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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
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Collection span: 2004 - 2006
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#LCRNCRNode / Date / Journal / AuthorLCSGCS
12396345 2006 PHYSIOLOGICAL REVIEWS 86 (2): 709-746
Mullins LJ; Bailey MA; Mullins JJ
Hypertension, kidney, and transgenics: A fresh perspective
00
21340142 2005 DRUG METABOLISM REVIEWS 37 (3): 511-564
Boukouvala S; Fakis G
Arylamine N-acetyltransferases: What we learn from genes and genomes
00
32296200 2005 INTERNATIONAL REVIEW OF CYTOLOGY - A SURVEY OF CELL BIOLOGY, VOL 247 247: 165-+
Kramerov DA; Vassetzky NS
Short retroposons in eukaryotic genomes
03
4022666 2004 NATURE 428 (6982): 493-521
Gibbs RA; Weinstock GM; Metzker ML; Muzny DM; Sodergren EJ; et al.
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
352352
51213290 2006 AUTONOMIC NEUROSCIENCE-BASIC & CLINICAL 125 (1-2): 100-115
Andrews PLR; Horn CC
Signals for nausea and emesis: Implications for models of upper gastrointestinal diseases
00
611933 2004 ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS 5: 15-56
Miller W; Makova KD; Nekrutenko A; Hardison RC
Comparative genomics
1131
711734 2004 ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS 5: 443-477
Borevitz JO; Ecker JR
Plant genomics: The third wave
012
86172235 2005 NATURE 437 (7055): 69-87
Mikkelsen TS; Hillier LW; Eichler EE; Zody MC; Jaffe DB; et al.
Initial sequence of the chimpanzee genome and comparison with the human genome
888
91172277 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
10117123 2004 FOLIA BIOLOGICA 50 (2): 43-57
Seda O
Comparative gene map of hypertriglyceridaemia
03
#LCRNCRNode / Date / Journal / AuthorLCSGCS
11316571 2004 NATURE 432 (7018): 695-716
Hillier LW; Miller W; Birney E; Warren W; Hardison RC; et al.
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
40201
121162341 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
131158327 2006 JOURNAL OF PERINATAL MEDICINE 34 (3): 185-195
Genuis SJ
The chemical erosion of human health: adverse environmental exposure and in-utero pollution determinants of congenital disorders and chronic disease
00
142157281 2005 TRANSGENIC RESEARCH 14 (5): 531-546
Tesson L; Cozzi J; Menoret S; Remy S; Usal C; et al.
Transgenic modifications of the rat genome
00
151155246 2005 NEURON 48 (3): 417-430
Ache BW; Young JM
Olfaction: Diverse species, conserved principles
03
16514594 2005 ANAIS DA ACADEMIA BRASILEIRA DE CIENCIAS 77 (4): 627-650
Salzano FM
Evolutionary change - patterns and processes
00
171145146 2005 FASEB JOURNAL 19 (12): 1602-1616
Mutch DM; Wahli W; Williamson G
Nutrigenomics and nutrigenetics: the emerging faces of nutrition
04
18113856 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
196135179 2005 GENOME RESEARCH 15 (12): 1717-1728
Lazar J; Moreno C; Jacob HJ; Kwitek AE
Impact of genomics on research in the rat
00
20113477 2004 NATURE REVIEWS GENETICS 5 (6): 435-445
Ellegren H
Microsatellites: Simple sequences with complex evolution
140
#LCRNCRNode / Date / Journal / AuthorLCSGCS
213133284 2005 TRENDS IN GENETICS 21 (12): 673-682
Coghlan A; Eichler EE; Oliver SG; Paterson AH; Stein L
Chromosome evolution in eukaryotes: a multi-kingdom perspective
01
222123300 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
233121228 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (11): 2275-2284
Blair JE; Hedges SB
Molecular phylogeny and divergence times of deuterostome animals
07
2414119238 2005 NATURE 438 (7069): 803-819
Lindblad-Toh K; Wade CM; Mikkelsen TS; Karlsson EK; Jaffe DB; et al.
Genome sequence, comparative analysis and haplotype structure of the domestic dog
429
25511797 2005 ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS 6: 381-406
Giallourakis C; Henson C; Reich M; Xie XH; Mootha VK
Disease gene discovery through integrative genomics
01
262116287 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
2711158 2004 BIOESSAYS 26 (8): 833-843
Suzuki M; Hayashizaki Y
Mouse-centric comparative transcriptomics of protein coding and non-coding RNAs
314
28111116 2004 COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING 7 (4): 345-359
Bazylak G; Nagels LJ; Geise HJ
Potentiometric quasi-array employing calixarene derivatives for the high-throughput similarity/diversity screening of beta-adrenergic and beta-blocking chiral drugs by HPLC
00
294111243 2005 NATURE REVIEWS GENETICS 6 (9): 699-708
Gregory TR
Synergy between sequence and size in large-scale genomics
01
301109141 2005 DRUG METABOLISM REVIEWS 37 (2): 279-310
Wishart DS
Bioinformatics in drug development and assessment
01
#LCRNCRNode / Date / Journal / AuthorLCSGCS
311107244 2005 NATURE REVIEWS MOLECULAR CELL BIOLOGY 6 (9): 702-714
Yates JR; Gilchrist A; Howell KE; Bergeron JJM
Proteomics of organelles and large cellular structures
09
32110615 2004 CHEMICO-BIOLOGICAL INTERACTIONS 150 (1): 53-70
Shenton JM; Chen J; Uetrecht JP
Animal models of idiosyncratic drug reactions
18
334103171 2005 GENOME RESEARCH 15 (8): 1051-1060
King DC; Taylor J; Elnitski L; Chiaromonte F; Miller W; et al.
Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
06
34610296 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
35399324 2006 JOURNAL OF BIOMEDICAL INFORMATICS 39 (1): 51-61
Kosiol C; Bofkin L; Whelan S
Phylogenetics by likelihood: Evolutionary modeling as a tool for understanding the genome
01
3619720 2004 EUROPEAN JOURNAL OF PHARMACOLOGY 500 (1-3): 385-398
Vercauteren FGG; Bergeron JJM; Vandesande F; Arckens L; Quirion R
Proteomic approaches in brain research and neuropharmacology
06
37197325 2006 JOURNAL OF INTEGRATIVE PLANT BIOLOGY 48 (1): 5-14
Feng CP; Mundy J
Gene discovery and functional analyses in the model plant Arabidopsis
00
38196134 2005 COMPUTATIONAL BIOLOGY AND CHEMISTRY 29 (1): 1-12
Makalowska I; Lin CF; Makalowski W
Overlapping genes in vertebrate genomes
05
39296337 2006 NATURE 441 (7097): 1087-1093
Muotri AR; Gage FH
Generation of neuronal variability and complexity
00
40294305 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
#LCRNCRNode / Date / Journal / AuthorLCSGCS
411192170 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
42492352 2006 TRENDS IN GENETICS 22 (4): 232-240
Smits BMG; Cuppen E
Rat genetics: the next episode
00
43391298 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
44689320 2006 HUMAN MOLECULAR GENETICS 15: R31-R43
Temple G; Lamesch P; Milstein S; Hill DE; Wagner L; et al.
From genome to proteome: developing expression clone resources for the human genome
00
45189332 2006 MEDICINAL RESEARCH REVIEWS 26 (1): 63-87
Glocker MO; Guthke R; Kekow J; Thiesen HJ
Rheumatoid arthritis, a complex multifactorial disease: On the way toward individualized medicine
00
4618689 2004 TRENDS IN GENETICS 20 (12): 631-639
Murphy WJ; Pevzner PA; O'Brien SJ
Mammalian phylogenomics comes of age
424
4718534 2004 GENOME RESEARCH 14 (10B): 2001-2009
Brasch MA; Hartley JL; Vidal M
ORFeome cloning and systems biology: Standardized mass production of the parts from the parts-list
016
48185105 2005 BIOESSAYS 27 (8): 775-784
Han JS; Boeke JD
LINEA retrotransposons: modulators of quantity and quality of mammalian gene expression?
04
4918493 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
50184157 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
#LCRNCRNode / Date / Journal / AuthorLCSGCS
51284292 2006 BIOESSAYS 28 (5): 495-503
Popova NK
From genes to aggressive behavior: the role of serotonergic system
00
52184343 2006 PHYSIOLOGICAL GENOMICS 24 (3): 235-251
Jiang SY; Ramachandran S
Comparative and evolutionary analysis of genes encoding small GTPases and their activating proteins in eukaryotic genomes
00
53183145 2005 EXPERT REVIEW OF PROTEOMICS 2 (1): 27-39
Kislinger T; Emili A
Multidimensional protein identification technology: current status and future prospects
00
54283288 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
5518113 2004 CELL 119 (7): 1027-1040
Dorus S; Vallender EJ; Evans PD; Anderson JR; Gilbert SL; et al.
Accelerated evolution of nervous system genes in the origin of Homo sapiens
438
5618121 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
5718163 2004 MOLECULAR BIOLOGY AND EVOLUTION 21 (10): 1923-1937
Bertrand W; Brunet FG; Escriva H; Parmentier G; Laudet V; et al.
Evolutionary genomics of nuclear receptors: From twenty-five ancestral genes to derived endocrine systems
011
58280182 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
59180220 2005 MECHANISMS OF AGEING AND DEVELOPMENT 126 (6-7): 767-782
Maya-Mendoza A; Hernandez-Munoz R; Gariglio P; Aranda-Anzaldo A
Natural ageing in the rat liver correlates with progressive stabilisation of DNA-nuclear matrix interactions and withdrawal of genes from the nuclear substructure
00
60279130 2005 CHEMICAL RESEARCH IN TOXICOLOGY 18 (3): 403-414
Hayes KR; Bradfield RA
Advances in toxicogenomics
07
#LCRNCRNode / Date / Journal / AuthorLCSGCS
61279302 2006 COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING 9 (5): 389-397
Pedroso S; Guillen IA
Microarray and nanotechnology applications of functional nanoparticles
00
6227740 2004 GENOME RESEARCH 14 (12): 2412-2423
Blanchette M; Green ED; Miller W; Haussler D
Reconstructing large regions of an ancestral mammalian genome in silico
211
63177106 2005 BIOESSAYS 27 (8): 839-848
Barbazuk WB; Bedell JA; Rabinowicz PD
Reduced representation sequencing: a success in maize and a promise for other plant genomes
01
64277128 2005 BRIEFINGS IN BIOINFORMATICS 6 (1): 6-22
Batzoglou S
The many faces of sequence alignment
25
65277151 2005 GENE 359: 1-17
Edelstein LC; Collins T
The SCAN domain family of zinc finger transcription
00
66277344 2006 PHYSIOLOGICAL GENOMICS 25 (3): 405-413
Larson JH; Kumar CG; Everts RE; Green CA; Everts-van der Wind A; et al.
Discovery of eight novel divergent homologs expressed in cattle placenta
00
67176209 2005 JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 304B (1): 75-85
Tanzer A; Amemiya CT; Kim CB; Stadler PF
Evolution of microRNAs located within Hox gene clusters
09
6817532 2004 GENOME RESEARCH 14 (8): 1516-1529
Emes RD; Riley MC; Laukaitis CM; Goodstadt L; Karn RC; et al.
Comparative evolutionary genomics of androgen-binding protein genes
14
69175116 2005 BMC BIOINFORMATICS 6: Art. No. 53
Blair JE; Shah P; Hedges SB
Evolutionary sequence analysis of complete eukaryote genomes
04
70275257 2005 PHASE II CONJUGATION ENZYMES AND TRANSPORT SYSTEMS 400: 22-46
Gardner-Stephen DA; Gregory PA; Mackenzie PI
Identification and characterization of functional hepatocyte nuclear factor 1-binding sites in UDP-glucuronosyltransferase genes
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
71874303 2006 CURRENT OPINION IN NEPHROLOGY AND HYPERTENSION 15 (2): 145-151
McBride MW; Graham D; Delles C; Dominiczak AF
Functional genomics in hypertension
00
72173255 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
73171353 2006 TRENDS IN NEUROSCIENCES 29 (4): 233-240
Vitaterna MH; Pinto LH; Takahashi JS
Large-scale mutagenesis and phenotypic screens for the nervous system and behavior in mice
00
7417061 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
75470180 2005 GENOME RESEARCH 15 (12): 1777-1786
Brent MR
Genome annotation past, present, and future: How to define an ORF at each locus
11
7616859 2004 JOURNAL OF NEUROSCIENCE 24 (23): 5410-5419
Cirelli C; Tononi G
Locus ceruleus control of state-dependent gene expression
012
77268263 2005 PLOS GENETICS 1 (5): 507-513
Parker HG; Ostrander EA
Canine genomics and genetics: Running with the pack
01
78468282 2005 TRENDS IN ECOLOGY & EVOLUTION 20 (4): 180-186
Ellegren H
The avian genome uncovered
03
79268347 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
80267231 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
#LCRNCRNode / Date / Journal / AuthorLCSGCS
81167304 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
82467333 2006 MOLECULAR BIOLOGY AND EVOLUTION 23 (3): 675-682
Chen FC; Wang SS; Chen CJ; Li WH; Chuang TJ
Alternatively and constitutively spliced exons are subject to different evolutionary forces
02
8316611 2004 BMC GENOMICS 5: Art. No. 62
Balciunas D; Davidson AE; Sivasubbu S; Hermanson SB; Welle Z; et al.
Enhancer trapping in zebrafish using the Sleeping Beauty transposon
014
8416652 2004 IMMUNOLOGY OF DIABETES III 1037: 41-58
Kutlu B; Naamane N; Berthou L; Eizirik DL
New approaches for in silico identification of cytokine-modified beta cell gene networks
00
85166207 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
8616550 2004 IMMUNOGENETICS 56 (8): 585-596
Ettinger RA; Moustakas AK; Lobaton SD
Open reading frame sequencing and structure-based alignment of polypeptides encoded by RT1-Bb, RT1-Ba, RT1-Db, and RT1-Da alleles
00
8716554 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
88365211 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
89365334 2006 MOLECULAR BIOLOGY AND EVOLUTION 23 (5): 927-940
Ezawa K; OOta S; Saitou N
Genome-wide search of gene conversions in duplicated genes of mouse and rat
00
9016487 2004 TOXICOLOGY 202 (1-2): 21-32
Plant N
Interaction networks: coordinating responses to xenobiotic exposure
04
#LCRNCRNode / Date / Journal / AuthorLCSGCS
91364136 2005 CURRENT GENOMICS 6 (8): 589-595
Fedorova L; Fedorov A
Puzzles of the human genome: Why do we need our introns?
00
92364313 2006 GENOME BIOLOGY 7 (5): Art. No. R43
Blomme T; Vandepoele K; De Bodt S; Simillion C; Maere S; et al.
The gain and loss of genes during 600 million years of vertebrate evolution
00
93364315 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
94663169 2005 GENOME RESEARCH 15 (7): 901-913
Cooper GM; Stone EA; Asimenos G; Green ED; Batzoglou S; et al.
Distribution and intensity of constraint in mammalian genomic sequence
28
95263331 2006 MARINE BIOLOGY 149 (1): 107-115
Watanabe H; Iguchi T
Using ecotoxicogenomics to evaluate the impact of chemicals on aquatic organisms
00
9616230 2004 GENOME RESEARCH 14 (5): 802-811
Castillo-Davis CI; Kondrashov FA; Hartl DL; Kulathinal RJ
The functional genomic distribution of protein divergence in two animal phyla: Coevolution, genomic conflict, and constraint
112
9716238 2004 GENOME RESEARCH 14 (10A): 1851-1860
Zhao SY; Shetty J; Hou LH; Delcher A; Zhu BL; et al.
Human, mouse, and rat genome large-scale rearrangements: Stability versus speciation
49
98561137 2005 CURRENT OPINION IN GENETICS & DEVELOPMENT 15 (6): 628-633
Adams MD
Conserved sequences and the evolution of gene regulatory signals
00
9916065 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
100260181 2005 GENOME RESEARCH 15 (12): 1787-1797
Webber C; Ponting CP
Hotspots of mutation and breakage in dog and human chromosomes
00

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