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Mon Jul 31 15:56:18 2006

Hillier LW, Miller W, Birney E, et al.
Sequence and comparative analysis of the chicken genome
provide unique perspectives on vertebrate evolution
NATURE 432 (7018): 695-716 DEC 9 2004
and the citing papers
Nodes: 203, Authors: 1483, Journals: 94, Outer References: 8307, Words: 911
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Collection span: 2004 - 2006
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#LCRNCRNode / Date / Journal / AuthorLCSGCS
11181 2004 BMC GENOMICS 5: Art. No. 98
Wahl MB; Caldwell RB; Kierzek AM; Arakawa H; Eyras E; et al.
Evaluation of the chicken transcriptome by SAGE of B cells and the DT40 cell line
02
201652 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
202202
3143 2004 NATURE 432 (7019): 799-799
Miller MM
Genome news highlights loss of chicken strains - Future research is already under threat, as budget cuts wipe out irreplaceable lines.
35
411594 2005 ADVANCES IN PARASITOLOGY, VOL 60 60: 285-330
Shirley MW; Smith AL; Tomley FM
The biology of avian Eimeria with an emphasis on their control by vaccination
01
511455 2005 ANAIS DA ACADEMIA BRASILEIRA DE CIENCIAS 77 (4): 627-650
Salzano FM
Evolutionary change - patterns and processes
00
62106 2005 ANIMAL BIOTECHNOLOGY 16 (2): 81-102
Reed KM; Knutson TP; Krueth SB; Sullivan LR; Chaves LD
In silco mapping of ESTs from the Turkey (Meleagris gallopavo)
00
71177 2005 ANIMAL GENETICS 36 (3): 216-222
Aerts JA; Veenendaal T; van der Poel JJ; Crooijmans RPMA; Groenen MAM
Chromosomal assignment of chicken clone contigs by extending the consensus linkage map
01
81328 2005 ANIMAL GENETICS 36 (5): 396-400
Miwa M; Inoue-Murayama M; Kayang BB; Minvielle F; Monvoisin JL; et al.
Mapping of plumage colour and blood protein loci on the microsatellite linkage map of the Japanese quail
13
91399 2005 ANIMAL GENETICS 36 (5): 401-407
Beaumont C; Roussot O; Feve K; Vignoles F; Leroux S; et al.
A genome scan with AFLP((TM)) markers to detect fearfulness-related QTLs in Japanese quail
00
101410 2005 ANIMAL GENETICS 36 (5): 438-443
Reed KM
In silico comparative mapping of 278 genomic survey sequences from the turkey (Meleagris gallopavo)
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
1114211 2005 ANIMAL GENETICS 36 (6): 468-476
Rabie TSKM; Crooijmans RPMA; Bovenhuis H; Vereijken ALJ; Veenendaal T; et al.
Genetic mapping of quantitative trait loci affecting susceptibility in chicken to develop pulmonary hypertension syndrome
00
12110212 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
13
13211713 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
1417714 2005 ANNUAL REVIEW OF MICROBIOLOGY 59: 191-209
Snel B; Huynen MA; Dutilh BE
Genome trees and the nature of genome evolution
06
1518615 2005 AUSTRALIAN JOURNAL OF EXPERIMENTAL AGRICULTURE 45 (7-8): 749-756
Moore RJ; Doran TJ; Wise TG; Riddell S; Granger K; et al.
Chicken functional genomics: an overview
00
1613316 2005 AVIAN PATHOLOGY 34 (4): 324-331
Zhang HM; Bacon LD; Cheng HH; Hunt HD
Development and validation of a PCR-RFLP assay to evaluate TVB haplotypes coding receptors for subgroup B and subgroup E avian leukosis viruses in White Leghorns
00
1712317 2005 BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS 1734 (2): 136-142
Matsuyama H; Sato K; Nakamura Y; Suzuki K; Akiba Y
Modulation of regulatory factors involved in cholesterol metabolism in response to feeding of pravastatin-or cholesterol-supplemented diet in chickens
00
1811618 2005 BIOFUTUR (254): 24-28
Esnault Y; Jaillon O; Aury JM; Weissenbach J; Crollius HR
Tetraodon, fish in the genomic model
01
1913319 2005 BMC BIOINFORMATICS 6: Art. No. 131
Eyras E; Reymond A; Castelo R; Bye JM; Camara F; et al.
Gene finding in the chicken genome
02
2014920 2005 BMC BIOLOGY 3: Art. No. 2
Jorgensen FG; Hobolth A; Hornshoj H; Bendixen C; Fredholm M; et al.
Comparative analysis of protein coding sequences from human, mouse and the domesticated pig
04
#LCRNCRNode / Date / Journal / AuthorLCSGCS
2114921 2005 BMC EVOLUTIONARY BIOLOGY 5: Art. No. 40
Laukaitis CM; Dlouhy SR; Emes RD; Ponting CP; Karn RC
Diverse spatial, temporal, and sexual expression of recently duplicated androgen-binding protein genes in Mus musculus
00
2215522 2005 BMC EVOLUTIONARY BIOLOGY 5: Art. No. 54
Winter EE; Ponting CP
Mammalian BEX, WEX and GASP genes: Coding and non-coding chimaerism sustained by gene conversion events
00
2314823 2005 BMC GENOMICS 6: Art. No. 41
Niskanen EA; Hytonen VP; Grapputo A; Nordlund HR; Kulomaa MS; et al.
Chicken genome analysis reveals novel genes encoding biotin-binding proteins related to avidin family
01
2415724 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
2533825 2005 BMC GENOMICS 6: Art. No. 167
Kaiserman D; Bird PI
Analysis of vertebrate genomes suggests a new model for clade B serpin evolution
00
2612426 2005 CELL 120 (1): 15-20
Lewis BP; Burge CB; Bartel DP
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
5158
27122327 2005 CHROMOSOMA 114 (4): 212-229
Foster HA; Bridger JM
The genome and the nucleus: a marriage made by evolution - Genome organisation and nuclear architecture
01
2812828 2005 CHROMOSOMA 114 (5): 338-343
de Oliveira EHC; Habermann FA; Lacerda O; Sbalqueiro IJ; Wienberg J; et al.
Chromosome reshuffling in birds of prey: the karyotype of the world's largest eagle (Harpy eagle, Harpia harpyja) compared to that of the chicken (Gallus gallus)
11
2913429 2005 CHROMOSOME RESEARCH 13 (2): 205-214
Bisoni L; Batlle-Morera L; Bird AP; Suzuki M; McQueen HA
Female-specific hyperacetylation of histone H4 in the chicken Z chromosome
12
3012030 2005 CHROMOSOME RESEARCH 13 (2): 215-222
Romanov MN; Daniels LM; Dodgson JB; Delany ME
Integration of the cytogenetic and physical maps of chicken chromosome 17
11
#LCRNCRNode / Date / Journal / AuthorLCSGCS
3134831 2005 CHROMOSOME RESEARCH 13 (6): 581-591
Rodrigue KL; May BP; Famula TR; Delany ME
Meiotic instability of chicken ultra-long telomeres and mapping of a 2.8 megabase array to the W-sex chromosome
00
3214932 2005 CHROMOSOME RESEARCH 13 (6): 601-615
Matsuda Y; Nishida-Umehara C; Tarui H; Kuroiwa A; Yamada K; et al.
Highly conserved linkage homology between birds and turtles: Bird and turtle chromosomes are precise counterparts of each other
23
3313133 2005 CHROMOSOME RESEARCH 13 (7): 665-673
Coullin P; Bed'Hom B; Candelier JJ; Vettese D; Maucolin S; et al.
Cytogenetic repartition of chicken CR1 sequences evidenced by PRINS in Galliformes and some other birds
00
3413434 2005 CHROMOSOME RESEARCH 13 (8): 785-793
Federico C; Cantarella CD; Scavo C; Saccone S; Bed'Hom B; et al.
Avian genomes: different karyotypes but a similar distribution of the GC-richest chromosome regions at interphase
01
3522335 2005 COMPARATIVE AND FUNCTIONAL GENOMICS 6 (5-6): 301-306
Hartman S; Touchton G; Wynn J; Geng T; Chong NW; et al.
Characterization of expressed sequence tags from a Gallus gallus pineal gland cDNA library
00
36212836 2005 CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY 40 (6): 313-330
Khil PR; Camerini-Otero RD
Molecular features and functional constraints in the evolution of the mammalian X chromosome
00
3714337 2005 CURRENT GENOMICS 6 (2): 75-80
Smith EJ; Kamara D; Pimentel G; Geng T; Guan X; et al.
Avian genomes: Important resources for understanding vertebrate biology
00
3814238 2005 CURRENT OPINION IN GENETICS & DEVELOPMENT 15 (3): 294-300
Lettice LA; Hill RE
Preaxial polydactyly: a model for defective long-range regulation in congenital abnormalities
02
3934739 2005 CURRENT OPINION IN GENETICS & DEVELOPMENT 15 (6): 645-651
Fraser JA; Heitman J
Chromosomal sex-determining regions in animals, plants and fungi
02
40137140 2005 CYTOGENETIC AND GENOME RESEARCH 109 (4): 415-479
Schmid M; Nanda I; Hoehn H; Schartl M; Haaf T; et al.
Second report on chicken genes and chromosomes 2005
22
#LCRNCRNode / Date / Journal / AuthorLCSGCS
4113041 2005 CYTOGENETIC AND GENOME RESEARCH 111 (2): 118-127
Reed KM; Chaves LD; Hall MK; Knutson TP; Harry DE
A comparative genetic map of the turkey genome
45
4214242 2005 DEVELOPMENTAL BIOLOGY 285 (1): 80-90
Dai FP; Yusuf F; Farjah GH; Brand-Saberi B
RNAi-induced targeted silencing of developmental control genes during chicken embryogenesis
11
4314243 2005 DEVELOPMENTAL BIOLOGY 286 (2): 601-617
Matsumata M; Uchikawa M; Kamachi Y; Kondoh H
Multiple N-cadherin enhancers identified by systematic functional screening indicate its Group B1SOX-dependent regulation in neural and placodal development
01
4416444 2005 DEVELOPMENTAL CELL 8 (1): 9-17
Stern CD
The chick: A great model system becomes even greater
310
4512545 2005 DEVELOPMENTAL DYNAMICS 232 (4): 877-882
Antin PB; Konieczka JH
Genomic resources for chicken
12
4612946 2005 EUROPEAN JOURNAL OF CELL BIOLOGY 84 (6): 623-635
Zimek A; Weber K
Terrestrial vertebrates have two keratin gene clusters; striking differences in teleost fish
13
471347 2005 FEBS JOURNAL 272: 117-117
Antonarakis SE
The mystery of conserved non-genic (CNG) sequences
00
4815048 2005 FEBS LETTERS 579 (15): 3355-3361
Zdobnov EM; von Mering C; Letunic I; Bork P
Consistency of genome-based methods in measuring Metazoan evolution
12
4917749 2005 GENE 359: 1-17
Edelstein LC; Collins T
The SCAN domain family of zinc finger transcription
00
5011450 2005 GENE 362: 117-124
Benkel BF; Nguyen T; Uno Y; de Leon FAP; Hickey DA
Structural organization and chromosomal location of the chicken alpha-amylase gene family
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
5115151 2005 GENETICAL RESEARCH 86 (2): 115-125
Jacobsson L; Park HB; Wahlberg P; Fredriksson R; Perez-Enciso M; et al.
Many QTLs with minor additive effects are associated with a large difference in growth between two selection lines in chickens
12
5213752 2005 GENETICS 170 (1): 313-326
Go Y; Satta Y; Takenaka O; Takahata N
Lineage-specific loss of function of bitter taste receptor genes in humans and nonhuman primates
28
5313653 2005 GENETICS 171 (3): 1173-1181
Heifetz EM; Fulton JE; O'Sullivan N; Zhao H; Dekkers JCM; et al.
Extent and consistency across generations of linkage disequilibrium in commercial layer chicken breeding populations
00
5413354 2005 GENOME BIOLOGY 6 (1): Art. No. R6
Caldwell RB; Kierzek AM; Arakawa H; Bezzubov Y; Zaim J; et al.
Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis
06
5511555 2005 GENOME BIOLOGY 6 (2): Art. No. 207
Furlong RF
Insights into vertebrate evolution from the chicken genome sequence
00
5613956 2005 GENOME BIOLOGY 6 (7): Art. No. 115
Aloni R; Lancet D
Conservation anchors in the vertebrate genome
00
5716357 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
5849258 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
59110359 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
6012960 2005 GENOME RESEARCH 15 (10): 1373-1378
Keightley PD; Kryukov GV; Sunyaev S; Halligan DL; Gaffney DJ
Evolutionary constraints in conserved nongenic sequences of mammals
03
#LCRNCRNode / Date / Journal / AuthorLCSGCS
61106061 2005 GENOME RESEARCH 15 (12): 1692-1698
Burt DW
Chicken genome: Current status and future opportunities
00
6217062 2005 GENOME RESEARCH 15 (12): 1777-1786
Brent MR
Genome annotation past, present, and future: How to define an ORF at each locus
01
6316063 2005 GENOME RESEARCH 15 (12): 1787-1797
Webber C; Ponting CP
Hotspots of mutation and breakage in dog and human chromosomes
00
6415664 2005 GENOMICS 86 (5): 566-580
Zebhauser R; Kammerer R; Eisenried A; McLellan A; Moore T; et al.
Identification of a novel group of evolutionarily conserved members within the rapidly diverging murine Cea family
03
6516765 2005 GENOMICS 86 (6): 731-738
Liu WS; Eyer K; Yasue H; Roelofs B; Hiraiwa H; et al.
A 12,000-rad porcine radiation hybrid (IMNpRH2) panel refines the conserved synteny between SSC12 and HSA17
00
6611166 2005 GENOMICS 86 (6): 767-770
Haig D
The complex history of distal human chromosome 1q
02
6719367 2005 GROWTH FACTORS 23 (4): 263-272
Clump DA; Qazi IH; Sudol M; Flynn DC
c-Yes response to growth factor activation
00
681568 2005 HEREDITY 94 (6): 567-568
Jensen P
Genomics - The chicken genome sequence
00
6914269 2005 HUMAN MOLECULAR GENETICS 14 (20): 3057-3063
Ahituv N; Prabhakar S; Rubin EM; Couronne O
Mapping cis-regulatory domains in the human genome using multi-species conservation of synteny
02
7026370 2005 IMMUNOGENETICS 57 (8): 590-600
Maruoka T; Tanabe H; Chiba M; Kasahara M
Chicken CD1 genes are located in the MHC: CD1 and endothelial protein C receptor genes constitute a distinct subfamily of class-I-like genes that predates the emergence of mammals
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
71114171 2005 IMMUNOLOGICAL INVESTIGATIONS 34 (3): 295-323
Appenheimer MM; Chen Q; Girard RA; Wang WC; Evans SS
Impact of fever-range thermal stress on lymphocyte-endothelial adhesion and lymphocyte trafficking
01
7214172 2005 INTERNATIONAL JOURNAL OF DEVELOPMENTAL BIOLOGY 49 (2-3): 231-235
Nakamura H; Watanabe Y
Isthmus organizer and regionalization of the mesencephalon and metencephalon
01
7313273 2005 JOURNAL OF BIOLOGICAL CHEMISTRY 280 (39): 33506-33515
Karakas E; Wilson HL; Graf TN; Xiang S; Jaramillo-Buswuets S; et al.
Structural insights into sulfite oxidase deficiency
02
7414974 2005 JOURNAL OF IMMUNOLOGY 174 (8): 4998-5006
Lynch NJ; Khan SUH; Stover CM; Sandrini SM; Marston D; et al.
Composition of the lectin pathway of complement in Gallus gallus: Absence of mannan-binding lectin-associated serine protease-1 in birds
01
7514775 2005 JOURNAL OF IMMUNOLOGY 175 (1): 385-393
Viertlboeck BC; Habermann FA; Schmitt R; Groenen MAM; Du Pasquier L; et al.
The chicken leukocyte receptor complex: A highly diverse multigene family encoding at least six structurally distinct receptor types
24
7614476 2005 JOURNAL OF IMMUNOLOGY 175 (3): 1724-1734
Oshiumi H; Shida K; Goitsuka R; Kimura Y; Katoh J; et al.
Regulator of complement activation (RCA) locus in chicken: Identification of chicken RCA gene cluster and functional RCA proteins
00
7716577 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
7816878 2005 JOURNAL OF NEUROBIOLOGY 64 (2): 224-238
Wade J; Tang YP; Peabody C; Tempelman RJ
Enhanced gene expression in the forebrain of hatchling and juvenile male zebra finches
01
7915979 2005 JOURNAL OF VIROLOGY 79 (16): 10408-10419
Elleder D; Stepanets V; Melder DC; Senigl F; Geryk J; et al.
The receptor for the subgroup C avian sarcoma and leukosis viruses, Tvc, is related to mammalian butyrophilins, members of the immunoglobulin superfamily
03
8013380 2005 JOURNAL OF VIROLOGY 79 (18): 12035-12044
Barr SD; Leipzig J; Shinn P; Ecker JR; Bushman FD
Integration targeting by avian sarcoma-leukosis virus and human immunodeficiency virus in the chicken genome
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
8115381 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (10): 1992-1999
Backstrom N; Ceplitis H; Berlin S; Ellegren H
Gene conversion drives the evolution of HINTW, an ampliconic gene on the female-specific avian W chromosome
12
8214582 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (11): 2198-2208
Cusack BP; Wolfe KH
Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons
17
83112183 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (11): 2275-2284
Blair JE; Hedges SB
Molecular phylogeny and divergence times of deuterostome animals
07
841184 2005 NATURE 433 (7027): 777-777
[Anon]
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution (vol 432, pg 695, 2004)
00
8516785 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
8615086 2005 NATURE 434 (7034): 724-731
Hillier LW; Graves TA; Fulton RS; Fulton LA; Pepin KH; et al.
Generation and annotation of the DNA sequences of human chromosomes 2 and 4
310
87117287 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
490
8823488 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
13
89411989 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
329
901190 2005 NATURE BIOTECHNOLOGY 23 (3): 283-285
Dove AW
Clone on the range: What animal biotech is bringing to the table
02
#LCRNCRNode / Date / Journal / AuthorLCSGCS
9122691 2005 NATURE GENETICS 37 (5): 495-500
Krek A; Grun D; Poy MN; Wolf R; Rosenberg L; et al.
Combinatorial microRNA target predictions
168
9221492 2005 NATURE GENETICS 37 (10): 1041-1043
Itoh T; Toyoda A; Taylor TD; Sakaki Y; Hattori M
Identification of large ancient duplications associated with human gene deserts
00
931493 2005 NATURE REVIEWS GENETICS 6 (1): 4-5
Gunter C
Genomics - Pecking away at evolution
00
94111194 2005 NATURE REVIEWS GENETICS 6 (9): 699-708
Gregory TR
Synergy between sequence and size in large-scale genomics
01
95210395 2005 NEURON 48 (3): 455-464
Scott K
Taste recognition: Food for thought
02
9612196 2005 NUCLEIC ACIDS RESEARCH 33 (6): 1935-1939
Castelo R; Reymond A; Wyss C; Camara F; Parra G; et al.
Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes
23
9714397 2005 NUCLEIC ACIDS RESEARCH 33 (14): 4563-4577
Flannick J; Batzoglou S
Using multiple alignments to improve seeded local alignment algorithms
01
9811898 2005 PERIODICUM BIOLOGORUM 107 (4): 379-383
Juretic D; Lucic B; Trinajstic N
Why focusing on bioinformatics?
00
9911799 2005 PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES 360 (1459): 1365-1366
Charlesworth B; Keightley P; Visscher P
Introduction: Population genetics, quantitative genetics and animal improvement: papers in honour of William (Bill) Hill
00
100138100 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

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