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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
View: Overview   Sorted by first author.

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#LCRNCRNode / Date / Journal / AuthorLCSGCS
101148227 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (10): 1983-1991
Gentles AJ; Kohany O; Jurka J
Evolutionary diversity and potential recombinogenic role of integration targets of non-LTR retrotransposons
03
1021158327 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
10313336 2004 GENOME RESEARCH 14 (10B): 2121-2127
Gerhard DS; Wagner L; Feingold EA; Shenmen CM; Grouse LH; et al.
The status, quality, and expansion of the NIH full-length cDNA project: The Mammalian Gene Collection (MGC)
527
104511797 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
105022666 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
106228285 2006 ACTA PHYSIOLOGICA 186 (4): 301-308
Glaab T; Hecker H; Stephan M; Baelder R; Braun A; et al.
Comparison of non-invasive measures of cholinergic and allergic airway responsiveness in rats
00
107189332 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
108143225 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (7): 1546-1554
Gogolevskaya IK; Koval AP; Kramerov DA
Evolutionary history of 4.5SH RNA
11
109144204 2005 JOURNAL OF APPLIED PHYSIOLOGY 98 (3): 838-844
Golder FJ; Zabka AG; Bavis RW; Baker-Herman T; Fuller DD; et al.
Differences in time-dependent hypoxic phrenic responses among inbred rat strains
02
110245223 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (4): 1044-1052
Good JM; Nachman MW
Rates of protein evolution are positively correlated with developmental timing of expression during mouse spermatogenesis
06
#LCRNCRNode / Date / Journal / AuthorLCSGCS
1114111243 2005 NATURE REVIEWS GENETICS 6 (9): 699-708
Gregory TR
Synergy between sequence and size in large-scale genomics
01
112228258 2005 PHYSIOLOGICAL GENOMICS 21 (1): 112-116
Grondin M; Eliopoulos V; Lambert R; Deng YS; Ariyarajah A; et al.
Complete and overlapping congenics proving the existence of a quantitative trait locus for blood pressure on Dahl rat chromosome 17
24
11313324 2004 GENE 340 (2): 303-312
Grus WE; Zhang JZ
Rapid turnover and species-specificity of vomeronasal pheromone receptor genes in mice and rats
410
114559269 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (16): 5767-5772
Grus WE; Shi P; Zhang YP; Zhang JZ
Dramatic variation of the vomeronasal pheromone receptor gene repertoire among five orders of placental and marsupial mammals
416
115259161 2005 GENOME BIOLOGY 6 (8): Art. No. r67
Haddrill PR; Charlesworth B; Halligan DL; Andolfatto P
Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content
09
1161951 2004 IMMUNOGENETICS 56 (9): 679-681
Hamann J
The EGF-TM7 family of the rat
00
117123190 2005 GLYCOBIOLOGY 15 (6): 615-624
Hamilton SR; Li HJ; Wischnewski H; Prasad A; Kerley-Hamilton JS; et al.
Intact alpha-1,2-endomannosidase is a typical type II membrane protein
00
118185105 2005 BIOESSAYS 27 (8): 775-784
Han JS; Boeke JD
LINEA retrotransposons: modulators of quantity and quality of mammalian gene expression?
04
1192319 2004 BIOESSAYS 26 (10): 1039-1042
Hancock JM
A bigger mouse? The rat genome unveiled
11
120133148 2005 GENE 345 (1): 113-118
Hancock JM; Simon M
Simple sequence repeats in proteins and their significance for network evolution
01
#LCRNCRNode / Date / Journal / AuthorLCSGCS
12115949 2004 IMMUNOGENETICS 56 (5): 343-354
Hao L; Nei M
Genomic organization and evolutionary analysis of Ly49 genes encoding the rodent natural killer cell receptors: rapid evolution by repeated gene duplication
312
122152174 2005 GENOME RESEARCH 15 (8): 1136-1144
Harada JN; Bower KE; Orth AP; Callaway S; Nelson CG; et al.
Identification of novel mammalian growth regulatory factors by genome-scale quantitative image analysis
13
123279130 2005 CHEMICAL RESEARCH IN TOXICOLOGY 18 (3): 403-414
Hayes KR; Bradfield RA
Advances in toxicogenomics
07
124124245 2005 NEUROBIOLOGY OF LEARNING AND MEMORY 84 (1): 69-73
Hermes GL; Jacobs LF; McClintock MK
The sectored foraging field: A novel design to quantify spatial strategies, learning, memory, and emotion
00
125246138 2005 CURRENT OPINION IN LIPIDOLOGY 16 (2): 179-191
Herrera VLM; Ruiz-Opazo N
Genetic studies in rat models: insights into cardiovascular disease
01
12615735 2004 GENOME RESEARCH 14 (10B): 2010-2014
Hill DE; Brasch MA; del Campo AA; Doucette-Stamm L; Garrels JI; et al.
Academia-industry collaboration: An integral element for building "omic" resources
00
127316571 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
128350233 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
210
129334242 2005 NATURE REVIEWS GENETICS 6 (8): 643-649
Hitte C; Madeoy J; Kirkness EF; Priat C; Lorentzen TD; et al.
Facilitating genome navigation: survey sequencing and dense radiation-hybrid gene mapping
13
130154206 2005 JOURNAL OF BIOLOGICAL CHEMISTRY 280 (13): 12721-12731
Hoodbhoy T; Joshi S; Boja ES; Williams SA; Stanley P; et al.
Human sperm do not bind to rat zonae pellucidae despite the presence of four homologous glycoproteins
05
#LCRNCRNode / Date / Journal / AuthorLCSGCS
13114928 2004 GENOME BIOLOGY 5 (7): Art. No. R47
Huang H; Winter EE; Wang HJ; Weinstock KG; Xing HM; et al.
Evolutionary conservation and selection of human disease gene orthologs in the rat and mouse genomes
09
132229249 2005 NUCLEIC ACIDS RESEARCH 33: D447-D453
Hubbard T; Andrews D; Caccamo M; Cameron G; Chen Y; et al.
Ensembl 2005
091
133250239 2005 NATURE GENETICS 37 (3): 243-253
Hubner N; Wallace CA; Zimdahl H; Petretto E; Schulz H; et al.
Integrated transcriptional profiling and linkage analysis for identification of genes underlying disease
858
134227322 2006 HYPERTENSION 47 (1): 1-5
Hubner N; Yagil C; Yagil Y
Novel integrative approaches to the identification of candidate genes in hypertension
00
135315339 2006 NATURE GENETICS 38 (2): 140-141
Hubner N
Expressing physiology
00
13613580 2004 OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY 8 (4): 289-305
Hunt E; Hanlon N; Leader DP; Bryce H; Dominiczak AF
The visual language of synteny
11
13715612 2004 CANADIAN JOURNAL OF PHYSIOLOGY AND PHARMACOLOGY 82 (12): 1053-1060
Hunter AL; Cruz RP; Cheyne BM; McManus BM; Granville DJ
Cytochrome p450 enzymes and cardiovascular disease
02
13815183 2004 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 101 (39): 13994-14001
Hwang DG; Green P
Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution
622
13912788 2004 TRENDS IN GENETICS 20 (11): 563-569
Itoh N; Ornitz DM
Evolution of the Fgf and Fgfr gene families
049
140129195 2005 HYPERTENSION 45 (5): 947-953
Iwai N; Yasui N; Naraba H; Tago N; Yamawaki H; et al.
Klk1 as one of the genes contributing to hypertension in Dahl salt-sensitive rat
01
#LCRNCRNode / Date / Journal / AuthorLCSGCS
141144280 2005 TOHOKU JOURNAL OF EXPERIMENTAL MEDICINE 206 (2): 163-171
Iwamoto M; Mizuiri S; Arita M; Hemmi H
Nuclear factor-kappa B activation in diabetic rat kidney: Evidence for involvement of P-selectin in diabetic nephropathy
00
142129113 2005 BIOLOGY OF REPRODUCTION 72 (2): 284-292
Iwamoto Y; Kaneko T; Ichinose J; Mori T; Shibata Y; et al.
Molecular cloning of rat Spetex2 family genes mapped on chromosome 15p16, encoding a 23-kilodalton protein associated with the plasma membranes of haploid spermatids
01
143131350 2006 THERIOGENOLOGY 65 (2): 288-298
Iwanami Y; Kobayashi T; Kato M; Hirabayashi M; Hochi S
Characteristics of rat round spermatids differentiated from spermatogonial cells during co-culture with Sertoli cells, assessed by flow cytometry, microinsemination and RT-PCR
00
14415769 2004 NATURE 431 (7011): 946-957
Jaillon O; Aury JM; Brunet F; Petit JL; Stange-Thomann N; et al.
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
13122
145184343 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
146125131 2005 CHROMOSOME RESEARCH 13 (7): 707-715
Jiang ZH; Michal JJ; Melville JS; Baltzer HL
Multi-alignment of orthologous genome regions in five species provides new insights into the evolutionary make-up of mammalian genomes
01
147130230 2005 NATURE 433 (7026): 633-638
Jordan IK; Kondrashov FA; Adzhubei IA; Wolf YI; Koonin EV; et al.
A universal trend of amino acid gain and loss in protein evolution
013
148249120 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
149521346 2006 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 103 (8): 2740-2745
Kamal M; Xie XH; Lander ES
A large family of ancient repeat elements in the human genome is under strong selection
02
150126132 2005 CIRCULATION RESEARCH 97 (3): 210-218
Kaneda R; Ueno S; Yamashita Y; Choi YL; Koinuma K; et al.
Genome-wide screening for target regions of histone deacetylases in cardiomyocytes
03
#LCRNCRNode / Date / Journal / AuthorLCSGCS
151244262 2005 PLOS BIOLOGY 3 (2): Art. No. e42
Keightley PD; Lercher MJ; Eyre-Walker A
Evidence for widespread degradation of gene control regions in hominid genomes
018
152144167 2005 GENOME RESEARCH 15 (1): 166-173
Kellner WA; Sullivan RT; Carlson BH; Thomas JW
Uprobe: A genome-wide universal probe resource for comparative physical mapping in vertebrates
01
15312962 2004 MECHANISMS OF DEVELOPMENT 121 (7-8): 903-913
Khorasani MZ; Hennig S; Imre G; Asakawa S; Palczewski S; et al.
A first generation physical map of the medaka genome in BACs essential for positional cloning and clone-by-clone based genomic sequencing
09
1544103171 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
155183145 2005 EXPERT REVIEW OF PROTEOMICS 2 (1): 27-39
Kislinger T; Emili A
Multidimensional protein identification technology: current status and future prospects
00
156144198 2005 INTEGRATIVE AND COMPARATIVE BIOLOGY 45 (3): 405-415
Koch LG; Britton SL
Divergent selection for aerobic capacity in rats as a model for complex disease
03
15715919 2004 EUROPEAN JOURNAL OF NEUROSCIENCE 20 (12): 3244-3258
Koehl A; Schmidt N; Rieger A; Pilgram SM; Letunic I; et al.
Gene expression profiling of the rat superior olivary complex using serial analysis of gene expression
12
158128184 2005 GENOMICS 85 (3): 322-329
Koelsch BU; Rajewsky MF; Kindler-Rohrborn A
A 6-Mb contig-based comparative gene and linkage map of the rat schwannoma tumor suppressor region at 10q32.3
00
1591474 2004 NATURE BIOTECHNOLOGY 22 (5): 529-531
Kola I
Putting the rat on the map
00
160135221 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (2): 193-199
Kosiol C; Goldman N
Different versions of the Dayhoff rate matrix
05
#LCRNCRNode / Date / Journal / AuthorLCSGCS
161399324 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
1622296200 2005 INTERNATIONAL REVIEW OF CYTOLOGY - A SURVEY OF CELL BIOLOGY, VOL 247 247: 165-+
Kramerov DA; Vassetzky NS
Short retroposons in eukaryotic genomes
03
163241191 2005 HUMAN MOLECULAR GENETICS 14 (15): 2221-2229
Kryukov GV; Schmidt S; Sunyaev S
Small fitness effect of mutations in highly conserved non-coding regions
04
164359301 2006 CHROMOSOME RESEARCH 14 (2): 187-202
Kuraku S; Ishijima J; Nishida-Umehara C; Agata K; Kuratani S; et al.
cDNA-based gene mapping and GC(3) profiling in the soft-shelled turtle suggest a chromosomal size-dependent GC bias shared by sauropsids
00
16516652 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
166122139 2005 DEVELOPMENTAL BRAIN RESEARCH 155 (2): 99-106
Kuwamura M; Muraguchi T; Matsui T; Ueno M; Takenaka S; et al.
Mutation at the Lmx1a locus provokes aberrant brain development in the rat
00
167277344 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
168549123 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
1696135179 2005 GENOME RESEARCH 15 (12): 1717-1728
Lazar J; Moreno C; Jacob HJ; Kwitek AE
Impact of genomics on research in the rat
00
170636293 2006 BIOESSAYS 28 (6): 569-573
Lee S; Kasif S
The complete genome sequence of a dog: a perspective
00
#LCRNCRNode / Date / Journal / AuthorLCSGCS
171152259 2005 PHYSIOLOGICAL GENOMICS 23 (1): 62-71
Lee SJ; Ways JA; Barbato JC; Essig D; Pettee K; et al.
Gene expression profiling of the left ventricles in a rat model of intrinsic aerobic running capacity
01
17212625 2004 GENE 343 (2): 239-244
Leeb T; Muller M
Comparative human-mouse-rat sequence analysis of the ICAM gene cluster on HSA 19p13.2 and a 185-kb porcine region from SSC 2q
02
173118318 2006 GENOMICS 87 (6): 772-776
Leeb T; Vogl C; Zhu BL; de Jong PJ; Binns MM; et al.
A human-horse comparative map based on equine BAC end sequences
00
174224129 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
5156
175151326 2006 JOURNAL OF NEUROPHYSIOLOGY 95 (1): 187-195
Li C; Horn JP
Physiological classification of sympathetic neurons in the rat superior cervical ganglion
00
1761472 2004 ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH 28 (11): 1622-1628
Liang TB; Habegger K; Spence JP; Foroud T; Ellison JA; et al.
Glutathione S-transferase 8-8 expression is lower in alcohol-preferring than in alcohol-nonpreferring rats
02
17714119238 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
178141276 2005 PROTEOMICS 5 (5): 1263-1273
Liu T; Qian WJ; Chen WNU; Jacobs JM; Moore RJ; et al.
Improved proteome coverage by using high efficiency cysteinyl peptide enrichment: The human mammary epithelial cell proteome
05
179258229 2005 MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS 575 (1-2): 102-115
Luhe A; Suter L; Ruepp S; Singer T; Weiser T; et al.
Toxicogenomics in the pharmaceutical industry: Hollow promises or real benefit?
04
180196134 2005 COMPUTATIONAL BIOLOGY AND CHEMISTRY 29 (1): 1-12
Makalowska I; Lin CF; Makalowski W
Overlapping genes in vertebrate genomes
05
#LCRNCRNode / Date / Journal / AuthorLCSGCS
181242152 2005 GENE 363: 51-60
Makarova JA; Kramerov DA
Noncoding RNA of U87 host gene is associated with ribosomes and is relatively resistant to nonsense-mediated decay
01
182230340 2006 NATURE GENETICS 38 (2): 234-239
Malek RL; Wang HY; Kwitek AE; Greene AS; Bhagabati N; et al.
Physiogenomic resources for rat models of heart, lung and blood disorders
12
183337266 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (9): 3354-3359
Margulies EH; Maduro VVB; Thomas PJ; Tomkins JP; Amemiya CT; et al.
Comparative sequencing provides insights about the structure and conservation of marsupial and monotreme genomes
212
184424268 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (13): 4795-4800
Margulies EH; Vinson JP; Miller W; Jaffe DB; Lindblad-Toh K; et al.
An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing
512
185625351 2006 TRENDS IN GENETICS 22 (4): 187-193
Margulies EH; Chen CW; Green ED
Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons
00
18634873 2004 NATURE 432 (7020): 988-994
Martin J; Han C; Gordon LA; Terry A; Prabhakar S; et al.
The sequence and analysis of duplication-rich human chromosome 16
211
1871185 2004 ARBOR-CIENCIA PENSAMIENTO Y CULTURA 177 (698): 285-310
Martinez JMR
Genome sequencing
00
188125203 2005 JOURNAL OF APPLIED PHYSIOLOGY 98 (1): 371-379
Mashimo T; Voigt B; Kuramoto T; Serikawa T
Rat Phenome Project: The untapped potential of existing rat strains
35
189231297 2006 BMC GENETICS 7: Art. No. 19
Mashimo T; Voigt B; Tsurumi T; Naoi K; Nakanishi S; et al.
A set of highly informative rat simple sequence length polymorphism (SSLP) markers and genetically defined rat strains
00
190180220 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
#LCRNCRNode / Date / Journal / AuthorLCSGCS
191121271 2005 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (22): 7900-7905
McAuliffe JD; Jordan MI; Pachter L
Subtree power analysis and species selection for comparative genomics
11
192135194 2005 HYPERTENSION 45 (4): 786-792
McBride MW; Brosnan MJ; Mathers J; McLellan LI; Miller WH; et al.
Reduction of Gstm1 expression in the stroke-prone spontaneously hypertension rat contributes to increased oxidative stress
15
193874303 2006 CURRENT OPINION IN NEPHROLOGY AND HYPERTENSION 15 (2): 145-151
McBride MW; Graham D; Delles C; Dominiczak AF
Functional genomics in hypertension
00
194147122 2005 BMC EVOLUTIONARY BIOLOGY 5: Art. No. 39
McLellan AS; Zimmermann W; Moore T
Conservation of pregnancy-specific glycoprotein (PSG) N domains following independent expansions of the gene families in rodents and primates
02
19515878 2004 NATURE REVIEWS GENETICS 5 (8): 578-U1
Meyers BC; Scalabrin S; Morgante M
Mapping and sequencing complex genomes: Let's get physical!
113
1966172235 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
19711933 2004 ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS 5: 15-56
Miller W; Makova KD; Nekrutenko A; Hardison RC
Comparative genomics
1131
198135168 2005 GENOME RESEARCH 15 (2): 292-301
Milosavljevic A; Harris RA; Sodergren EJ; Jackson AR; Kalafus KJ; et al.
Pooled genomic indexing of rhesus macaque
01
19914995 2005 ANALYTICAL BIOCHEMISTRY 346 (2): 268-280
Mimaki S; Mori-Furukawa Y; Katsuno H; Kishimoto T
A transcriptional regulatory element screening system reveals a novel E2F1/pRb transcription regulation pathway
00
200234222 2005 MOLECULAR BIOLOGY AND EVOLUTION 22 (2): 360-366
Misceo D; Cardone MF; Carbone L; D'Addabbo P; de Jong PJ; et al.
Evolutionary history of chromosome 20
01

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