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Initial sequencing and comparative analysis of the mouse genome
R.H. Waterston et al.
NATURE
420 (6915): 520-562 DEC 5 2002
and the citing papers

Nodes: 549
Authors: 2932, Journals: 196, Outer References: 18463
Collection span: 2002 - 2004
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#LCRNCRNodes / Authors / DateLCSGCS
113312 2002 NATURE 420(6915):520-562
Waterston RH; Lindblad-Toh K; Birney E; Rogers J; Abril JF; Agarwal P; Agarwala R; Ainscough R; Alexandersson M; An P; Antonarakis SE; Attwood J; Baertsch R; Bailey J; Barlow K; Beck S; Berry E; Birren B; Bloom T; Bork P; Botcherby M; Bray N; Brent MR; Brown DG; Brown SD; Bult C; Burton J; Butler J; Campbell RD; Carninci P; Cawley S; Chiaromonte F; Chinwalla AT; Church DM; Clamp M; Clee C; Collins FS; Cook LL; Copley RR; Coulson A; Couronne O; Cuff J; Curwen V; Cutts T; Daly M; David R; Davies J; Delehaunty KD; Deri J; Dermitzakis ET; Dewey C; Dickens NJ; Diekhans M; Dodge S; Dubchak I; Dunn DM; Eddy SR; Elnitski L; Emes RD; Eswara P; Eyras E; Felsenfeld A; Fewell GA; Flicek P; Foley K; Frankel WN; Fulton LA; Fulton RS; Furey TS; Gage D; Gibbs RA; Glusman G; Gnerre S; Goldman N; Goodstadt L; Grafham D; Graves TA; Green ED; Gregory S; Guigo R; Guyer M; Hardison RC; Haussler D; Hayashizaki Y; Hillier LW; Hinrichs A; Hlavina W; Holzer T; Hsu F; Hua A; Hubbard T; Hunt A; Jackson I; Jaffe DB; Johnson LS; Jones M; Jones TA; Joy A; Kamal M; Karlsson EK; Karolchik D; Kasprzyk A; Kawai J; Keibler E; Kells C; Kent WJ; Kirby A; Kolbe DL; Korf I; Kucherlapati RS; Kulbokas EJ; Kulp D; Landers T; Leger JP; Leonard S; Letunic I; Levine R; Li J; Li M; Lloyd C; Lucas S; Ma B; Maglott DR; Mardis ER; Matthews L; Mauceli E; Mayer JH; McCarthy M; McCombie WR; McLaren S; McLay K; McPherson JD; Meldrim J; Meredith B; Mesirov JP; Miller W; Miner TL; Mongin E; Montgomery KT; Morgan M; Mott R; Mullikin JC; Muzny DM; Nash WE; Nelson JO; Nhan MN; Nicol R; Ning Z; Nusbaum C; O'Connor MJ; Okazaki Y; Oliver K; Larty EO; Pachter L; Parra G; Pepin KH; Peterson J; Pevzner P; Plumb R; Pohl CS; Poliakov A; Ponce TC; Ponting CP; Potter S; Quail M; Reymond A; Roe BA; Roskin KM; Rubin EM; Rust AG; Santos R; Sapojnikov V; Schultz B; Schultz J; Schwartz MS; Schwartz S; Scott C; Seaman S; Searle S; Sharpe T; Sheridan A; Shownkeen R; Sims S; Singer JB; Slater G; Smit A; Smith DR; Spencer B; Stabenau A; Strange-Thomann NS; Sugnet C; Suyama M; Tesler G; Thompson J; Torrents D; Trevaskis E; Tromp J; Ucla C; Vidal AU; Vinson JP; von Niederhausern AC; Wade CM; Wall M; Weber RJ; Weiss RB; Wendl MC; West AP; Wetterstrand K; Wheeler R; Whelan S; Wierzbowski J; Willey D; Williams S; Wilson RK; Winter E; Worley KC; Wyman D; Yang S; Yang SP; Zdobnov EM; Zody MC; Lander ES
Initial sequencing and comparative analysis of the mouse genome
551548
2150230 2003 NATURE 423(6937):241-254
Kellis M; Patterson N; Endrizzi M; Birren B; Lander ES
Sequencing and comparison of yeast species to identify genes and regulatory elements
26113
3144227 2003 NATURE 422(6934):835-847
Collins FS; Green ED; Guttmacher AE; Guyer MS
A vision for the future of genomics research
1488
4127231 2003 NATURE 423(6941):762-769
Yamauchi T; Kamon J; Ito Y; Tsuchida A; Yokomizo T; Kita S; Sugiyama T; Miyagishi M; Hara K; Tsunoda M; Murakami K; Ohteki T; Uchida S; Takekawa S; Waki H; Tsuno NH; Shibata Y; Terauchi Y; Froguel P; Tobe K; Koyasu S; Taira K; Kitamura T; Shimizu T; Nagai R; Kadowaki T
Cloning of adiponectin receptors that mediate antidiabetic metabolic effects
072
5150232 2003 NATURE 423(6942):825-U2
Skaletsky H; Kuroda-Kawaguchi T; Minx PJ; Cordum HS; Hillier L; Brown LG; Repping S; Pyntikova T; Ali J; Bieri T; Chinwalla A; Delehaunty A; Delehaunty K; Du H; Fewell G; Fulton L; Fulton R; Graves T; Hou SF; Latrielle P; Leonard S; Mardis E; Maupin R; McPherson J; Miner T; Nash W; Nguyen C; Ozersky P; Pepin K; Rock S; Rohlfing T; Scott K; Schultz B; Strong C; Tin-Wollam A; Yang SP; Waterston RH; Wilson RK; Rozen S; Page DC
The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes
765
6116124 2003 GENOME RESEARCH 13(1):103-107
Schwartz S; Kent WJ; Smit A; Zhang Z; Baertsch R; Hardison RC; Haussler D; Miller W
Human-mouse alignments with BLASTZ
3860
7430234 2003 NATURE 424(6950):788-793
Thomas JW; Touchman JW; Blakesley RW; Bouffard GG; Beckstrom-Sternberg SM; Margulies EH; Blanchette M; Siepel AC; Thomas PJ; McDowell JC; Maskeri B; Hansen NF; Schwartz MS; Weber RJ; Kent WJ; Karolchik D; Bruen TC; Bevan R; Cutler DJ; Schwartz S; Elnitski L; Idol JR; Prasad AB; Lee-Lin SQ; Maduro VVB; Summers TJ; Portnoy ME; Dietrich NL; Akhter N; Ayele K; Benjamin B; Cariaga K; Brinkley CP; Brooks SY; Granite S; Guan X; Gupta J; Haghighi P; Ho SL; Huang MC; Karlins E; Laric PL; Legaspi R; Lim MJ; Maduro QL; Masiello CA; Mastrian SD; McCloskey JC; Pearson R; Stantripop S; Tiongson EE; Tran JT; Tsurgeon C; Vogt JL; Walker MA; Wetherby KD; Wiggins LS; Young AC; Zhang LH; Osoegawa K; Zhu B; Zhao B; Shu CL; De Jong PJ; Lawrence CE; Smit AF; Chakravarti A; Haussler D; Green P; Miller W; Green ED
Comparative analyses of multi-species sequences from targeted genomic regions
3550
8114304 2003 SCIENCE 299(5611):1391-1394
Boffelli D; McAuliffe J; Ovcharenko D; Lewis KD; Ovcharenko I; Pachter L; Rubin EM
Phylogenetic shadowing of primate sequences to find functional regions of the human genome
2548
9120731 2003 BLOOD 101(6):2099-2114
Baum C; Dullmann J; Li ZX; Fehse B; Meyer J; Williams DA; von Kalle C
Side effects of retroviral gene transfer into hematopoietic stem cells
038
10124181 2003 INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE 11(5):579-583
Katoh M; Katoh M
Recombination cluster around FGFR2-WDR11-HTPAPL locus on human chromosome 10q26
038
#LCRNCRNodes / Authors / DateLCSGCS
11124123 2003 GENOME RESEARCH 13(1):97-102
Bray N; Dubchak I; Pachter L
AVID: A global alignment program
1737
121303 2002 NATURE 420(6915):578-582
Dermitzakis ET; Reymond A; Lyle R; Scamuffa N; Ucla C; Deutsch S; Stevenson BJ; Flegel V; Bucher P; Jongeneel CV; Antonarakis SE
Numerous potentially functional but non-genic conserved sequences on human chromosome 21
2535
13187117 2003 GENOME RESEARCH 13(1):13-26
Hardison RC; Roskin KM; Yang S; Diekhans M; Kent WJ; Weber R; Elnitski L; Li J; O'Connor M; Kolbe D; Schwartz S; Furey TS; Whelan S; Goldman N; Smit A; Miller W; Chiaromonte F; Haussler D
Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution
2733
14129240 2003 NATURE GENETICS 34(3):297-302
Nakai H; Montini E; Fuess S; Storm TA; Grompe M; Kay MA
AAV serotype 2 vectors preferentially integrate into active genes in mice
129
15130226 2003 NATURE 422(6930):433-438
Bowers JE; Chapman BA; Rong JK; Paterson AH
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
128
16136116 2003 GENOME RESEARCH 13(1):1-12
Frazer KA; Elnitski L; Church DM; Dubchak I; Hardison RC
Cross-species sequence comparisons: A review of methods and available resources
1225
171100248 2003 NATURE REVIEWS GENETICS 4(4):315-322
Muller M; Kersten S
Nutrigenomics: goals and strategies
123
185100245 2003 NATURE REVIEWS GENETICS 4(4):251-262
Ureta-Vidal A; Ettwiller L; Birney E
Comparative genomics: Genome-wide analysis in metazoan eukaryotes
1222
19129308 2003 SCIENCE 301(5641):1898-1903
Kirkness EF; Bafna V; Halpern AL; Levy S; Remington K; Rusch DB; Delcher AL; Pop M; Wang W; Fraser CM; Venter JC
The dog genome: Survey sequencing and comparative analysis
921
20142118 2003 GENOME RESEARCH 13(1):37-45
Pevzner P; Tesler G
Genome Rearrangements in mammalian evolution: Lessons from human and mouse genomes
920
#LCRNCRNodes / Authors / DateLCSGCS
21136121 2003 GENOME RESEARCH 13(1):73-80
Couronne O; Poliakov A; Bray N; Ishkhanov T; Ryaboy D; Rubin E; Pachter L; Dubchak I
Strategies and tools for whole-genome alignments
1319
222131250 2003 NATURE REVIEWS GENETICS 4(8):598-612
Jobling MA; Tyler-Smith C
The human Y chromosome: An evolutionary marker comes of age
118
232143249 2003 NATURE REVIEWS GENETICS 4(7):544-558
Puente XS; Sanchez LM; Overall CM; Lopez-Otin C
Human and mouse proteases: A comparative genomic approach
117
24339283 2003 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 100(3):1140-1145
Guigo R; Dermitzakis ET; Agarwal P; Ponting CP; Parra G; Reymond A; Abril JF; Keibler E; Lyle R; Ucla C; Antonarakis SE; Brent MR
Comparison of mouse and human genomes followed by experimental verification yields an estimated 1,019 additional genes
1017
2516032 2003 BMC BIOINFORMATICS 4():-
Tatusov RL; Fedorova ND; Jackson JD; Jacobs AR; Kiryutin B; Koonin EV; Krylov DM; Mazumder R; Mekhedov SL; Nikolskaya AN; Rao BS; Smirnov S; Sverdlov AV; Vasudevan S; Wolf YI; Yin JJ; Natale DA
The COG database: an updated version includes eukaryotes
015
2615571 2003 DEVELOPMENTAL BIOLOGY 258(2):432-442
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Conservation of the heterochronic regulator Lin-28, its developmental expression and microRNA complementary sites
015
27128120 2003 GENOME RESEARCH 13(1):64-72
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Distinguishing regulatory DNA from neutral sites
1215
28249233 2003 NATURE 424(6945):157-U2
Hillier LW; Fulton RS; Fulton LA; Graves TA; Pepin KH; Wagner-McPherson C; Layman D; Maas J; Jaeger S; Walker R; Wylie K; Sekhon M; Becker MC; O'Laughlin MD; Schaller ME; Fewell GA; Delehaunty KD; Miner TL; Nash WE; Cordes M; Du H; Sun H; Edwards J; Bradshaw-Cordum H; Ali J; Andrews S; Isak A; VanBrunt A; Nguyen C; Du FY; Lamar B; Courtney L; Kalicki J; Ozersky P; Bielicki L; Scott K; Holmes A; Harkins R; Harris A; Strong CM; Hou SF; Tomlinson C; Dauphin-Kohlberg S; Kozlowicz-Reilly A; Leonard S; Rohlfing T; Rock SM; Tin-Wollam AM; Abbott A; Minx P; Maupin R; Strowmatt C; Latreille P; Miller N; Johnson D; Murray J; Woessner JP; Wendl MC; Yang SP; Schultz BR; Wallis JW; Spieth J; Bieri TA; Nelson JO; Berkowicz N; Wohldmann PE; Cook LL; Hickenbotham MT; Eldred J; Williams D; Bedell JA; Mardis ER; Clifton SW; Chissoe SL; Marra MA; Raymond C; Haugen E; Gillett W; Zhou Y; James R; Phelps K; Iadanoto S; Bubb K; Simms E; Levy R; Clendenning J; Kaul R; Kent WJ; Furey TS; Baertsch RA; Brent MR; Keibler E; Flicek P; Bork P; Suyama M; Bailey JA; Portnoy ME; Torrents D; Chinwalla AT; Gish WR; Eddy SR; McPherson JD; Olson MV; Eichler EE; Green ED; Waterston RH; Wilson RK
The DNA sequence of human chromosome 7
1015
292436 2003 AMERICAN JOURNAL OF HUMAN GENETICS 72(6):1527-1535
Hellmann I; Ebersberger I; Ptak SE; Paabo S; Przeworski M
A neutral explanation for the correlation of diversity with recombination rates in humans
714
30129119 2003 GENOME RESEARCH 13(1):46-54
Flicek P; Keibler E; Hu P; Korf I; Brent MR
Leveraging the mouse genome for gene prediction in human: From whole-genome shotgun reads to a global synteny map
914
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Selection on human genes as revealed by comparisons to chimpanzee cDNA
914
32192228 2003 NATURE 422(6934):849-857
Carroll SB
Genetics and the making of Homo sapiens
114
33130235 2003 NATURE 425(6953):81-86
Kile BT; Hentges KE; Clark AT; Nakamura H; Salinger AP; Liu B; Box N; Stockton DW; Johnson RL; Behringer RR; Bradley A; Justice MJ
Functional genetic analysis of mouse chromosome 11
314
34545257 2003 NUCLEIC ACIDS RESEARCH 31(13):3518-3524
Schwartz S; Elnitski L; Li M; Weirauch M; Riemer C; Smit A; Program NCS; Green ED; Hardison RC; Miller W
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences
714
351113133 2003 GENOME RESEARCH 13(6B):1324-1334
Kiyosawa H; Yamanaka I; Osato N; Kondo S; Hayashizaki Y
Antisense transcripts with FANTOM2 clone set and their implications for gene regulation
313
361104246 2003 NATURE REVIEWS GENETICS 4(4):285-295
Satoh N
The ascidian tadpole larva: Comparative molecular development and genomics
213
37176175 2003 HUMAN MOLECULAR GENETICS 12(11):1313-1320
Nurtdinov RN; Artamonova II; Mironov AA; Gelfand MS
Low conservation of alternative splicing patterns in the human and mouse genomes
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Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: Enlarging genus Homo
112
39231305 2003 SCIENCE 300(5620):767-772
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Human chromosome 7: DNA sequence and biology
712
40424310 2003 SCIENCE 302(5647):1033-1035
Dermitzakis ET; Reymond A; Scamuffa N; Ucla C; Kirkness E; Rossier C; Antonarakis SE
Evolutionary discrimination of mammalian conserved non-genic sequences (CNGs)
912
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41245315 2003 TRENDS IN GENETICS 19(4):200-206
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Genomic clocks and evolutionary timescales
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Comparative gene prediction in human and mouse
911
43164132 2003 GENOME RESEARCH 13(6B):1273-1289
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Targeting a complex transcriptome: The construction of the mouse full-length cDNA encyclopedia
311
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New technologies to assess genotype-phenotype relationships
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411
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The genes and brains of mice and men
110
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Emes RD; Goodstadt L; Winter EE; Ponting CP
Comparison of the genomes of human and mouse lays the foundation of genome zoology
710
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51135255 2003 NUCLEIC ACIDS RESEARCH 31(10):2544-2552
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Conservation of human alternative splice events in mouse
310
5236258 2003 NUCLEIC ACIDS RESEARCH 31(13):3525-3526
Bray N; Pachter L
MAVID multiple alignment server
610
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The Arabidopsis basic/helix-loop-helix transcription factor family
010
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Biased gene conversion: implications for genome and sex evolution
310
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A new paradigm for drug discovery: integrating clinical, genetic, genomic and molecular phenotype data to identify drug targets
09
56121122 2003 GENOME RESEARCH 13(1):81-90
Mullikin JC; Ning ZM
The phusion assembler
49
571367153 2003 GENOME RESEARCH 13(12):2507-2518
Margulies EH; Blanchette M; Haussler D; Green ED
Identification and characterization of multi-species conserved sequences
79
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Pevzner P; Tesler G
Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution
59
59428291 2003 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 100(20):11484-11489
Kent WJ; Baertsch R; Hinrichs A; Miller W; Haussler D
Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
59
60560306 2003 SCIENCE 301(5634):793-797
Eichler EE; Sankoff D
Structural dynamics of eukaryotic chromosome evolution
59
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611414 2003 ACTA BIOCHIMICA POLONICA 50(1):81-102
Wlodawer A; Li M; Gustchina A; Oyama H; Dunn BM; Oda K
Structural and enzymatic properties of the sedolisin family of serine-carboxyl peptidases
08
62442193 2003 JOURNAL OF CLINICAL INVESTIGATION 111(8):1099-1106
Pennacchio LA; Rubin EM
Comparative genomic tools and databases: providing insights into the human genome
68
63147242 2003 NATURE IMMUNOLOGY 4(8):801-807
Iizuka K; Naidenko OV; Plougastel BFM; Fremont DH; Yokoyama WM
Genetically linked C-type lectin-related ligands for the NKRP1 family of natural killer cell receptors
18
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The genome sequence of Caenorhabditis briggsae: A platform for comparative genomics
48
653377 2003 AMERICAN JOURNAL OF HUMAN GENETICS 73(4):823-834
Bailey JA; Liu G; Eichler EE
An Alu transposition model for the origin and expansion of human segmental duplications
37
66210428 2003 BIOESSAYS 25(10):930-939
Mattick JS
Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms
17
67226145 2003 GENOME RESEARCH 13(7):1631-1637
Sorek R; Ast G
Intronic sequences flanking alternatively spliced exons are conserved between human and mouse
47
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Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes
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DNA methylation and Rett syndrome
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Comparative genomic analysis as a tool for biological discovery
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Genome informatics - Current status and future prospects
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Exploring new gene discoveries in idiopathic generalized epilepsy
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GALA, a database for genomic sequence alignments and annotations
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Genome function and nuclear architecture: From gene expression to nanoscience
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Millions of years of evolution preserved: A comprehensive catalog of the processed pseudogenes in the human genome
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A genome-wide survey of human pseudogenes
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96157263 2003 NUCLEIC ACIDS RESEARCH 31(16):4929-4940
Yang N; Zhang L; Zhang Y; Kazazian HH
An important role for RUNX3 in human L1 transcription and retrotransposition
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Super models
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Atypical expansion in mice of the sensory neuronspecific Mrg G protein-coupled receptor family
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Nelson DR; Zeldin DC; Hoffman SMG; Maltais LJ; Wain HM; Nebert DW
Comparison of cytochrome P450 (CYP) genes from the mouse and human genomes, including nomenclature recommendations for genes, pseudogenes and alternative-splice variants
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10014521 2003 BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 309(4):709-717
Roskoski R
STI-571: an anticancer protein-tyrosine kinase inhibitor
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