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

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#	Date / Author / Journal	LCS	GCS	LCR	CR
101	1817 Kan ZY, States D, Gish W Selecting for functional alternative splices in ESTs GENOME RESEARCH. 2002 DEC; 12 (12): 1837-1845	44	120	6	31
102	2118 Kamath RS, Fraser AG, Dong Y, Poulin G, Durbin R, et al. Systematic functional analysis of the Caenorhabditis elegans genome using RNAi NATURE. 2003 JAN 16; 421 (6920): 231-237	44	1011	4	40
103	2904 Ostertag EM, Goodier JL, Zhang Y, Kazazian HH SVA elements are nonautonomous retrotransposons that cause disease in humans AMERICAN JOURNAL OF HUMAN GENETICS. 2003 DEC; 73 (6): 1444-1451	44	55	11	40
104	2922 Margulies EH, Blanchette M, Haussler D, Green ED, NISC Comparative Sequencing Progra Identification and characterization of multi-species conserved sequences GENOME RESEARCH. 2003 DEC; 13 (12): 2507-2518	44	169	17	67
105	2199 Faustino NA, Cooper TA Pre-mRNA splicing and human disease GENES & DEVELOPMENT. 2003 FEB 15; 17 (4): 419-437	43	432	9	183
106	2924 Zhang ZL, Harrison PM, Liu Y, Gerstein M Millions of years of evolution preserved: A comprehensive catalog of the processed pseudogenes in the human genome GENOME RESEARCH. 2003 DEC; 13 (12): 2541-2558	43	132	20	96
107	3164 Ota T, Suzuki Y, Nishikawa T, Otsuki T, Sugiyama T, et al. Complete sequencing and characterization of 21,243 full-length human cDNAs NATURE GENETICS. 2004 JAN; 36 (1): 40-45	43	269	6	29
108	3809 Ast G How did alternative splicing evolve? NATURE REVIEWS GENETICS. 2004 OCT; 5 (10): 773-782	43	174	18	80
109	3967 Bertone P, Stolc V, Royce TE, Rozowsky JS, Urban AE, et al. Global identification of human transcribed sequences with genome tiling arrays SCIENCE. 2004 DEC 24; 306 (5705): 2242-2246	43	266	8	21
110	2218 Boffelli D, McAuliffe J, Ovcharenko D, Lewis KD, Ovcharenko I, et al. Phylogenetic shadowing of primate sequences to find functional regions of the human genome SCIENCE. 2003 FEB 28; 299 (5611): 1391-1394	42	259	2	14
#	Date / Author / Journal	LCS	GCS	LCR	CR
111	2233 Liu G, Zhao SY, Bailey JA, Sahinalp SC, Alkan C, et al. Analysis of primate genomic variation reveals a repeat-driven expansion of the human genome GENOME RESEARCH. 2003 MAR; 13 (3): 358-368	42	77	12	50
112	2533 Skaletsky H, Kuroda-Kawaguchi T, Minx PJ, Cordum HS, Hillier L, et al. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes NATURE. 2003 JUN 19; 423 (6942): 825-U2	42	506	8	50
113	146 Yeh RF, Lim LP, Burge CB Computational inference of homologous gene structures in the human genome GENOME RESEARCH. 2001 MAY; 11 (5): 803-816	41	161	3	33
114	1369 Lercher MJ, Urrutia AO, Hurst LD Clustering of housekeeping genes provides a unified model of gene order in the human genome NATURE GENETICS. 2002 JUN; 31 (2): 180-183	41	257	1	15
115	2939 Perepelitsa-Belancio V, Deininger P RNA truncation by premature polyadenylation attenuates human mobile element activity NATURE GENETICS. 2003 DEC; 35 (4): 363-366	41	55	6	29
116	3274 Sorek R, Shamir R, Ast G How prevalent is functional alternative splicing in the human genome? TRENDS IN GENETICS. 2004 FEB; 20 (2): 68-71	41	146	12	21
117	3546 Meunier J, Duret L Recombination drives the evolution of GC-content in the human genome MOLECULAR BIOLOGY AND EVOLUTION. 2004 JUN; 21 (6): 984-990	41	108	11	47
118	362 Roy-Engel AM, Carroll ML, Vogel E, Garber RK, Nguyen SV, et al. Alu insertion polymorphisms for the study of human genomic diversity GENETICS. 2001 SEP; 159 (1): 279-290	40	68	1	32
119	4590 Gilbert N, Lutz S, Morrish TA, Moran JV Multiple fates of L1 retrotransposition intermediates in cultured human cells MOLECULAR AND CELLULAR BIOLOGY. 2005 SEP; 25 (17): 7780-7795	40	61	17	77
120	503 Bernardi G Misunderstandings about isochores. Part 1 GENE. 2001 OCT 3; 276 (1-2): 3-13	39	61	7	73
#	Date / Author / Journal	LCS	GCS	LCR	CR
121	660 Ovchinnikov I, Troxel AB, Swergold GD Genomic characterization of recent human LINE-1 insertions: Evidence supporting random insertion GENOME RESEARCH. 2001 DEC; 11 (12): 2050-2058	39	49	1	40
122	2200 Rinn JL, Euskirchen G, Bertone P, Martone R, Luscombe NM, et al. The transcriptional activity of human Chromosome 22 GENES & DEVELOPMENT. 2003 FEB 15; 17 (4): 529-540	39	125	6	27
123	4460 Muotri AR, Chu VT, Marchetto MCN, Deng W, Moran JV, et al. Somatic mosaicism in neuronal precursor cells mediated by L1 retrotransposition NATURE. 2005 JUN 16; 435 (7044): 903-910	39	104	13	44
124	2596 Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, et al. The DNA sequence of human chromosome 7 NATURE. 2003 JUL 10; 424 (6945): 157-U2	38	85	14	49
125	3418 Belshaw R, Pereira V, Katzourakis A, Talbot G, Paces J, et al. Long-term reinfection of the human genome by endogenous retroviruses PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 APR 6; 101 (14): 4894-4899	38	73	3	35
126	513 Schueler MG, Higgins AW, Rudd MK, Gustashaw K, Willard HF Genomic and genetic definition of a functional human centromere SCIENCE. 2001 OCT 5; 294 (5540): 109-115	37	192	3	43
127	681 Davuluri RV, Grosse I, Zhang MQ Computational identification of promoters and first exons in the human genome NATURE GENETICS. 2001 DEC; 29 (4): 412-417	37	200	3	24
128	2595 Levine M, Tjian R Transcription regulation and animal diversity NATURE. 2003 JUL 10; 424 (6945): 147-151	37	397	4	74
129	2708 Versteeg R, van Schaik BDC, van Batenburg MF, Roos M, Monajemi R, et al. The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes GENOME RESEARCH. 2003 SEP; 13 (9): 1998-2004	37	140	5	15
130	3530 Hedges DJ, Callinan PA, Cordaux R, Xing J, Barnes E, et al. Differential Alu mobilization and polymorphism among the human and chimpanzee lineages GENOME RESEARCH. 2004 JUN; 14 (6): 1068-1075	37	53	15	51
#	Date / Author / Journal	LCS	GCS	LCR	CR
131	3775 Bennettt EA, Coleman LE, Tsui C, Pittard WS, Devine SE Natural genetic variation caused by transposable elements in humans GENETICS. 2004 OCT; 168 (2): 933-951	37	52	20	73
132	58 Baltimore D Our genome unveiled NATURE. 2001 FEB 15; 409 (6822): 814-816	36	120	4	5
133	450 Galtier N, Piganeau G, Mouchiroud D, Duret L GC-content evolution in mammalian genomes: The biased gene conversion hypothesis GENETICS. 2001 OCT; 159 (2): 907-911	36	113	2	42
134	472 Rioux JD, Daly MJ, Silverberg MS, Lindblad K, Steinhart H, et al. Genetic variation in the 5q31 cytokine gene cluster confers susceptibility to Crohn disease NATURE GENETICS. 2001 OCT; 29 (2): 223-228	36	505	2	15
135	1119 Roy-Engel AM, Carroll ML, El-Sawy M, Salem AH, Garber RK, et al. Non-traditional Alu evolution and primate genomic diversity JOURNAL OF MOLECULAR BIOLOGY. 2002 MAR 8; 316 (5): 1033-1040	36	50	4	28
136	1229 Kidwell MG Transposable elements and the evolution of genome size in eukaryotes GENETICA. 2002 MAY; 115 (1): 49-63	36	121	3	86
137	2472 Zavolan M, Kondo S, Schonbach C, Adachi J, Hume DA, et al. Impact of alternative initiation, splicing, and termination on the diversity of the mRNA transcripts encoded by the mouse transcriptome GENOME RESEARCH. 2003 JUN; 13 (6B): 1290-1300	36	117	7	51
138	4519 Han JS, Boeke JD LINEA retrotransposons: modulators of quantity and quality of mammalian gene expression? BIOESSAYS. 2005 AUG; 27 (8): 775-784	36	56	23	85
139	177 Hastings ML, Krainer AR Pre-mRNA splicing in the new millennium CURRENT OPINION IN CELL BIOLOGY. 2001 JUN; 13 (3): 302-309	35	261	2	54
140	1847 Ostertag EM, DeBerardinis RJ, Goodier JL, Zhang Y, Yang N, et al. A mouse model of human L1 retrotransposition NATURE GENETICS. 2002 DEC; 32 (4): 655-660	35	65	3	30
#	Date / Author / Journal	LCS	GCS	LCR	CR
141	1868 Manning G, Whyte DB, Martinez R, Hunter T, Sudarsanam S The protein kinase complement of the human genome SCIENCE. 2002 DEC 6; 298 (5600): 1912-+	35	1587	5	36
142	2190 Heilig R, Eckenberg R, Petit JL, Fonknechten NR, Da Silva C, et al. The DNA sequence and analysis of human chromosome 14 NATURE. 2003 FEB 6; 421 (6923): 601-U1	35	51	13	39
143	2670 Buzdin A, Gogvadze E, Kovalskaya E, Volchkov P, Ustyugova S, et al. The human genome contains many types of chimeric retrogenes generated through in vivo RNA recombination NUCLEIC ACIDS RESEARCH. 2003 AUG 1; 31 (15): 4385-4390	35	45	5	17
144	5283 Nishihara H, Smit AFA, Okada N Functional noncoding sequences derived from SINEs in the mammalian genome GENOME RESEARCH. 2006 JUL; 16 (7): 864-874	35	62	15	56
145	13 Ideker T, Galitski T, Hood L A new approach to decoding life: Systems biology ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS. 2001; 2: 343-372	34	426	2	142
146	930 Fujiyama A, Watanabe H, Toyoda A, Taylor TD, Itoh T, et al. Construction and analysis of a human-chimpanzee comparative clone map SCIENCE. 2002 JAN 4; 295 (5552): 131-134	34	122	3	14
147	1598 Roy-Engel AM, Salem AH, Oyeniran OO, Deininger L, Hedges DJ, et al. Active alu element "A-tails,": Size does matter GENOME RESEARCH. 2002 SEP; 12 (9): 1333-1344	34	49	6	77
148	3508 Watanabe H, Fujiyama A, Hattori M, Taylor TD, Toyoda A, et al. DNA sequence and comparative analysis of chimpanzee chromosome 22 NATURE. 2004 MAY 27; 429 (6990): 382-388	34	113	14	46
149	3769 Peaston AE, Evsikov AV, Graber JH, de Vries WN, Holbrook AE, et al. Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos DEVELOPMENTAL CELL. 2004 OCT; 7 (4): 597-606	34	93	7	61
150	4579 Chen JM, Stenson PD, Cooper DN, Ferec C A systematic analysis of LINE-1 endonuclease-dependent retrotranspositional events causing human genetic disease HUMAN GENETICS. 2005 SEP; 117 (5): 411-427	34	52	42	133
#	Date / Author / Journal	LCS	GCS	LCR	CR
151	4993 Feuk L, Carson AR, Scherer SW Structural variation in the human genome NATURE REVIEWS GENETICS. 2006 FEB; 7 (2): 85-97	34	323	14	113
152	1371 Gu X, Wang YF, Gu JY Age distribution of human gene families shows significant roles of both large-and small-scale duplications in vertebrate evolution NATURE GENETICS. 2002 JUN; 31 (2): 205-209	33	152	6	30
153	1704 Zdobnov EM, von Mering C, Letunic I, Torrents D, Suyama M, et al. Comparative genome and proteome analysis of anopheles gambiae and Drosophila melanogaster SCIENCE. 2002 OCT 4; 298 (5591): 149-159	33	259	6	66
154	2556 Sorek R, Ast G Intronic sequences flanking alternatively spliced exons are conserved between human and mouse GENOME RESEARCH. 2003 JUL; 13 (7): 1631-1637	33	140	9	26
155	2676 Eichler EE, Sankoff D Structural dynamics of eukaryotic chromosome evolution SCIENCE. 2003 AUG 8; 301 (5634): 793-797	33	155	22	60
156	4517 Murphy WJ, Larkin DM, Everts-van der Wind A, Bourque G, Tesler G, et al. Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps SCIENCE. 2005 JUL 22; 309 (5734): 613-617	33	201	13	31
157	4674 Myers S, Bottolo L, Freeman C, McVean G, Donnelly P A fine-scale map of recombination rates and hotspots across the human genome SCIENCE. 2005 OCT 14; 310 (5746): 321-324	33	234	6	28
158	683 Hughes JF, Coffin JM Evidence for genomic rearrangements mediated by human endogenous retroviruses during primate evolution NATURE GENETICS. 2001 DEC; 29 (4): 487-489	32	65	3	16
159	881 Batzoglou S, Jaffe DB, Stanley K, Butler J, Gnerre S, et al. ARACHNE: A whole-genome shotgun assembler GENOME RESEARCH. 2002 JAN; 12 (1): 177-189	32	137	1	25
160	2064 Pevzner P, Tesler G Genome Rearrangements in mammalian evolution: Lessons from human and mouse genomes GENOME RESEARCH. 2003 JAN; 13 (1): 37-45	32	126	6	42
#	Date / Author / Journal	LCS	GCS	LCR	CR
161	2536 Pevzner P, Tesler G Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 JUN 24; 100 (13): 7672-7677	32	141	6	40
162	2832 Dunn CA, Medstrand P, Mager DL An endogenous retroviral long terminal repeat is the dominant promoter for human beta 1,3-galactosyltransferase 5 in the colon PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 OCT 28; 100 (22): 12841-12846	32	52	6	31
163	2925 Torrents D, Suyama M, Zdobnov E, Bork P A genome-wide survey of human pseudogenes GENOME RESEARCH. 2003 DEC; 13 (12): 2559-2567	32	99	11	32
164	3813 Cordaux R, Hedges DJ, Batzer MA Retrotransposition of Alu elements: how many sources? TRENDS IN GENETICS. 2004 OCT; 20 (10): 464-467	32	37	7	21
165	4173 Stamm S, Ben-Ari S, Rafalska I, Tang YS, Zhang ZY, et al. Function of alternative splicing GENE. 2005 JAN 3; 344: 1-20	32	243	18	237
166	67 Jimenez-Sanchez G, Childs B, Valle D Human disease genes NATURE. 2001 FEB 15; 409 (6822): 853-855	31	132	1	9
167	424 Lim LP, Burge CB A computational analysis of sequence features involved in recognition of short introns PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2001 SEP 25; 98 (20): 11193-11198	31	146	1	29
168	1264 Feschotte C, Jiang N, Wessler SR Plant transposable elements: Where genetics meets genomics NATURE REVIEWS GENETICS. 2002 MAY; 3 (5): 329-341	31	221	3	117
169	2555 Watkins WS, Rogers AR, Ostler CT, Wooding S, Bamshad MJ, et al. Genetic variation among world populations: Inferences from 100 Alu insertion polymorphisms GENOME RESEARCH. 2003 JUL; 13 (7): 1607-1618	31	88	8	81
170	3181 Furano AV, Duvernell DD, Boissinot S L1 (LINE-1) retrotransposon diversity differs dramatically between mammals and fish TRENDS IN GENETICS. 2004 JAN; 20 (1): 9-14	31	41	8	48
#	Date / Author / Journal	LCS	GCS	LCR	CR
171	151 Wolfe KH Yesterday's polyploids and the mystery of diploidization NATURE REVIEWS GENETICS. 2001 MAY; 2 (5): 333-341	30	251	2	66
172	365 Kent WJ, Haussler D Assembly of the working draft of the human genome with GigAssembler GENOME RESEARCH. 2001 SEP; 11 (9): 1541-1548	30	50	10	32
173	1363 Bartolome C, Maside X, Charlesworth B On the abundance and distribution of transposable elements in the genome of Drosophila melanogaster MOLECULAR BIOLOGY AND EVOLUTION. 2002 JUN; 19 (6): 926-937	30	92	2	68
174	1978 Ohshima K, Hattori M, Yada T, Gojobori T, Sakaki Y, et al. Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates GENOME BIOLOGY. 2003; 4 (11): Art. No. R74	30	55	20	62
175	2063 Collins JE, Goward ME, Cole CG, Smink LJ, Huckle EJ, et al. Reevaluating human gene annotation: A second-generation analysis of chromosome 22 GENOME RESEARCH. 2003 JAN; 13 (1): 27-36	30	54	10	53
176	2493 Fredriksson R, Lagerstrom MC, Lundin LG, Schioth HB The G-protein-coupled receptors in the human genome form five main families. Phylogenetic analysis, paralogon groups, and fingerprints MOLECULAR PHARMACOLOGY. 2003 JUN; 63 (6): 1256-1272	30	432	3	42
177	2770 Mattick JS Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms BIOESSAYS. 2003 OCT; 25 (10): 930-939	30	191	17	104
178	3049 Bailey JA, Baertsch R, Kent WJ, Haussler D, Eichler EE Hotspots of mammalian chromosomal evolution GENOME BIOLOGY. 2004; 5 (4): Art. No. R23	30	109	18	36
179	4916 Khan H, Smit A, Boissinot S Molecular evolution and tempo of amplification of human LINE-1 retrotransposons since the origin of primates GENOME RESEARCH. 2006 JAN; 16 (1): 78-87	30	44	15	72
180	5272 Sen SK, Han KD, Wang JX, Lee J, Wang H, et al. Human genomic deletions mediated by recombination between Alu elements AMERICAN JOURNAL OF HUMAN GENETICS. 2006 JUL; 79 (1): 41-53	30	59	22	60
#	Date / Author / Journal	LCS	GCS	LCR	CR
181	474 Emanuel BS, Shaikh TH Segmental duplications: An 'expanding' role in genomic instability and disease NATURE REVIEWS GENETICS. 2001 OCT; 2 (10): 791-800	29	142	2	91
182	515 Camargo AA, Samaia HPB, Dias-Neto E, Simao DF, Migotto IA, et al. The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2001 OCT 9; 98 (21): 12103-12108	29	82	2	20
183	687 Syvanen AC Accessing genetic variation: Genotyping single nucleotide polymorphisms NATURE REVIEWS GENETICS. 2001 DEC; 2 (12): 930-942	29	372	6	138
184	925 Suzuki Y, Yamashita R, Nakai K, Sugano S DBTSS: DataBase of human transcriptional start sites and full-length cDNAs NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 328-331	29	126	2	13
185	933 Greally JM Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 JAN 8; 99 (1): 327-332	29	88	2	66
186	1291 Clark TA, Sugnet CW, Ares M Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays SCIENCE. 2002 MAY 3; 296 (5569): 907-910	29	157	2	27
187	1331 Weiner AM SINEs and LINEs: the art of biting the hand that feeds you CURRENT OPINION IN CELL BIOLOGY. 2002 JUN; 14 (3): 343-350	29	70	7	83
188	1965 Cheung J, Estivill X, Khaja R, MacDonald JR, Lau K, et al. Genome-wide detection of segmental duplications and potential assembly errors in the human genome sequence GENOME BIOLOGY. 2003; 4 (4): Art. No. R25	29	77	9	26
189	2830 Mungall AJ, Palmer SA, Sims SK, Edwards CA, Ashurst JL, et al. The DNA sequence and analysis of human chromosome 6 NATURE. 2003 OCT 23; 425 (6960): 805-U1	29	77	15	49
190	2833 Blaise S, de Parseval N, Benit L, Heidmann T Genomewide screening for fusogenic human endogenous retrovirus envelopes identifies syncytin 2, a gene conserved on primate evolution PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 OCT 28; 100 (22): 13013-13018	29	90	3	45
#	Date / Author / Journal	LCS	GCS	LCR	CR
191	2862 Arndt PF, Petrov DA, Hwa T Distinct changes of genomic biases in nucleotide substitution at the time of mammalian radiation MOLECULAR BIOLOGY AND EVOLUTION. 2003 NOV; 20 (11): 1887-1896	29	58	4	40
192	3963 Pan Q, Shai O, Misquitta C, Zhang W, Saltzman AL, et al. Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform MOLECULAR CELL. 2004 DEC 22; 16 (6): 929-941	29	140	18	52
193	4168 Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y, et al. Ensembl 2005 NUCLEIC ACIDS RESEARCH. 2005 JAN 1; 33: D447-D453	29	272	10	29
194	453 Meyers BC, Tingley SV, Morgante M Abundance, distribution, and transcriptional activity of repetitive elements in the maize genome GENOME RESEARCH. 2001 OCT; 11 (10): 1660-1676	28	153	2	63
195	506 Oliver JL, Bernaola-Galvan P, Carpena P, Roman-Roldan R Isochore chromosome maps of eukaryotic genomes GENE. 2001 OCT 3; 276 (1-2): 47-56	28	52	2	46
196	1441 Lespinet O, Wolf YI, Koonin EV, Aravind L The role of lineage-specific gene family expansion in the evolution of eukaryotes GENOME RESEARCH. 2002 JUL; 12 (7): 1048-1059	28	136	4	55
197	1680 Buzdin A, Ustyugova S, Gogvadze E, Vinogradova T, Lebedev Y, et al. A new family of chimeric retrotranscripts formed by a full copy of U6 small nuclear RNA fused to the 3 ' terminus of L1 GENOMICS. 2002 OCT; 80 (4): 402-406	28	33	2	14
198	1779 Guttmacher AE, Collins FS Genomic medicine - A primer NEW ENGLAND JOURNAL OF MEDICINE. 2002 NOV 7; 347 (19): 1512-1520	28	201	3	42
199	3282 Hughes JF, Coffin JM Human endogenous retrovirus K solo-LTR formation and insertional polymorphisms: Implications for human and viral evolution PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 FEB 10; 101 (6): 1668-1672	28	59	5	29
200	3428 Sorek R, Lev-Maor G, Reznik M, Dagan T, Belinky F, et al. Minimal conditions for exonization of intronic sequences: 5 ' splice site formation in Alu exons MOLECULAR CELL. 2004 APR 23; 14 (2): 221-231	28	68	17	56

Date / Author / Journal

LCS

GCS

LCR

101

1817 Kan ZY, States D, Gish W

Selecting for functional alternative splices in ESTs

GENOME RESEARCH. 2002 DEC; 12 (12): 1837-1845

120

102

2118 Kamath RS, Fraser AG, Dong Y, Poulin G, Durbin R, et al.

Systematic functional analysis of the Caenorhabditis elegans genome using RNAi

NATURE. 2003 JAN 16; 421 (6920): 231-237

1011

103

2904 Ostertag EM, Goodier JL, Zhang Y, Kazazian HH

SVA elements are nonautonomous retrotransposons that cause disease in humans

AMERICAN JOURNAL OF HUMAN GENETICS. 2003 DEC; 73 (6): 1444-1451

104

2922 Margulies EH, Blanchette M, Haussler D, Green ED, NISC Comparative Sequencing Progra

Identification and characterization of multi-species conserved sequences

GENOME RESEARCH. 2003 DEC; 13 (12): 2507-2518

169

105

2199 Faustino NA, Cooper TA

Pre-mRNA splicing and human disease

GENES & DEVELOPMENT. 2003 FEB 15; 17 (4): 419-437

432

183

106

2924 Zhang ZL, Harrison PM, Liu Y, Gerstein M

Millions of years of evolution preserved: A comprehensive catalog of the processed pseudogenes in the human genome

GENOME RESEARCH. 2003 DEC; 13 (12): 2541-2558

132

107

3164 Ota T, Suzuki Y, Nishikawa T, Otsuki T, Sugiyama T, et al.

Complete sequencing and characterization of 21,243 full-length human cDNAs

NATURE GENETICS. 2004 JAN; 36 (1): 40-45

269

108

3809 Ast G

How did alternative splicing evolve?

NATURE REVIEWS GENETICS. 2004 OCT; 5 (10): 773-782

174

109

3967 Bertone P, Stolc V, Royce TE, Rozowsky JS, Urban AE, et al.

Global identification of human transcribed sequences with genome tiling arrays

SCIENCE. 2004 DEC 24; 306 (5705): 2242-2246

266

110

2218 Boffelli D, McAuliffe J, Ovcharenko D, Lewis KD, Ovcharenko I, et al.

Phylogenetic shadowing of primate sequences to find functional regions of the human genome

SCIENCE. 2003 FEB 28; 299 (5611): 1391-1394

259

Date / Author / Journal

LCS

GCS

LCR

111

2233 Liu G, Zhao SY, Bailey JA, Sahinalp SC, Alkan C, et al.

Analysis of primate genomic variation reveals a repeat-driven expansion of the human genome

GENOME RESEARCH. 2003 MAR; 13 (3): 358-368

112

2533 Skaletsky H, Kuroda-Kawaguchi T, Minx PJ, Cordum HS, Hillier L, et al.

The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes

NATURE. 2003 JUN 19; 423 (6942): 825-U2

506

113

146 Yeh RF, Lim LP, Burge CB

Computational inference of homologous gene structures in the human genome

GENOME RESEARCH. 2001 MAY; 11 (5): 803-816

161

114

1369 Lercher MJ, Urrutia AO, Hurst LD

Clustering of housekeeping genes provides a unified model of gene order in the human genome

NATURE GENETICS. 2002 JUN; 31 (2): 180-183

257

115

2939 Perepelitsa-Belancio V, Deininger P

RNA truncation by premature polyadenylation attenuates human mobile element activity

NATURE GENETICS. 2003 DEC; 35 (4): 363-366

116

3274 Sorek R, Shamir R, Ast G

How prevalent is functional alternative splicing in the human genome?

TRENDS IN GENETICS. 2004 FEB; 20 (2): 68-71

146

117

3546 Meunier J, Duret L

Recombination drives the evolution of GC-content in the human genome

MOLECULAR BIOLOGY AND EVOLUTION. 2004 JUN; 21 (6): 984-990

108

118

362 Roy-Engel AM, Carroll ML, Vogel E, Garber RK, Nguyen SV, et al.

Alu insertion polymorphisms for the study of human genomic diversity

GENETICS. 2001 SEP; 159 (1): 279-290

119

4590 Gilbert N, Lutz S, Morrish TA, Moran JV

Multiple fates of L1 retrotransposition intermediates in cultured human cells

MOLECULAR AND CELLULAR BIOLOGY. 2005 SEP; 25 (17): 7780-7795

120

503 Bernardi G

Misunderstandings about isochores. Part 1

GENE. 2001 OCT 3; 276 (1-2): 3-13

Date / Author / Journal

LCS

GCS

LCR

121

660 Ovchinnikov I, Troxel AB, Swergold GD

Genomic characterization of recent human LINE-1 insertions: Evidence supporting random insertion

GENOME RESEARCH. 2001 DEC; 11 (12): 2050-2058

122

2200 Rinn JL, Euskirchen G, Bertone P, Martone R, Luscombe NM, et al.

The transcriptional activity of human Chromosome 22

GENES & DEVELOPMENT. 2003 FEB 15; 17 (4): 529-540

125

123

4460 Muotri AR, Chu VT, Marchetto MCN, Deng W, Moran JV, et al.

Somatic mosaicism in neuronal precursor cells mediated by L1 retrotransposition

NATURE. 2005 JUN 16; 435 (7044): 903-910

104

124

2596 Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, et al.

The DNA sequence of human chromosome 7

NATURE. 2003 JUL 10; 424 (6945): 157-U2

125

3418 Belshaw R, Pereira V, Katzourakis A, Talbot G, Paces J, et al.

Long-term reinfection of the human genome by endogenous retroviruses

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 APR 6; 101 (14): 4894-4899

126

513 Schueler MG, Higgins AW, Rudd MK, Gustashaw K, Willard HF

Genomic and genetic definition of a functional human centromere

SCIENCE. 2001 OCT 5; 294 (5540): 109-115

192

127

681 Davuluri RV, Grosse I, Zhang MQ

Computational identification of promoters and first exons in the human genome

NATURE GENETICS. 2001 DEC; 29 (4): 412-417

200

128

2595 Levine M, Tjian R

Transcription regulation and animal diversity

NATURE. 2003 JUL 10; 424 (6945): 147-151

397

129

2708 Versteeg R, van Schaik BDC, van Batenburg MF, Roos M, Monajemi R, et al.

The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes

GENOME RESEARCH. 2003 SEP; 13 (9): 1998-2004

140

130

3530 Hedges DJ, Callinan PA, Cordaux R, Xing J, Barnes E, et al.

Differential Alu mobilization and polymorphism among the human and chimpanzee lineages

GENOME RESEARCH. 2004 JUN; 14 (6): 1068-1075

Date / Author / Journal

LCS

GCS

LCR

131

3775 Bennettt EA, Coleman LE, Tsui C, Pittard WS, Devine SE

Natural genetic variation caused by transposable elements in humans

GENETICS. 2004 OCT; 168 (2): 933-951

132

58 Baltimore D

Our genome unveiled

NATURE. 2001 FEB 15; 409 (6822): 814-816

120

133

450 Galtier N, Piganeau G, Mouchiroud D, Duret L

GC-content evolution in mammalian genomes: The biased gene conversion hypothesis

GENETICS. 2001 OCT; 159 (2): 907-911

113

134

472 Rioux JD, Daly MJ, Silverberg MS, Lindblad K, Steinhart H, et al.

Genetic variation in the 5q31 cytokine gene cluster confers susceptibility to Crohn disease

NATURE GENETICS. 2001 OCT; 29 (2): 223-228

505

135

1119 Roy-Engel AM, Carroll ML, El-Sawy M, Salem AH, Garber RK, et al.

Non-traditional Alu evolution and primate genomic diversity

JOURNAL OF MOLECULAR BIOLOGY. 2002 MAR 8; 316 (5): 1033-1040

136

1229 Kidwell MG

Transposable elements and the evolution of genome size in eukaryotes

GENETICA. 2002 MAY; 115 (1): 49-63

121

137

2472 Zavolan M, Kondo S, Schonbach C, Adachi J, Hume DA, et al.

Impact of alternative initiation, splicing, and termination on the diversity of the mRNA transcripts encoded by the mouse transcriptome

GENOME RESEARCH. 2003 JUN; 13 (6B): 1290-1300

117

138

4519 Han JS, Boeke JD

LINEA retrotransposons: modulators of quantity and quality of mammalian gene expression?

BIOESSAYS. 2005 AUG; 27 (8): 775-784

139

177 Hastings ML, Krainer AR

Pre-mRNA splicing in the new millennium

CURRENT OPINION IN CELL BIOLOGY. 2001 JUN; 13 (3): 302-309

261

140

1847 Ostertag EM, DeBerardinis RJ, Goodier JL, Zhang Y, Yang N, et al.

A mouse model of human L1 retrotransposition

NATURE GENETICS. 2002 DEC; 32 (4): 655-660

Date / Author / Journal

LCS

GCS

LCR

141

1868 Manning G, Whyte DB, Martinez R, Hunter T, Sudarsanam S

The protein kinase complement of the human genome

SCIENCE. 2002 DEC 6; 298 (5600): 1912-+

1587

142

2190 Heilig R, Eckenberg R, Petit JL, Fonknechten NR, Da Silva C, et al.

The DNA sequence and analysis of human chromosome 14

NATURE. 2003 FEB 6; 421 (6923): 601-U1

143

2670 Buzdin A, Gogvadze E, Kovalskaya E, Volchkov P, Ustyugova S, et al.

The human genome contains many types of chimeric retrogenes generated through in vivo RNA recombination

NUCLEIC ACIDS RESEARCH. 2003 AUG 1; 31 (15): 4385-4390

144

5283 Nishihara H, Smit AFA, Okada N

Functional noncoding sequences derived from SINEs in the mammalian genome

GENOME RESEARCH. 2006 JUL; 16 (7): 864-874

145

13 Ideker T, Galitski T, Hood L

A new approach to decoding life: Systems biology

ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS. 2001; 2: 343-372

426

142

146

930 Fujiyama A, Watanabe H, Toyoda A, Taylor TD, Itoh T, et al.

Construction and analysis of a human-chimpanzee comparative clone map

SCIENCE. 2002 JAN 4; 295 (5552): 131-134

122

147

1598 Roy-Engel AM, Salem AH, Oyeniran OO, Deininger L, Hedges DJ, et al.

Active alu element "A-tails,": Size does matter

GENOME RESEARCH. 2002 SEP; 12 (9): 1333-1344

148

3508 Watanabe H, Fujiyama A, Hattori M, Taylor TD, Toyoda A, et al.

DNA sequence and comparative analysis of chimpanzee chromosome 22

NATURE. 2004 MAY 27; 429 (6990): 382-388

113

149

3769 Peaston AE, Evsikov AV, Graber JH, de Vries WN, Holbrook AE, et al.

Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos

DEVELOPMENTAL CELL. 2004 OCT; 7 (4): 597-606

150

4579 Chen JM, Stenson PD, Cooper DN, Ferec C

A systematic analysis of LINE-1 endonuclease-dependent retrotranspositional events causing human genetic disease

HUMAN GENETICS. 2005 SEP; 117 (5): 411-427

133

Date / Author / Journal

LCS

GCS

LCR

151

4993 Feuk L, Carson AR, Scherer SW

Structural variation in the human genome

NATURE REVIEWS GENETICS. 2006 FEB; 7 (2): 85-97

323

113

152

1371 Gu X, Wang YF, Gu JY

Age distribution of human gene families shows significant roles of both large-and small-scale duplications in vertebrate evolution

NATURE GENETICS. 2002 JUN; 31 (2): 205-209

152

153

1704 Zdobnov EM, von Mering C, Letunic I, Torrents D, Suyama M, et al.

Comparative genome and proteome analysis of anopheles gambiae and Drosophila melanogaster

SCIENCE. 2002 OCT 4; 298 (5591): 149-159

259

154

2556 Sorek R, Ast G

Intronic sequences flanking alternatively spliced exons are conserved between human and mouse

GENOME RESEARCH. 2003 JUL; 13 (7): 1631-1637

140

155

2676 Eichler EE, Sankoff D

Structural dynamics of eukaryotic chromosome evolution

SCIENCE. 2003 AUG 8; 301 (5634): 793-797

155

156

4517 Murphy WJ, Larkin DM, Everts-van der Wind A, Bourque G, Tesler G, et al.

Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps

SCIENCE. 2005 JUL 22; 309 (5734): 613-617

201

157

4674 Myers S, Bottolo L, Freeman C, McVean G, Donnelly P

A fine-scale map of recombination rates and hotspots across the human genome

SCIENCE. 2005 OCT 14; 310 (5746): 321-324

234

158

683 Hughes JF, Coffin JM

Evidence for genomic rearrangements mediated by human endogenous retroviruses during primate evolution

NATURE GENETICS. 2001 DEC; 29 (4): 487-489

159

881 Batzoglou S, Jaffe DB, Stanley K, Butler J, Gnerre S, et al.

ARACHNE: A whole-genome shotgun assembler

GENOME RESEARCH. 2002 JAN; 12 (1): 177-189

137

160

2064 Pevzner P, Tesler G

Genome Rearrangements in mammalian evolution: Lessons from human and mouse genomes

GENOME RESEARCH. 2003 JAN; 13 (1): 37-45

126

Date / Author / Journal

LCS

GCS

LCR

161

2536 Pevzner P, Tesler G

Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 JUN 24; 100 (13): 7672-7677

141

162

2832 Dunn CA, Medstrand P, Mager DL

An endogenous retroviral long terminal repeat is the dominant promoter for human beta 1,3-galactosyltransferase 5 in the colon

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 OCT 28; 100 (22): 12841-12846

163

2925 Torrents D, Suyama M, Zdobnov E, Bork P

A genome-wide survey of human pseudogenes

GENOME RESEARCH. 2003 DEC; 13 (12): 2559-2567

164

3813 Cordaux R, Hedges DJ, Batzer MA

Retrotransposition of Alu elements: how many sources?

TRENDS IN GENETICS. 2004 OCT; 20 (10): 464-467

165

4173 Stamm S, Ben-Ari S, Rafalska I, Tang YS, Zhang ZY, et al.

Function of alternative splicing

GENE. 2005 JAN 3; 344: 1-20

243

237

166

67 Jimenez-Sanchez G, Childs B, Valle D

Human disease genes

NATURE. 2001 FEB 15; 409 (6822): 853-855

132

167

424 Lim LP, Burge CB

A computational analysis of sequence features involved in recognition of short introns

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2001 SEP 25; 98 (20): 11193-11198

146

168

1264 Feschotte C, Jiang N, Wessler SR

Plant transposable elements: Where genetics meets genomics

NATURE REVIEWS GENETICS. 2002 MAY; 3 (5): 329-341

221

117

169

2555 Watkins WS, Rogers AR, Ostler CT, Wooding S, Bamshad MJ, et al.

Genetic variation among world populations: Inferences from 100 Alu insertion polymorphisms

GENOME RESEARCH. 2003 JUL; 13 (7): 1607-1618

170

3181 Furano AV, Duvernell DD, Boissinot S

L1 (LINE-1) retrotransposon diversity differs dramatically between mammals and fish

TRENDS IN GENETICS. 2004 JAN; 20 (1): 9-14

Date / Author / Journal

171

Yesterday's polyploids and the mystery of diploidization

NATURE REVIEWS GENETICS. 2001 MAY; 2 (5): 333-341

251

172

365 Kent WJ, Haussler D

Assembly of the working draft of the human genome with GigAssembler

GENOME RESEARCH. 2001 SEP; 11 (9): 1541-1548

173

1363 Bartolome C, Maside X, Charlesworth B

On the abundance and distribution of transposable elements in the genome of Drosophila melanogaster

MOLECULAR BIOLOGY AND EVOLUTION. 2002 JUN; 19 (6): 926-937

174

1978 Ohshima K, Hattori M, Yada T, Gojobori T, Sakaki Y, et al.

Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates

GENOME BIOLOGY. 2003; 4 (11): Art. No. R74

175

2063 Collins JE, Goward ME, Cole CG, Smink LJ, Huckle EJ, et al.

Reevaluating human gene annotation: A second-generation analysis of chromosome 22

GENOME RESEARCH. 2003 JAN; 13 (1): 27-36

176

2493 Fredriksson R, Lagerstrom MC, Lundin LG, Schioth HB

The G-protein-coupled receptors in the human genome form five main families. Phylogenetic analysis, paralogon groups, and fingerprints

MOLECULAR PHARMACOLOGY. 2003 JUN; 63 (6): 1256-1272

432

177

2770 Mattick JS

Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms

BIOESSAYS. 2003 OCT; 25 (10): 930-939

191

104

178

3049 Bailey JA, Baertsch R, Kent WJ, Haussler D, Eichler EE

Hotspots of mammalian chromosomal evolution

GENOME BIOLOGY. 2004; 5 (4): Art. No. R23

109

179

4916 Khan H, Smit A, Boissinot S

Molecular evolution and tempo of amplification of human LINE-1 retrotransposons since the origin of primates

GENOME RESEARCH. 2006 JAN; 16 (1): 78-87

180

5272 Sen SK, Han KD, Wang JX, Lee J, Wang H, et al.

Human genomic deletions mediated by recombination between Alu elements

AMERICAN JOURNAL OF HUMAN GENETICS. 2006 JUL; 79 (1): 41-53

Date / Author / Journal

LCS

GCS

LCR

181

474 Emanuel BS, Shaikh TH

Segmental duplications: An 'expanding' role in genomic instability and disease

NATURE REVIEWS GENETICS. 2001 OCT; 2 (10): 791-800

142

182

515 Camargo AA, Samaia HPB, Dias-Neto E, Simao DF, Migotto IA, et al.

The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2001 OCT 9; 98 (21): 12103-12108

183

687 Syvanen AC

Accessing genetic variation: Genotyping single nucleotide polymorphisms

NATURE REVIEWS GENETICS. 2001 DEC; 2 (12): 930-942

372

138

184

925 Suzuki Y, Yamashita R, Nakai K, Sugano S

DBTSS: DataBase of human transcriptional start sites and full-length cDNAs

NUCLEIC ACIDS RESEARCH. 2002 JAN 1; 30 (1): 328-331

126

185

933 Greally JM

Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2002 JAN 8; 99 (1): 327-332

186

1291 Clark TA, Sugnet CW, Ares M

Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays

SCIENCE. 2002 MAY 3; 296 (5569): 907-910

157

187

1331 Weiner AM

SINEs and LINEs: the art of biting the hand that feeds you

CURRENT OPINION IN CELL BIOLOGY. 2002 JUN; 14 (3): 343-350

188

1965 Cheung J, Estivill X, Khaja R, MacDonald JR, Lau K, et al.

Genome-wide detection of segmental duplications and potential assembly errors in the human genome sequence

GENOME BIOLOGY. 2003; 4 (4): Art. No. R25

189

2830 Mungall AJ, Palmer SA, Sims SK, Edwards CA, Ashurst JL, et al.

The DNA sequence and analysis of human chromosome 6

NATURE. 2003 OCT 23; 425 (6960): 805-U1

190

2833 Blaise S, de Parseval N, Benit L, Heidmann T

Genomewide screening for fusogenic human endogenous retrovirus envelopes identifies syncytin 2, a gene conserved on primate evolution

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2003 OCT 28; 100 (22): 13013-13018

Date / Author / Journal

LCS

GCS

LCR

191

2862 Arndt PF, Petrov DA, Hwa T

Distinct changes of genomic biases in nucleotide substitution at the time of mammalian radiation

MOLECULAR BIOLOGY AND EVOLUTION. 2003 NOV; 20 (11): 1887-1896

192

3963 Pan Q, Shai O, Misquitta C, Zhang W, Saltzman AL, et al.

Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform

MOLECULAR CELL. 2004 DEC 22; 16 (6): 929-941

140

193

4168 Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y, et al.

Ensembl 2005

NUCLEIC ACIDS RESEARCH. 2005 JAN 1; 33: D447-D453

272

194

453 Meyers BC, Tingley SV, Morgante M

Abundance, distribution, and transcriptional activity of repetitive elements in the maize genome

GENOME RESEARCH. 2001 OCT; 11 (10): 1660-1676

153

195

506 Oliver JL, Bernaola-Galvan P, Carpena P, Roman-Roldan R

Isochore chromosome maps of eukaryotic genomes

GENE. 2001 OCT 3; 276 (1-2): 47-56

196

1441 Lespinet O, Wolf YI, Koonin EV, Aravind L

The role of lineage-specific gene family expansion in the evolution of eukaryotes

GENOME RESEARCH. 2002 JUL; 12 (7): 1048-1059

136

197

1680 Buzdin A, Ustyugova S, Gogvadze E, Vinogradova T, Lebedev Y, et al.

A new family of chimeric retrotranscripts formed by a full copy of U6 small nuclear RNA fused to the 3 ' terminus of L1

GENOMICS. 2002 OCT; 80 (4): 402-406

198

1779 Guttmacher AE, Collins FS

Genomic medicine - A primer

NEW ENGLAND JOURNAL OF MEDICINE. 2002 NOV 7; 347 (19): 1512-1520

201

199

3282 Hughes JF, Coffin JM

Human endogenous retrovirus K solo-LTR formation and insertional polymorphisms: Implications for human and viral evolution

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2004 FEB 10; 101 (6): 1668-1672

200

3428 Sorek R, Lev-Maor G, Reznik M, Dagan T, Belinky F, et al.

Minimal conditions for exonization of intronic sequences: 5 ' splice site formation in Alu exons

MOLECULAR CELL. 2004 APR 23; 14 (2): 221-231

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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