HistCite - Initial sequencing and analysis of the human genome (Lander)

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#	Date / Author / Journal	LCS	GCS	LCR	CR
1	69 Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, et al. Initial sequencing and analysis of the human genome NATURE. 2001 FEB 15; 409 (6822): 860-921	7359	7358	7	450
2	79 Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, et al. The sequence of the human genome SCIENCE. 2001 FEB 16; 291 (5507): 1304-+	3120	5111	2	192
3	1865 Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, et al. Initial sequencing and comparative analysis of the mouse genome NATURE. 2002 DEC 5; 420 (6915): 520-562	1083	2474	43	331
4	3413 Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, et al. Genome sequence of the Brown Norway rat yields insights into mammalian evolution NATURE. 2004 APR 1; 428 (6982): 493-521	269	752	58	226
5	3826 Collins FS, Lander ES, Rogers J, Waterston RH, Int Human Genome Sequencing Conso Finishing the euchromatic sequence of the human genome NATURE. 2004 OCT 21; 431 (7011): 931-945	232	901	31	71
6	1150 Kent WJ BLAT - The BLAST-like alignment tool GENOME RESEARCH. 2002 APR; 12 (4): 656-664	206	1355	1	20
7	1584 Aparicio S, Chapman J, Stupka E, Putnam N, Chia J, et al. Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes SCIENCE. 2002 AUG 23; 297 (5585): 1301-1310	184	720	6	97
8	1265 Batzer MA, Deininger PL Alu repeats and human genomic diversity NATURE REVIEWS GENETICS. 2002 MAY; 3 (5): 370-379	175	361	7	124
9	2733 Dewannieux M, Esnault C, Heidmann T LINE-mediated retrotransposition of marked Alu sequences NATURE GENETICS. 2003 SEP; 35 (1): 41-48	169	236	7	49
10	4604 Mikkelsen TS, Hillier LW, Eichler EE, Zody MC, Jaffe DB, et al. Initial sequence of the chimpanzee genome and comparison with the human genome NATURE. 2005 SEP 1; 437 (7055): 69-87	158	580	38	172
#	Date / Author / Journal	LCS	GCS	LCR	CR
11	10 Ostertag EM, Kazazian HH Biology of mammalian L1 retrotransposons ANNUAL REVIEW OF GENETICS. 2001; 35: 501-538	149	268	1	237
12	896 Modrek B, Lee C A genomic view of alternative splicing NATURE GENETICS. 2002 JAN; 30 (1): 13-19	146	609	3	39
13	3350 Kazazian HH Mobile elements: Drivers of genome evolution SCIENCE. 2004 MAR 12; 303 (5664): 1626-1632	146	410	27	84
14	3953 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 NATURE. 2004 DEC 9; 432 (7018): 695-716	143	697	43	165
15	1570 Bailey JA, Gu ZP, Clark RA, Reinert K, Samonte RV, et al. Recent segmental duplications in the human genome SCIENCE. 2002 AUG 9; 297 (5583): 1003-1007	142	488	9	25
16	1866 Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, et al. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs NATURE. 2002 DEC 5; 420 (6915): 563-573	128	619	13	52
17	2105 Karolchik D, Baertsch R, Diekhans M, Furey TS, Hinrichs A, et al. The UCSC Genome Browser Database NUCLEIC ACIDS RESEARCH. 2003 JAN 1; 31 (1): 51-54	127	694	4	12
18	2370 Brouha B, Schustak J, Badge RM, Lutz-Prigget S, Farley AH, et al. Hot L1s account for the bulk of retrotransposition in the human population PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 APR 29; 100 (9): 5280-5285	121	146	9	41
19	70 McPherson JD, Marra M, Hillier L, Waterston RH, Chinwalla A, et al. A physical map of the human genome NATURE. 2001 FEB 15; 409 (6822): 934-941	119	394	3	46
20	2970 Johnson JM, Castle J, Garrett-Engele P, Kan ZY, Loerch PM, et al. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays SCIENCE. 2003 DEC 19; 302 (5653): 2141-2144	114	607	9	20
#	Date / Author / Journal	LCS	GCS	LCR	CR
21	2968 Gibbs RA, Belmont JW, Hardenbol P, Willis TD, Yu FL, et al. The International HapMap Project NATURE. 2003 DEC 18; 426 (6968): 789-796	110	1480	7	68
22	1568 Gilbert N, Lutz-Prigge S, Moran JV Genomic deletions created upon LINE-1 retrotransposition CELL. 2002 AUG 9; 110 (3): 315-325	107	164	6	39
23	1465 Kong A, Gudbjartsson DF, Sainz J, Jonsdottir GM, Gudjonsson SA, et al. A high-resolution recombination map of the human genome NATURE GENETICS. 2002 JUL; 31 (3): 241-247	105	824	6	26
24	1569 Symer DE, Connelly C, Szak ST, Caputo EM, Cost GJ, et al. Human L1 retrotransposition is associated with genetic instability in vivo CELL. 2002 AUG 9; 110 (3): 327-338	104	152	6	35
25	2681 Thomas JW, Touchman JW, Blakesley RW, Bouffard GG, Beckstrom-Sternberg SM, et al. Comparative analyses of multi-species sequences from targeted genomic regions NATURE. 2003 AUG 14; 424 (6950): 788-793	101	370	6	30
26	4775 Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, et al. Genome sequence, comparative analysis and haplotype structure of the domestic dog NATURE. 2005 DEC 8; 438 (7069): 803-819	100	470	26	119
27	1442 Sorek R, Ast G, Graur D Alu-containing exons are alternatively spliced GENOME RESEARCH. 2002 JUL; 12 (7): 1060-1067	98	188	4	25
28	183 Bailey JA, Yavor AM, Massa HF, Trask BJ, Eichler EE Segmental duplications: Organization and impact within the current Human Genome Project assembly GENOME RESEARCH. 2001 JUN; 11 (6): 1005-1017	97	253	4	40
29	2366 Collins FS, Green ED, Guttmacher AE, Guyer MS A vision for the future of genomics research NATURE. 2003 APR 24; 422 (6934): 835-847	97	574	5	44
30	934 Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, et al. Functional organization of the yeast proteome by systematic analysis of protein complexes NATURE. 2002 JAN 10; 415 (6868): 141-147	96	1784	1	46
#	Date / Author / Journal	LCS	GCS	LCR	CR
31	916 Hubbard T, Barker D, Birney E, Cameron G, Chen Y, et al. The Ensembl genome database project NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 38-41	95	471	1	15
32	342 Hogenesch JB, Ching KA, Batalov S, Su AI, Walker JR, et al. A comparison of the Celera and Ensembl predicted gene sets reveals little overlap in novel genes CELL. 2001 AUG 24; 106 (4): 413-415	91	142	2	16
33	1048 Wood V, Gwilliam R, Rajandream MA, Lyne M, Lyne R, et al. The genome sequence of Schizosaccharomyces pombe NATURE. 2002 FEB 21; 415 (6874): 871-880	87	620	2	78
34	1872 Dehal P, Satou Y, Campbell RK, Chapman J, Degnan B, et al. The draft genome of Ciona intestinalis: Insights into chordate and vertebrate origins SCIENCE. 2002 DEC 13; 298 (5601): 2157-2167	86	709	4	90
35	3500 Han JS, Szak ST, Boeke JD Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes NATURE. 2004 MAY 20; 429 (6989): 268-274	84	130	10	50
36	2917 Deininger PL, Moran JV, Batzer MA, Kazazian HH Mobile elements and mammalian genome evolution CURRENT OPINION IN GENETICS & DEVELOPMENT. 2003 DEC; 13 (6): 651-658	83	136	30	59
37	2445 Lev-Maor G, Sorek R, Shomron N, Ast G The birth of an alternatively spliced exon: 3 ' splice-site selection in Alu exons SCIENCE. 2003 MAY 23; 300 (5623): 1288-1291	82	157	3	26
38	1777 Cost GJ, Feng QH, Jacquier A, Boeke JD Human L1 element target-primed reverse transcription in vitro EMBO JOURNAL. 2002 NOV 1; 21 (21): 5899-5910	81	109	5	52
39	4043 Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, et al. Repbase update, a database of eukaryotic repetitive elements CYTOGENETIC AND GENOME RESEARCH. 2005; 110 (1-4): 462-467	81	277	7	36
40	2182 Jordan IK, Rogozin IB, Glazko GV, Koonin EV Origin of a substantial fraction of human regulatory sequences from transposable elements TRENDS IN GENETICS. 2003 FEB; 19 (2): 68-72	78	172	2	22
#	Date / Author / Journal	LCS	GCS	LCR	CR
41	2767 Bailey JA, Liu G, Eichler EE An Alu transposition model for the origin and expansion of human segmental duplications AMERICAN JOURNAL OF HUMAN GENETICS. 2003 OCT; 73 (4): 823-834	75	159	11	37
42	2804 van de Lagemaat LN, Landry JR, Mager DL, Medstrand P Transposable elements in mammals promote regulatory variation and diversification of genes with specialized functions TRENDS IN GENETICS. 2003 OCT; 19 (10): 530-536	75	139	9	26
43	65 Li WH, Gu ZL, Wang HD, Nekrutenko A Evolutionary analyses of the human genome NATURE. 2001 FEB 15; 409 (6822): 847-849	72	192	1	5
44	245 Eyre-Walker A, Hurst LD The evolution of isochores NATURE REVIEWS GENETICS. 2001 JUL; 2 (7): 549-555	72	164	2	63
45	1679 Medstrand P, van de Lagemaat LN, Mager DL Retroelement distributions in the human genome: Variations associated with age and proximity to genes GENOME RESEARCH. 2002 OCT; 12 (10): 1483-1495	72	105	8	47
46	1880 Strausberg RL, Feingold EA, Grouse LH, Derge JG, Klausner RD, et al. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 DEC 24; 99 (26): 16899-16903	72	801	4	18
47	5921 Birney E, Stamatoyannopoulos JA, Dutta A, Guigo R, Gingeras TR, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project NATURE. 2007 JUN 14; 447 (7146): 799-816	72	671	31	128
48	3512 Bejerano G, Pheasant M, Makunin I, Stephen S, Kent WJ, et al. Ultraconserved elements in the human genome SCIENCE. 2004 MAY 28; 304 (5675): 1321-1325	71	374	13	37
49	3828 Feingold EA, Good PJ, Guyer MS, Kamholz S, Liefer L, et al. The ENCODE (ENCyclopedia of DNA elements) Project SCIENCE. 2004 OCT 22; 306 (5296): 636-640	71	365	12	28
50	73 Cheung VG, Nowak N, Jang W, Kirsch IR, Zhao S, et al. Integration of cytogenetic landmarks into the draft sequence of the human genome NATURE. 2001 FEB 15; 409 (6822): 953-958	70	174	3	30
#	Date / Author / Journal	LCS	GCS	LCR	CR
51	261 Dehal P, Predki P, Olsen AS, Kobayashi A, Folta P, et al. Human chromosome 19 and related regions in mouse: Conservative and lineage-specific evolution SCIENCE. 2001 JUL 6; 293 (5527): 104-111	70	151	2	35
52	473 Daly MJ, Rioux JD, Schaffner SE, Hudson TJ, Lander ES High-resolution haplotype structure in the human genome NATURE GENETICS. 2001 OCT; 29 (2): 229-232	70	895	3	25
53	897 Brett D, Pospisil H, Valcarcel J, Reich J, Bork P Alternative splicing and genome complexity NATURE GENETICS. 2002 JAN; 30 (1): 29-30	70	212	1	12
54	1167 Cartegni L, Chew SL, Krainer AR Listening to silence and understanding nonsense: Exonic mutations that affect splicing NATURE REVIEWS GENETICS. 2002 APR; 3 (4): 285-298	70	781	5	149
55	1677 Deininger PL, Batzer MA Mammalian Retroelements GENOME RESEARCH. 2002 OCT; 12 (10): 1455-1465	70	137	5	105
56	2496 Modrek B, Lee CJ Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss NATURE GENETICS. 2003 JUN; 34 (2): 177-180	70	266	4	18
57	165 Reich DE, Cargill M, Bolk S, Ireland J, Sabeti PC, et al. Linkage disequilibrium in the human genome NATURE. 2001 MAY 10; 411 (6834): 199-204	69	775	1	35
58	1016 Stankiewicz P, Lupski JR Genome architecture, rearrangements and genomic disorders TRENDS IN GENETICS. 2002 FEB; 18 (2): 74-82	67	337	13	83
59	1776 Kajikawa M, Okada N LINEs mobilize SINEs in the eel through a shared 3 ' sequence CELL. 2002 NOV 1; 111 (3): 433-444	67	122	4	54
60	923 Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, et al. The Pfam Protein Families Database NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 276-280	64	1376	1	17
#	Date / Author / Journal	LCS	GCS	LCR	CR
61	1493 Maniatis T, Tasic B Alternative pre-mRNA splicing and proteome expansion in metazoans NATURE. 2002 JUL 11; 418 (6894): 236-243	62	349	14	96
62	3307 Kampa D, Cheng J, Kapranov P, Yamanaka M, Brubaker S, et al. Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22 GENOME RESEARCH. 2004 MAR; 14 (3): 331-342	62	276	10	34
63	717 Deloukas P, Matthews LH, Ashurst J, Burton J, Gilbert JGR, et al. The DNA sequence and comparative analysis of human chromosome 20 NATURE. 2001 DEC 20; 414 (6866): 865-U3	61	115	4	38
64	198 Salzberg SL, White O, Peterson J, Eisen JA Microbial genes in the human genome: Lateral transfer or gene loss? SCIENCE. 2001 JUN 8; 292 (5523): 1903-1906	58	119	2	23
65	1316 Mural RJ, Adams MD, Myers EW, Smith HO, Miklos GLG, et al. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome SCIENCE. 2002 MAY 31; 296 (5573): 1661-1671	58	184	5	56
66	2062 Hardison RC, Roskin KM, Yang S, Diekhans M, Kent WJ, et al. Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution GENOME RESEARCH. 2003 JAN; 13 (1): 13-26	58	151	12	87
67	3426 Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, et al. A gene atlas of the mouse and human protein-encoding transcriptomes PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 APR 20; 101 (16): 6062-6067	58	820	8	36
68	4402 Cheng J, Kapranov P, Drenkow J, Dike S, Brubaker S, et al. Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution SCIENCE. 2005 MAY 20; 308 (5725): 1149-1154	58	346	15	35
69	587 Eichler EE Recent duplication, domain accretion and the dynamic mutation of the human genome TRENDS IN GENETICS. 2001 NOV; 17 (11): 661-669	57	162	7	69
70	912 Bird A DNA methylation patterns and epigenetic memory GENES & DEVELOPMENT. 2002 JAN 1; 16 (1): 6-21	57	1224	4	202
#	Date / Author / Journal	LCS	GCS	LCR	CR
71	2437 Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES Sequencing and comparison of yeast species to identify genes and regulatory elements NATURE. 2003 MAY 15; 423 (6937): 241-254	57	824	5	50
72	327 Carroll ML, Roy-Engel AM, Nguyen SV, Salem AH, Vogel E, et al. Large-scale analysis of the Alu Ya5 and Yb8 subfamilies and their contribution to human genomic diversity JOURNAL OF MOLECULAR BIOLOGY. 2001 AUG 3; 311 (1): 17-40	56	84	1	47
73	5827 Gibbs RA, Rogers J, Katze MG, Bumgarner R, Weinstock GM, et al. Evolutionary and biomedical insights from the rhesus macaque genome SCIENCE. 2007 APR 13; 316 (5822): 222-234	56	233	18	71
74	3289 Cawley S, Bekiranov S, Ng HH, Kapranov P, Sekinger EA, et al. Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs CELL. 2004 FEB 20; 116 (4): 499-509	55	545	9	49
75	501 Turner G, Barbulescu M, Su M, Jensen-Seaman MI, Kidd KK, et al. Insertional polymorphisms of full-length endogenous retroviruses in humans CURRENT BIOLOGY. 2001 OCT 2; 11 (19): 1531-1535	54	109	1	24
76	1511 Myers JS, Vincent BJ, Udall H, Watkins WS, Morrish TA, et al. A comprehensive analysis of recently integrated human Ta L1 elements AMERICAN JOURNAL OF HUMAN GENETICS. 2002 AUG; 71 (2): 312-326	53	67	9	70
77	3827 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 NATURE. 2004 OCT 21; 431 (7011): 946-957	53	521	15	57
78	145 Glusman G, Yanai I, Rubin I, Lancet D The complete human olfactory subgenome GENOME RESEARCH. 2001 MAY; 11 (5): 685-702	52	276	1	56
79	860 Bailey JA, Yavor AM, Viggiano L, Misceo D, Horvath JE, et al. Human-specific duplication and mosaic transcripts: The recent paralogous structure of chromosome 22 AMERICAN JOURNAL OF HUMAN GENETICS. 2002 JAN; 70 (1): 83-100	51	109	6	61
80	661 Ostertag EM, Kazazian HH Twin priming: A proposed mechanism for the creation of inversions in L1 retrotransposition GENOME RESEARCH. 2001 DEC; 11 (12): 2059-2065	50	67	1	26
#	Date / Author / Journal	LCS	GCS	LCR	CR
81	94 Kruglyak L, Nickerson DA Variation is the spice of life NATURE GENETICS. 2001 MAR; 27 (3): 234-236	49	392	1	24
82	205 Stanhope MJ, Lupas A, Italia MJ, Koretke KK, Volker C, et al. Phylogenetic analyses do not support horizontal gene transfers from bacteria to vertebrates NATURE. 2001 JUN 21; 411 (6840): 940-944	49	99	1	16
83	984 Harrison PM, Hegyi H, Balasubramanian S, Luscombe NM, Bertone P, et al. Molecular fossils in the human genome: Identification and analysis of the pseudogenes in chromosomes 21 and 22 GENOME RESEARCH. 2002 FEB; 12 (2): 272-280	49	111	5	32
84	1583 Schroder ARW, Shinn P, Chen HM, Berry C, Ecker JR, et al. HIV-1 integration in the human genome favors active genes and local hotspots CELL. 2002 AUG 23; 110 (4): 521-529	49	514	2	54
85	1626 Hopkins AL, Groom CR The druggable genome NATURE REVIEWS DRUG DISCOVERY. 2002 SEP; 1 (9): 727-730	49	628	4	15
86	3373 Blanchette M, Kent WJ, Riemer C, Elnitski L, Smit AFA, et al. Aligning multiple genomic sequences with the threaded blockset aligner GENOME RESEARCH. 2004 APR; 14 (4): 708-715	49	311	7	26
87	72 Yu A, Zhao CF, Fan Y, Jang WH, Mungall AJ, et al. Comparison of human genetic and sequence-based physical maps NATURE. 2001 FEB 15; 409 (6822): 951-953	48	166	3	30
88	510 Johnson ME, Viggiano L, Bailey JA, Abdul-Rauf M, Goodwin G, et al. Positive selection of a gene family during the emergence of humans and African apes NATURE. 2001 OCT 4; 413 (6855): 514-519	48	149	2	22
89	1640 Xu Q, Modrek B, Lee C Genome-wide detection of tissue-specific alternative splicing in the human transcriptome NUCLEIC ACIDS RESEARCH. 2002 SEP 1; 30 (17): 3754-3766	48	180	5	79
90	2111 Lewis BP, Green RE, Brenner SE Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 JAN 7; 100 (1): 189-192	47	299	6	37
#	Date / Author / Journal	LCS	GCS	LCR	CR
91	3815 Bannert N, Kurth R Retroelements and the human genome: New perspectives on an old relation PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 OCT 5; 101: 14572-14579	47	105	14	107
92	686 Eddy SR Non-coding RNA genes and the modern RNA world NATURE REVIEWS GENETICS. 2001 DEC; 2 (12): 919-929	46	382	4	129
93	1186 Su AI, Cooke MP, Ching KA, Hakak Y, Walker JR, et al. Large-scale analysis of the human and mouse transcriptomes PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 APR 2; 99 (7): 4465-4470	45	697	2	25
94	1239 Nigumann P, Redik K, Matlik K, Speek M Many human genes are transcribed from the antisense promoter of L1 retrotransposon GENOMICS. 2002 MAY; 79 (5): 628-634	45	74	1	31
95	1576 Gregory SG, Sekhon M, Schein J, Zhao SY, Osoegawa K, et al. A physical map of the mouse genome NATURE. 2002 AUG 15; 418 (6899): 743-U3	45	179	10	50
96	2326 Yelin R, Dahary D, Sorek R, Levanon EY, Goldstein O, et al. Widespread occurrence of antisense transcription in the human genome NATURE BIOTECHNOLOGY. 2003 APR; 21 (4): 379-386	45	319	3	29
97	505 Pavlicek A, Jabbari K, Paces J, Paces V, Hejnar J, et al. Similar integration but different stability of Alus and LINEs in the human genome GENE. 2001 OCT 3; 276 (1-2): 39-45	44	58	1	37
98	1261 Saha S, Sparks AB, Rago C, Akmaev V, Wang CJ, et al. Using the transcriptome to annotate the genome NATURE BIOTECHNOLOGY. 2002 MAY; 20 (5): 508-512	44	312	2	19
99	1370 McLysaght A, Hokamp K, Wolfe KH Extensive genomic duplication during early chordate evolution NATURE GENETICS. 2002 JUN; 31 (2): 200-204	44	250	7	31
100	1813 Duret L, Semon M, Piganeau G, Mouchiroud D, Galtier N Vanishing GC-rich isochores in mammalian genomes GENETICS. 2002 DEC; 162 (4): 1837-1847	44	86	5	51

Date / Author / Journal

LCS

GCS

LCR

69 Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, et al.

Initial sequencing and analysis of the human genome

NATURE. 2001 FEB 15; 409 (6822): 860-921

7359

7358

450

79 Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, et al.

The sequence of the human genome

SCIENCE. 2001 FEB 16; 291 (5507): 1304-+

3120

5111

192

1865 Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, et al.

Initial sequencing and comparative analysis of the mouse genome

NATURE. 2002 DEC 5; 420 (6915): 520-562

1083

2474

331

3413 Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, et al.

Genome sequence of the Brown Norway rat yields insights into mammalian evolution

NATURE. 2004 APR 1; 428 (6982): 493-521

269

752

226

3826 Collins FS, Lander ES, Rogers J, Waterston RH, Int Human Genome Sequencing Conso

Finishing the euchromatic sequence of the human genome

NATURE. 2004 OCT 21; 431 (7011): 931-945

232

901

1150 Kent WJ

BLAT - The BLAST-like alignment tool

GENOME RESEARCH. 2002 APR; 12 (4): 656-664

206

1355

1584 Aparicio S, Chapman J, Stupka E, Putnam N, Chia J, et al.

Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes

SCIENCE. 2002 AUG 23; 297 (5585): 1301-1310

184

720

1265 Batzer MA, Deininger PL

Alu repeats and human genomic diversity

NATURE REVIEWS GENETICS. 2002 MAY; 3 (5): 370-379

175

361

124

2733 Dewannieux M, Esnault C, Heidmann T

LINE-mediated retrotransposition of marked Alu sequences

NATURE GENETICS. 2003 SEP; 35 (1): 41-48

169

236

4604 Mikkelsen TS, Hillier LW, Eichler EE, Zody MC, Jaffe DB, et al.

Initial sequence of the chimpanzee genome and comparison with the human genome

NATURE. 2005 SEP 1; 437 (7055): 69-87

158

580

172

Date / Author / Journal

LCS

GCS

LCR

10 Ostertag EM, Kazazian HH

Biology of mammalian L1 retrotransposons

ANNUAL REVIEW OF GENETICS. 2001; 35: 501-538

149

268

237

896 Modrek B, Lee C

A genomic view of alternative splicing

NATURE GENETICS. 2002 JAN; 30 (1): 13-19

146

609

3350 Kazazian HH

Mobile elements: Drivers of genome evolution

SCIENCE. 2004 MAR 12; 303 (5664): 1626-1632

146

410

3953 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

NATURE. 2004 DEC 9; 432 (7018): 695-716

143

697

165

1570 Bailey JA, Gu ZP, Clark RA, Reinert K, Samonte RV, et al.

Recent segmental duplications in the human genome

SCIENCE. 2002 AUG 9; 297 (5583): 1003-1007

142

488

1866 Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, et al.

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

NATURE. 2002 DEC 5; 420 (6915): 563-573

128

619

2105 Karolchik D, Baertsch R, Diekhans M, Furey TS, Hinrichs A, et al.

The UCSC Genome Browser Database

NUCLEIC ACIDS RESEARCH. 2003 JAN 1; 31 (1): 51-54

127

694

2370 Brouha B, Schustak J, Badge RM, Lutz-Prigget S, Farley AH, et al.

Hot L1s account for the bulk of retrotransposition in the human population

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 APR 29; 100 (9): 5280-5285

121

146

70 McPherson JD, Marra M, Hillier L, Waterston RH, Chinwalla A, et al.

A physical map of the human genome

NATURE. 2001 FEB 15; 409 (6822): 934-941

119

394

2970 Johnson JM, Castle J, Garrett-Engele P, Kan ZY, Loerch PM, et al.

Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays

SCIENCE. 2003 DEC 19; 302 (5653): 2141-2144

114

607

Date / Author / Journal

LCS

GCS

LCR

2968 Gibbs RA, Belmont JW, Hardenbol P, Willis TD, Yu FL, et al.

The International HapMap Project

NATURE. 2003 DEC 18; 426 (6968): 789-796

110

1480

1568 Gilbert N, Lutz-Prigge S, Moran JV

Genomic deletions created upon LINE-1 retrotransposition

CELL. 2002 AUG 9; 110 (3): 315-325

107

164

1465 Kong A, Gudbjartsson DF, Sainz J, Jonsdottir GM, Gudjonsson SA, et al.

A high-resolution recombination map of the human genome

NATURE GENETICS. 2002 JUL; 31 (3): 241-247

105

824

1569 Symer DE, Connelly C, Szak ST, Caputo EM, Cost GJ, et al.

Human L1 retrotransposition is associated with genetic instability in vivo

CELL. 2002 AUG 9; 110 (3): 327-338

104

152

2681 Thomas JW, Touchman JW, Blakesley RW, Bouffard GG, Beckstrom-Sternberg SM, et al.

Comparative analyses of multi-species sequences from targeted genomic regions

NATURE. 2003 AUG 14; 424 (6950): 788-793

101

370

4775 Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, et al.

Genome sequence, comparative analysis and haplotype structure of the domestic dog

NATURE. 2005 DEC 8; 438 (7069): 803-819

100

470

119

1442 Sorek R, Ast G, Graur D

Alu-containing exons are alternatively spliced

GENOME RESEARCH. 2002 JUL; 12 (7): 1060-1067

188

183 Bailey JA, Yavor AM, Massa HF, Trask BJ, Eichler EE

Segmental duplications: Organization and impact within the current Human Genome Project assembly

GENOME RESEARCH. 2001 JUN; 11 (6): 1005-1017

253

2366 Collins FS, Green ED, Guttmacher AE, Guyer MS

A vision for the future of genomics research

NATURE. 2003 APR 24; 422 (6934): 835-847

574

934 Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, et al.

Functional organization of the yeast proteome by systematic analysis of protein complexes

NATURE. 2002 JAN 10; 415 (6868): 141-147

1784

Date / Author / Journal

LCS

GCS

LCR

916 Hubbard T, Barker D, Birney E, Cameron G, Chen Y, et al.

The Ensembl genome database project

NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 38-41

471

342 Hogenesch JB, Ching KA, Batalov S, Su AI, Walker JR, et al.

A comparison of the Celera and Ensembl predicted gene sets reveals little overlap in novel genes

CELL. 2001 AUG 24; 106 (4): 413-415

142

1048 Wood V, Gwilliam R, Rajandream MA, Lyne M, Lyne R, et al.

The genome sequence of Schizosaccharomyces pombe

NATURE. 2002 FEB 21; 415 (6874): 871-880

620

1872 Dehal P, Satou Y, Campbell RK, Chapman J, Degnan B, et al.

The draft genome of Ciona intestinalis: Insights into chordate and vertebrate origins

SCIENCE. 2002 DEC 13; 298 (5601): 2157-2167

709

3500 Han JS, Szak ST, Boeke JD

Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes

NATURE. 2004 MAY 20; 429 (6989): 268-274

130

2917 Deininger PL, Moran JV, Batzer MA, Kazazian HH

Mobile elements and mammalian genome evolution

CURRENT OPINION IN GENETICS & DEVELOPMENT. 2003 DEC; 13 (6): 651-658

136

2445 Lev-Maor G, Sorek R, Shomron N, Ast G

The birth of an alternatively spliced exon: 3 ' splice-site selection in Alu exons

SCIENCE. 2003 MAY 23; 300 (5623): 1288-1291

157

1777 Cost GJ, Feng QH, Jacquier A, Boeke JD

Human L1 element target-primed reverse transcription in vitro

EMBO JOURNAL. 2002 NOV 1; 21 (21): 5899-5910

109

4043 Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, et al.

Repbase update, a database of eukaryotic repetitive elements

CYTOGENETIC AND GENOME RESEARCH. 2005; 110 (1-4): 462-467

277

2182 Jordan IK, Rogozin IB, Glazko GV, Koonin EV

Origin of a substantial fraction of human regulatory sequences from transposable elements

TRENDS IN GENETICS. 2003 FEB; 19 (2): 68-72

172

Date / Author / Journal

LCS

GCS

LCR

2767 Bailey JA, Liu G, Eichler EE

An Alu transposition model for the origin and expansion of human segmental duplications

AMERICAN JOURNAL OF HUMAN GENETICS. 2003 OCT; 73 (4): 823-834

159

2804 van de Lagemaat LN, Landry JR, Mager DL, Medstrand P

Transposable elements in mammals promote regulatory variation and diversification of genes with specialized functions

TRENDS IN GENETICS. 2003 OCT; 19 (10): 530-536

139

65 Li WH, Gu ZL, Wang HD, Nekrutenko A

Evolutionary analyses of the human genome

NATURE. 2001 FEB 15; 409 (6822): 847-849

192

245 Eyre-Walker A, Hurst LD

The evolution of isochores

NATURE REVIEWS GENETICS. 2001 JUL; 2 (7): 549-555

164

1679 Medstrand P, van de Lagemaat LN, Mager DL

Retroelement distributions in the human genome: Variations associated with age and proximity to genes

GENOME RESEARCH. 2002 OCT; 12 (10): 1483-1495

105

1880 Strausberg RL, Feingold EA, Grouse LH, Derge JG, Klausner RD, et al.

Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 DEC 24; 99 (26): 16899-16903

801

5921 Birney E, Stamatoyannopoulos JA, Dutta A, Guigo R, Gingeras TR, et al.

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

NATURE. 2007 JUN 14; 447 (7146): 799-816

671

128

3512 Bejerano G, Pheasant M, Makunin I, Stephen S, Kent WJ, et al.

Ultraconserved elements in the human genome

SCIENCE. 2004 MAY 28; 304 (5675): 1321-1325

374

3828 Feingold EA, Good PJ, Guyer MS, Kamholz S, Liefer L, et al.

The ENCODE (ENCyclopedia of DNA elements) Project

SCIENCE. 2004 OCT 22; 306 (5296): 636-640

365

73 Cheung VG, Nowak N, Jang W, Kirsch IR, Zhao S, et al.

Integration of cytogenetic landmarks into the draft sequence of the human genome

NATURE. 2001 FEB 15; 409 (6822): 953-958

174

Date / Author / Journal

LCS

GCS

LCR

261 Dehal P, Predki P, Olsen AS, Kobayashi A, Folta P, et al.

Human chromosome 19 and related regions in mouse: Conservative and lineage-specific evolution

SCIENCE. 2001 JUL 6; 293 (5527): 104-111

151

473 Daly MJ, Rioux JD, Schaffner SE, Hudson TJ, Lander ES

High-resolution haplotype structure in the human genome

NATURE GENETICS. 2001 OCT; 29 (2): 229-232

895

897 Brett D, Pospisil H, Valcarcel J, Reich J, Bork P

Alternative splicing and genome complexity

NATURE GENETICS. 2002 JAN; 30 (1): 29-30

212

1167 Cartegni L, Chew SL, Krainer AR

Listening to silence and understanding nonsense: Exonic mutations that affect splicing

NATURE REVIEWS GENETICS. 2002 APR; 3 (4): 285-298

781

149

1677 Deininger PL, Batzer MA

Mammalian Retroelements

GENOME RESEARCH. 2002 OCT; 12 (10): 1455-1465

137

105

2496 Modrek B, Lee CJ

Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss

NATURE GENETICS. 2003 JUN; 34 (2): 177-180

266

165 Reich DE, Cargill M, Bolk S, Ireland J, Sabeti PC, et al.

Linkage disequilibrium in the human genome

NATURE. 2001 MAY 10; 411 (6834): 199-204

775

1016 Stankiewicz P, Lupski JR

Genome architecture, rearrangements and genomic disorders

TRENDS IN GENETICS. 2002 FEB; 18 (2): 74-82

337

1776 Kajikawa M, Okada N

LINEs mobilize SINEs in the eel through a shared 3 ' sequence

CELL. 2002 NOV 1; 111 (3): 433-444

122

923 Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, et al.

The Pfam Protein Families Database

NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 276-280

1376

Date / Author / Journal

LCS

GCS

LCR

1493 Maniatis T, Tasic B

Alternative pre-mRNA splicing and proteome expansion in metazoans

NATURE. 2002 JUL 11; 418 (6894): 236-243

349

3307 Kampa D, Cheng J, Kapranov P, Yamanaka M, Brubaker S, et al.

Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22

GENOME RESEARCH. 2004 MAR; 14 (3): 331-342

276

717 Deloukas P, Matthews LH, Ashurst J, Burton J, Gilbert JGR, et al.

The DNA sequence and comparative analysis of human chromosome 20

NATURE. 2001 DEC 20; 414 (6866): 865-U3

115

198 Salzberg SL, White O, Peterson J, Eisen JA

Microbial genes in the human genome: Lateral transfer or gene loss?

SCIENCE. 2001 JUN 8; 292 (5523): 1903-1906

119

1316 Mural RJ, Adams MD, Myers EW, Smith HO, Miklos GLG, et al.

A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome

SCIENCE. 2002 MAY 31; 296 (5573): 1661-1671

184

2062 Hardison RC, Roskin KM, Yang S, Diekhans M, Kent WJ, et al.

Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution

GENOME RESEARCH. 2003 JAN; 13 (1): 13-26

151

3426 Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, et al.

A gene atlas of the mouse and human protein-encoding transcriptomes

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 APR 20; 101 (16): 6062-6067

820

4402 Cheng J, Kapranov P, Drenkow J, Dike S, Brubaker S, et al.

Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution

SCIENCE. 2005 MAY 20; 308 (5725): 1149-1154

346

587 Eichler EE

Recent duplication, domain accretion and the dynamic mutation of the human genome

TRENDS IN GENETICS. 2001 NOV; 17 (11): 661-669

162

912 Bird A

DNA methylation patterns and epigenetic memory

GENES & DEVELOPMENT. 2002 JAN 1; 16 (1): 6-21

1224

202

Date / Author / Journal

LCS

GCS

LCR

2437 Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES

Sequencing and comparison of yeast species to identify genes and regulatory elements

NATURE. 2003 MAY 15; 423 (6937): 241-254

824

327 Carroll ML, Roy-Engel AM, Nguyen SV, Salem AH, Vogel E, et al.

Large-scale analysis of the Alu Ya5 and Yb8 subfamilies and their contribution to human genomic diversity

JOURNAL OF MOLECULAR BIOLOGY. 2001 AUG 3; 311 (1): 17-40

5827 Gibbs RA, Rogers J, Katze MG, Bumgarner R, Weinstock GM, et al.

Evolutionary and biomedical insights from the rhesus macaque genome

SCIENCE. 2007 APR 13; 316 (5822): 222-234

233

3289 Cawley S, Bekiranov S, Ng HH, Kapranov P, Sekinger EA, et al.

Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs

CELL. 2004 FEB 20; 116 (4): 499-509

545

501 Turner G, Barbulescu M, Su M, Jensen-Seaman MI, Kidd KK, et al.

Insertional polymorphisms of full-length endogenous retroviruses in humans

CURRENT BIOLOGY. 2001 OCT 2; 11 (19): 1531-1535

109

1511 Myers JS, Vincent BJ, Udall H, Watkins WS, Morrish TA, et al.

A comprehensive analysis of recently integrated human Ta L1 elements

AMERICAN JOURNAL OF HUMAN GENETICS. 2002 AUG; 71 (2): 312-326

3827 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

NATURE. 2004 OCT 21; 431 (7011): 946-957

521

145 Glusman G, Yanai I, Rubin I, Lancet D

The complete human olfactory subgenome

GENOME RESEARCH. 2001 MAY; 11 (5): 685-702

276

860 Bailey JA, Yavor AM, Viggiano L, Misceo D, Horvath JE, et al.

Human-specific duplication and mosaic transcripts: The recent paralogous structure of chromosome 22

AMERICAN JOURNAL OF HUMAN GENETICS. 2002 JAN; 70 (1): 83-100

109

661 Ostertag EM, Kazazian HH

Twin priming: A proposed mechanism for the creation of inversions in L1 retrotransposition

GENOME RESEARCH. 2001 DEC; 11 (12): 2059-2065

Date / Author / Journal

LCS

GCS

LCR

94 Kruglyak L, Nickerson DA

Variation is the spice of life

NATURE GENETICS. 2001 MAR; 27 (3): 234-236

392

205 Stanhope MJ, Lupas A, Italia MJ, Koretke KK, Volker C, et al.

Phylogenetic analyses do not support horizontal gene transfers from bacteria to vertebrates

NATURE. 2001 JUN 21; 411 (6840): 940-944

984 Harrison PM, Hegyi H, Balasubramanian S, Luscombe NM, Bertone P, et al.

Molecular fossils in the human genome: Identification and analysis of the pseudogenes in chromosomes 21 and 22

GENOME RESEARCH. 2002 FEB; 12 (2): 272-280

111

1583 Schroder ARW, Shinn P, Chen HM, Berry C, Ecker JR, et al.

HIV-1 integration in the human genome favors active genes and local hotspots

CELL. 2002 AUG 23; 110 (4): 521-529

514

1626 Hopkins AL, Groom CR

The druggable genome

NATURE REVIEWS DRUG DISCOVERY. 2002 SEP; 1 (9): 727-730

628

3373 Blanchette M, Kent WJ, Riemer C, Elnitski L, Smit AFA, et al.

Aligning multiple genomic sequences with the threaded blockset aligner

GENOME RESEARCH. 2004 APR; 14 (4): 708-715

311

72 Yu A, Zhao CF, Fan Y, Jang WH, Mungall AJ, et al.

Comparison of human genetic and sequence-based physical maps

NATURE. 2001 FEB 15; 409 (6822): 951-953

166

510 Johnson ME, Viggiano L, Bailey JA, Abdul-Rauf M, Goodwin G, et al.

Positive selection of a gene family during the emergence of humans and African apes

NATURE. 2001 OCT 4; 413 (6855): 514-519

149

1640 Xu Q, Modrek B, Lee C

Genome-wide detection of tissue-specific alternative splicing in the human transcriptome

NUCLEIC ACIDS RESEARCH. 2002 SEP 1; 30 (17): 3754-3766

180

2111 Lewis BP, Green RE, Brenner SE

Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 JAN 7; 100 (1): 189-192

299

Date / Author / Journal

LCS

GCS

LCR

3815 Bannert N, Kurth R

Retroelements and the human genome: New perspectives on an old relation

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 OCT 5; 101: 14572-14579

105

107

686 Eddy SR

Non-coding RNA genes and the modern RNA world

NATURE REVIEWS GENETICS. 2001 DEC; 2 (12): 919-929

382

129

1186 Su AI, Cooke MP, Ching KA, Hakak Y, Walker JR, et al.

Large-scale analysis of the human and mouse transcriptomes

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 APR 2; 99 (7): 4465-4470

697

1239 Nigumann P, Redik K, Matlik K, Speek M

Many human genes are transcribed from the antisense promoter of L1 retrotransposon

GENOMICS. 2002 MAY; 79 (5): 628-634

1576 Gregory SG, Sekhon M, Schein J, Zhao SY, Osoegawa K, et al.

A physical map of the mouse genome

NATURE. 2002 AUG 15; 418 (6899): 743-U3

179

2326 Yelin R, Dahary D, Sorek R, Levanon EY, Goldstein O, et al.

Widespread occurrence of antisense transcription in the human genome

NATURE BIOTECHNOLOGY. 2003 APR; 21 (4): 379-386

319

505 Pavlicek A, Jabbari K, Paces J, Paces V, Hejnar J, et al.

Similar integration but different stability of Alus and LINEs in the human genome

GENE. 2001 OCT 3; 276 (1-2): 39-45

1261 Saha S, Sparks AB, Rago C, Akmaev V, Wang CJ, et al.

Using the transcriptome to annotate the genome

NATURE BIOTECHNOLOGY. 2002 MAY; 20 (5): 508-512

312

1370 McLysaght A, Hokamp K, Wolfe KH

Extensive genomic duplication during early chordate evolution

NATURE GENETICS. 2002 JUN; 31 (2): 200-204

250

100

1813 Duret L, Semon M, Piganeau G, Mouchiroud D, Galtier N

Vanishing GC-rich isochores in mammalian genomes

GENETICS. 2002 DEC; 162 (4): 1837-1847

Initial sequencing and analysis of the human genome (Lander) The papers citing Lander ES, et al. "Initial sequencing and analysis of the human genome." NATURE. 2001 FEB 15; 409 (6822): 860-921	Historiographs	Glossary HistCite Guide About Grand Totals: LCS 38623, GCS 253809, CR 422506 Collection span: 2000 - 2010
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