-dependent adaptations
02
#LCRNCRNode / Date / Journal / AuthorLCSGCS
291173255 2005 PFLUGERS ARCHIV-EUROPEAN JOURNAL OF PHYSIOLOGY 450 (1): 13-25
Soutourina O; Cheval L; Doucet A
Global analysis of gene expression in mammalian kidney
01
292136307 2006 EUKARYOTIC CELL 5 (5): 789-793
Stajich JE; Dietrich FS
Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans
00
293391298 2006 BMC GENOMICS 7: Art. No. 20
Steinke D; Salzburger W; Braasch I; Meyer A
Many genes in fish have species-specific asymmetric rates of molecular evolution
00
294122111 2005 BIOINFORMATICS 21 (9): 1789-1796
Stepanova M; Tiazhelova T; Skoblov M; Baranova A
A comparative analysis of relative occurrence of transcription factor binding sites in vertebrate genomes and gene promoter areas
02
295115289 2006 APPLICATIONS OF EVOLUTIONARY COMPUTING, PROCEEDINGS 3907: 196-207
Stojanovic N
An algorithm for the automated verification of DNA supercontig assemblies
00
296610296 2005 ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS 6: 143-164
Stone EA; Cooper GM; Sidow A
Trade-offs in detecting evolutionarily constrained sequence by comparative genomics
03
29717061 2004 MAMMALIAN GENOME 15 (11): 887-900
Stover CM; Lynch NJ; Hanson SJ; Windbichler M; Gregory SG; et al.
Organization of the MASP2 locus and its expression profile in mouse and rat
02
29813155 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279 (53): 56014-56023
Streb JW; Kitchen CM; Gelman IH; Miano JM
Multiple promoters direct expression of three AKAP12 isoforms with distinct subcellular and tissue distribution profiles
04
299364315 2006 GENOME RESEARCH 16 (7): 922-933
Sun M; Hurst LD; Carmichael GG; Chen J
Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcription and organismic complexity
00
300128214 2005 JOURNAL OF NUTRITION 135 (9): 2144-2150
Sunde RA; Evenson JK; Thompson KM; Sachdev SW
Dietary selenium requirements based on glutathione peroxidase-1 activity and mRNA levels and other Se-dependent parameters are not increased by pregnancy and lactation in rats
02

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