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

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#	Date / Author / Journal	LCS	GCS	LCR	CR
2901	5584 Lev-Maor G, Sorek R, Levanon EY, Paz N, Eisenberg E, et al. RNA-editing-mediated exon evolution GENOME BIOLOGY. 2007; 8 (2): Art. No. R29	9	23	13	44
2902	5585 Jimenez JL, Hegemann B, Outchins JRA, Peters JM, Durbin R A systematic comparative and structural analysis of protein phosphorylation sites based on the mtcPTM database GENOME BIOLOGY. 2007; 8 (5): Art. No. R90	0	6	4	85
2903	5586 Mahony S, Corcoran DL, Feingold E, Benos PV Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome GENOME BIOLOGY. 2007; 8 (5): Art. No. r84	0	7	17	71
2904	5587 Huerta-Cepas J, Dopazo H, Dopazo J, Gabaldon T The human phylome GENOME BIOLOGY. 2007; 8 (6): Art. No. R109	0	25	12	91
2905	5588 Sela N, Mersch B, Gal-Mark N, Lev-Maor G, Hotz-Wagenblatt A, et al. Comparative analysis of transposed element insertion within human and mouse genomes reveals Alu's unique role in shaping the human transcriptome GENOME BIOLOGY. 2007; 8 (6): Art. No. R127	16	31	27	57
2906	5589 Snelling WM, Chiu R, Schein JE, Hobbs M, Abbey CA, et al. A physical map of the bovine genome GENOME BIOLOGY. 2007; 8 (8): Art. No. R165	5	20	10	70
2907	5590 Bhutkar A, Gelbart WM, Smith TF Inferring genome-scale rearrangement phylogeny and ancestral gene order: a Drosophila case study GENOME BIOLOGY. 2007; 8 (11): Art. No. R236	1	7	9	71
2908	6210 Urrutia AO, Ocana LB, Hurst LD Do Alu repeats drive the evolution of the primate transcriptome? GENOME BIOLOGY. 2008; 9 (2): Art. No. R25	2	6	31	75
2909	6211 Anton MA, Gorostiaga D, Guruceaga E, Segura V, Carmona-Saez P, et al. SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays GENOME BIOLOGY. 2008; 9 (2): Art. No. R46	0	4	9	30
2910	6212 McGuire AM, Pearson MD, Neafsey DE, Galagan JE Cross-kingdom patterns of alternative splicing and splice recognition GENOME BIOLOGY. 2008; 9 (3): Art. No. R50	4	8	20	86
#	Date / Author / Journal	LCS	GCS	LCR	CR
2911	6213 Phillippy AM, Schatz MC, Pop M Genome assembly forensics: finding the elusive mis-assembly GENOME BIOLOGY. 2008; 9 (3): Art. No. R55	0	10	13	42
2912	6214 Wang SZ, Lorenzen MD, Beeman RW, Brown SJ Analysis of repetitive DNA distribution patterns in the Tribolium castaneum genome GENOME BIOLOGY. 2008; 9 (3): Art. No. R61	0	1	6	44
2913	6215 Rahim NG, Harismendy O, Topol EJ, Frazer KA Genetic determinants of phenotypic diversity in humans GENOME BIOLOGY. 2008; 9 (4): Art. No. 215	0	4	5	92
2914	6216 Cole CG, McCann OT, Collins JE, Oliver K, Willey D, et al. Finishing the finished human chromosome 22 sequence GENOME BIOLOGY. 2008; 9 (5): Art. No. R78	0	1	12	42
2915	6217 Han L, Su B, Li WH, Zhao ZM CpG island density and its correlations with genomic features in mammalian genomes GENOME BIOLOGY. 2008; 9 (5): Art. No. R79	1	9	16	46
2916	6218 Ordonez GR, Hillier LW, Warren WC, Grutzner F, Lopez-Otin C, et al. Loss of genes implicated in gastric function during platypus evolution GENOME BIOLOGY. 2008; 9 (5): Art. No. R81	0	4	8	55
2917	6219 Kristiansson K, Naukkarinen J, Peltonen L Isolated populations and complex disease gene identification GENOME BIOLOGY. 2008; 9 (8): Art. No. 109	0	3	3	86
2918	6220 Ramialison M, Bajoghli B, Aghaallaei N, Ettwiller L, Gaudan S, et al. Rapid identification of PAX2/5/8 direct downstream targets in the otic vesicle by combinatorial use of bioinformatics tools GENOME BIOLOGY. 2008; 9 (10): Art. No. R145	0	2	5	53
2919	6221 Tsipouri V, Schueler MG, Hu SF, Dutra A, Pak E, et al. Comparative sequence analyses reveal sites of ancestral chromosomal fusions in the Indian muntjac genome GENOME BIOLOGY. 2008; 9 (10): Art. No. R155	0	1	12	62
2920	6222 Lomiento M, Jiang ZS, D'Addabbo P, Eichler EE, Rocchi M Evolutionary-new centromeres preferentially emerge within gene deserts GENOME BIOLOGY. 2008; 9 (12): Art. No. R173	0	2	7	31
#	Date / Author / Journal	LCS	GCS	LCR	CR
2921	6829 Harrow J, Nagy A, Reymond A, Alioto T, Patthy L, et al. Identifying protein-coding genes in genomic sequences GENOME BIOLOGY. 2009; 10 (1): Art. No. 201	0	1	14	60
2922	6830 Balasubramanian S, Zheng DY, Liu YJ, Fang G, Frankish A, et al. Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes GENOME BIOLOGY. 2009; 10 (1): Art. No. R2	0	2	16	40
2923	6831 Milde S, Hemmrich G, Anton-Erxleben F, Khalturin K, Wittlieb J, et al. Characterization of taxonomically restricted genes in a phylum-restricted cell type GENOME BIOLOGY. 2009; 10 (1): Art. No. R8	1	3	4	44
2924	6832 Fulton DL, Sundararajan S, Badis G, Hughes TR, Wasserman WW, et al. TFCat: the curated catalog of mouse and human transcription factors GENOME BIOLOGY. 2009; 10 (3): Art. No. R29	0	0	9	72
2925	6833 Weigel D, Mott R The 1001 Genomes Project for Arabidopsis thaliana GENOME BIOLOGY. 2009; 10 (5): Art. No. 107	0	2	3	42
2926	6834 Chalker DL Transposons that clean up after themselves GENOME BIOLOGY. 2009; 10 (6): Art. No. 224	0	0	2	26
2927	6835 Glessner JT, Hakonarson H Common variants in polygenic schizophrenia GENOME BIOLOGY. 2009; 10 (9): Art. No. 236	0	0	2	24
2928	6836 Rangwala SH, Zhang LL, Kazazian HH Many LINE1 elements contribute to the transcriptome of human somatic cells GENOME BIOLOGY. 2009; 10 (9): Art. No. R100	0	0	37	69
2929	6837 Ramani AK, Nelson AC, Kapranov P, Bell I, Gingeras TR, et al. High resolution transcriptome maps for wild-type and nonsense-mediated decay-defective Caenorhabditis elegans GENOME BIOLOGY. 2009; 10 (9): Art. No. R101	0	0	6	69
2930	113 Gentles AJ, Karlin S Genome-scale compositional comparisons in eukaryotes GENOME RESEARCH. 2001 APR; 11 (4): 540-546	13	82	1	22
#	Date / Author / Journal	LCS	GCS	LCR	CR
2931	140 Goodman L Unlimited access - Limitless success GENOME RESEARCH. 2001 MAY; 11 (5): 637-638	0	1	2	2
2932	141 Collins FS Contemplating the end of the beginning GENOME RESEARCH. 2001 MAY; 11 (5): 641-643	1	17	2	3
2933	142 Green ED, Chakravarti A The human genome sequence expedition: Views from the "Base Camp" GENOME RESEARCH. 2001 MAY; 11 (5): 645-651	3	11	9	27
2934	143 Eichler EE Segmental duplications: What's missing, misassigned, and misassembled - and should we care? GENOME RESEARCH. 2001 MAY; 11 (5): 653-656	25	48	6	18
2935	144 Makalowski W Are we polyploids? A brief history of one hypothesis GENOME RESEARCH. 2001 MAY; 11 (5): 667-670	8	33	2	27
2936	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
2937	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
2938	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
2939	184 Inoue K, Dewar K, Katsanis N, Reiter LT, Lander ES, et al. The 1.4-Mb CMT1A duplication/HNPP deletion genomic region reveals unique genome architectural features and provides insights into the recent evolution of new genes GENOME RESEARCH. 2001 JUN; 11 (6): 1018-1033	12	73	1	70
2940	225 Dean M, Rzhetsky A, Allikmets R The human ATP-binding cassette (ABC) transporter superfamily GENOME RESEARCH. 2001 JUL; 11 (7): 1156-1166	7	481	2	70
#	Date / Author / Journal	LCS	GCS	LCR	CR
2941	226 Hu GK, Madore SJ, Moldover B, Jatkoe T, Balaban D, et al. Predicting splice variant from DNA chip expression data GENOME RESEARCH. 2001 JUL; 11 (7): 1237-1245	26	75	1	17
2942	227 Tapper WJ, Morton NE, Dunham I, Ke XY, Collins A A sequence-based integrated map of chromosome 22 GENOME RESEARCH. 2001 JUL; 11 (7): 1290-1295	4	16	2	34
2943	285 Caceres M, Puig M, Ruiz A Molecular characterization of two natural hotspots in the Drosophila buzzatii genome induced by transposon insertions GENOME RESEARCH. 2001 AUG; 11 (8): 1353-1364	11	36	2	90
2944	286 Mathews DJ, Kashuk C, Brightwell G, Eichler EE, Chakravarti A Sequence variation within the fragile x locus GENOME RESEARCH. 2001 AUG; 11 (8): 1382-1391	0	6	2	48
2945	287 Yu YT, Zhang CG, Zhou GQ, Wu SF, Qu XH, et al. Gene expression profiling in human fetal liver and identification of tissue-and developmental-stage-specific genes through compiled expression profiles and efficient cloning of full-length cDNAs GENOME RESEARCH. 2001 AUG; 11 (8): 1392-1403	5	32	2	32
2946	363 Pevzner PA Assembling puzzles from preassembled blocks GENOME RESEARCH. 2001 SEP; 11 (9): 1461-1462	1	1	2	8
2947	364 Beaudoing E, Gautheret D Identification of alternate polyadenylation sites and analysis of their tissue distribution using EST data GENOME RESEARCH. 2001 SEP; 11 (9): 1520-1526	14	81	2	20
2948	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
2949	452 Cai WW, Chen R, Gibbs RA, Bradley A A clone-array pooled shotgun strategy for sequencing large genomes GENOME RESEARCH. 2001 OCT; 11 (10): 1619-1623	7	22	2	18
2950	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
#	Date / Author / Journal	LCS	GCS	LCR	CR
2951	454 Margulies EH, Kardia SLR, Innis JW A comparative molecular analysis of developing mouse forelimbs and hindlimbs using Serial Analysis of Gene Expression (SAGE) GENOME RESEARCH. 2001 OCT; 11 (10): 1686-1698	1	41	2	59
2952	455 Zhao SY, Shatsman S, Ayodeji B, Geer K, Tsegaye G, et al. Mouse BAC ends quality assessment and sequence analyses GENOME RESEARCH. 2001 OCT; 11 (10): 1736-1745	7	37	5	38
2953	456 Crabtree J, Wiltshire T, Brunk B, Zhao SY, Schug J, et al. High-resolution BAC-based map of the central portion of mouse chromosome 5 GENOME RESEARCH. 2001 OCT; 11 (10): 1746-1757	0	0	2	33
2954	457 Suzuki H, Fukunishi Y, Kagawa I, Saito R, Oda H, et al. Protein-protein interaction panel using mouse full-length cDNAs GENOME RESEARCH. 2001 OCT; 11 (10): 1758-1765	12	58	2	29
2955	555 Watson JD The human genome revealed GENOME RESEARCH. 2001 NOV; 11 (11): 1803-1804	1	2	2	3
2956	556 Chen R, Bouck JB, Weinstock GM, Gibbs RA Comparing vertebrate whole-genome shotgun reads to the human genome GENOME RESEARCH. 2001 NOV; 11 (11): 1807-1816	7	12	2	15
2957	557 Friedman R, Hughes AL Pattern and timing of gene duplication in animal genomes GENOME RESEARCH. 2001 NOV; 11 (11): 1842-1847	20	77	4	29
2958	558 Hide WA, Babenko VN, van Heusden PA, Seoighe C, Kelso JF The contribution of exon-skipping events on chromosome 22 to protein coding diversity GENOME RESEARCH. 2001 NOV; 11 (11): 1848-1853	15	31	1	27
2959	559 Ponger L, Duret L, Mouchiroud D Determinants of CpG islands: Expression in early embryo and isochore structure GENOME RESEARCH. 2001 NOV; 11 (11): 1854-1860	18	59	1	47
2960	560 Tugendreich S, Perkins E, Couto J, Barthmaier P, Sun DX, et al. A streamlined process to phenotypically profile heterologous cDNAs in parallel using yeast cell-based assays GENOME RESEARCH. 2001 NOV; 11 (11): 1899-1912	1	12	2	65
#	Date / Author / Journal	LCS	GCS	LCR	CR
2961	561 Cutler DJ, Zwick ME, Carrasquillo MM, Yohn CT, Tobin KP, et al. High-throughput variation detection and genotyping using microarrays GENOME RESEARCH. 2001 NOV; 11 (11): 1913-1925	9	148	2	40
2962	562 Kwitek AE, Tonellato PJ, Chen D, Gullings-Handley J, Cheng YJS, et al. Automated construction of high-density comparative maps between rat, human, and mouse GENOME RESEARCH. 2001 NOV; 11 (11): 1935-1943	6	25	1	40
2963	563 Wheelan SJ, Church DM, Ostell JM Spidey: A tool for mRNA-to-genomic alignments GENOME RESEARCH. 2001 NOV; 11 (11): 1952-1957	25	127	1	5
2964	658 Wong GKS, Passey DA, Yu J Most of the human genome is transcribed GENOME RESEARCH. 2001 DEC; 11 (12): 1975-1977	13	27	3	14
2965	659 Ponting CP, Mott R, Bork P, Copley RR Novel protein domains and repeats in Drosophila melanogaster: Insights into structure, function, and evolution GENOME RESEARCH. 2001 DEC; 11 (12): 1996-2008	3	34	1	91
2966	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
2967	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
2968	662 Lenhard B, Hayes WS, Wasserman WW GeneLynx: A gene-centric portal to the human genome GENOME RESEARCH. 2001 DEC; 11 (12): 2151-2157	0	29	2	16
2969	875 DeSilva U, Elnitski L, Idol JR, Doyle JL, Gan WN, et al. Generation and comparative analysis of similar to 3.3 Mb of mouse genomic sequence orthologous to the region of human chromosome 7q11.23 implicated in Williams syndrome GENOME RESEARCH. 2002 JAN; 12 (1): 3-15	19	52	4	120
2970	876 Bourque G, Pevzner PA Genome-scale evolution: Reconstructing gene orders in the ancestral species GENOME RESEARCH. 2002 JAN; 12 (1): 26-36	14	154	2	39
#	Date / Author / Journal	LCS	GCS	LCR	CR
2971	877 Doerks T, Copley RR, Schultz J, Ponting CP, Bork P Systematic identification of novel protein domain families associated with nuclear functions GENOME RESEARCH. 2002 JAN; 12 (1): 47-56	2	58	1	47
2972	878 Bolshakov VN, Topalis P, Blass C, Kokoza E, della Torre A, et al. A comparative genomic analysis of two distant diptera, the fruit fly, Drosophila melanogaster, and the malaria mosquito, Anopheles gambiae GENOME RESEARCH. 2002 JAN; 12 (1): 57-66	5	32	1	57
2973	879 Crosier M, Viggiano L, Guy J, Misceo D, Stones R, et al. Human paralogs of KIAA0187 were created through independent pericentromeric-directed and chromosome-specific duplication mechanisms GENOME RESEARCH. 2002 JAN; 12 (1): 67-80	14	21	4	60
2974	880 Lane RP, Roach JC, Lee IY, Boysen C, Smit A, et al. Genomic analysis of the olfactory receptor region of the mouse and human T-cell receptor alpha/delta loci GENOME RESEARCH. 2002 JAN; 12 (1): 81-87	2	13	3	39
2975	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
2976	882 Raymond CK, Sims EH, Olson MV Linker-mediated recombinational subcloning of large DNA fragments using yeast GENOME RESEARCH. 2002 JAN; 12 (1): 190-197	0	24	2	39
2977	883 Nekrutenko A, Makova KD, Li WH The K-A/K-S ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study GENOME RESEARCH. 2002 JAN; 12 (1): 198-202	14	70	2	13
2978	983 Grisart B, Coppieters W, Farnir F, Karim L, Ford C, et al. Positional candidate cloning of a QTL in dairy cattle: Identification of a missense mutation in the bovine DGAT1 gene with major effect on milk yield and composition GENOME RESEARCH. 2002 FEB; 12 (2): 222-231	9	222	1	28
2979	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
2980	985 Ogiwara I, Miya M, Ohshima K, Okada N V-SINEs: A new superfamily of vertebrate SINEs that are widespread in vertebrate Genomes and retain a strongly conserved segment within each repetitive unit GENOME RESEARCH. 2002 FEB; 12 (2): 316-324	20	40	1	53
#	Date / Author / Journal	LCS	GCS	LCR	CR
2981	1068 Yoshihama M, Uechi T, Asakawa S, Kawasaki K, Kato S, et al. The human ribosomal protein genes: Sequencing and comparative analysis of 73 genes GENOME RESEARCH. 2002 MAR; 12 (3): 379-390	9	55	1	62
2982	1069 Pavlicek A, Paces J, Elleder D, Hejnar J Processed Pseudogenes of human endogenous retroviruses generated by LINEs: Their integration, stability, and distribution GENOME RESEARCH. 2002 MAR; 12 (3): 391-399	20	45	4	69
2983	1070 Liu RX, States DJ Consensus promoter identification in the human genome utilizing expressed gene markers and gene modeling GENOME RESEARCH. 2002 MAR; 12 (3): 462-469	11	24	2	22
2984	1071 Doi N, Takashima H, Kinjo M, Sakata K, Kawahashi Y, et al. Novel fluorescence labeling and high-throughput assay technologies for in vitro analysis of protein interactions GENOME RESEARCH. 2002 MAR; 12 (3): 487-492	1	51	2	39
2985	1072 Lee Y, Sultana R, Pertea G, Cho J, Karamycheva S, et al. Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA) GENOME RESEARCH. 2002 MAR; 12 (3): 493-502	9	95	2	50
2986	1150 Kent WJ BLAT - The BLAST-like alignment tool GENOME RESEARCH. 2002 APR; 12 (4): 656-664	206	1355	1	20
2987	1233 Mardis E, McPherson J, Martienssen R, Wilson RK, McCombie WR What is finished, and why does it matter GENOME RESEARCH. 2002 MAY; 12 (5): 669-671	5	14	3	12
2988	1234 Bi WM, Yan J, Stankiewicz P, Park SS, Walz K, et al. Genes in a refined Smith-Magenis syndrome critical deletion interval on chromosome 17p11.2 and the syntenic region of the mouse GENOME RESEARCH. 2002 MAY; 12 (5): 713-728	9	54	6	76
2989	1235 Park SS, Stankiewicz P, Bi WM, Shaw C, Lehoczky J, et al. Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs GENOME RESEARCH. 2002 MAY; 12 (5): 729-738	9	51	7	45
2990	1236 Xie HQ, Wasserman A, Levine Z, Novik A, Grebinskiy V, et al. Large-scale protein annotation through gene ontology GENOME RESEARCH. 2002 MAY; 12 (5): 785-794	5	67	3	20
#	Date / Author / Journal	LCS	GCS	LCR	CR
2991	1237 Wang J, Wong GKS, Ni PX, Han YJ, Huang XG, et al. RePS: A sequence assembler that masks exact repeats identified from the shotgun data GENOME RESEARCH. 2002 MAY; 12 (5): 824-831	8	33	5	25
2992	1346 Woischnik M, Moraes CT Pattern of organization of human mitochondrial pseudogenes in the nuclear genome GENOME RESEARCH. 2002 JUN; 12 (6): 885-893	14	100	2	26
2993	1347 Chureau C, Prissette M, Bourdet A, Barbe V, Cattolico L, et al. Comparative sequence analysis of the X-inactivation center region in mouse, human, and bovine GENOME RESEARCH. 2002 JUN; 12 (6): 894-908	18	89	4	88
2994	1348 Borstnik B, Pumpernik D Tandem repeats in protein coding regions of primate genes GENOME RESEARCH. 2002 JUN; 12 (6): 909-915	8	31	1	13
2995	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
2996	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
2997	1443 Chen LYY, Lu SH, Shih ESC, Hwang MJ Single nucleotide polymorphism mapping using genome-wide unique sequences GENOME RESEARCH. 2002 JUL; 12 (7): 1106-1111	0	6	2	27
2998	1444 Abdi FA, Mundt M, Doggett N, Bradbury EM, Chen X Validation of DNA sequences using mass spectrometry coupled with nucleoside mass tagging GENOME RESEARCH. 2002 JUL; 12 (7): 1135-1141	1	7	1	19
2999	1445 Xuan ZY, McCombie WR, Zhang MQ GFScan: A gene family search tool at genomic DNA level GENOME RESEARCH. 2002 JUL; 12 (7): 1142-1149	3	5	1	17
3000	1528 Aravind L, Iyer LM Intraproteomic networks: New forays into predicting interaction partners GENOME RESEARCH. 2002 AUG; 12 (8): 1156-1158	0	0	1	18

Date / Author / Journal

LCS

GCS

LCR

2901

5584 Lev-Maor G, Sorek R, Levanon EY, Paz N, Eisenberg E, et al.

RNA-editing-mediated exon evolution

GENOME BIOLOGY. 2007; 8 (2): Art. No. R29

2902

5585 Jimenez JL, Hegemann B, Outchins JRA, Peters JM, Durbin R

A systematic comparative and structural analysis of protein phosphorylation sites based on the mtcPTM database

GENOME BIOLOGY. 2007; 8 (5): Art. No. R90

2903

5586 Mahony S, Corcoran DL, Feingold E, Benos PV

Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome

GENOME BIOLOGY. 2007; 8 (5): Art. No. r84

2904

5587 Huerta-Cepas J, Dopazo H, Dopazo J, Gabaldon T

The human phylome

GENOME BIOLOGY. 2007; 8 (6): Art. No. R109

2905

5588 Sela N, Mersch B, Gal-Mark N, Lev-Maor G, Hotz-Wagenblatt A, et al.

Comparative analysis of transposed element insertion within human and mouse genomes reveals Alu's unique role in shaping the human transcriptome

GENOME BIOLOGY. 2007; 8 (6): Art. No. R127

2906

5589 Snelling WM, Chiu R, Schein JE, Hobbs M, Abbey CA, et al.

A physical map of the bovine genome

GENOME BIOLOGY. 2007; 8 (8): Art. No. R165

2907

5590 Bhutkar A, Gelbart WM, Smith TF

Inferring genome-scale rearrangement phylogeny and ancestral gene order: a Drosophila case study

GENOME BIOLOGY. 2007; 8 (11): Art. No. R236

2908

6210 Urrutia AO, Ocana LB, Hurst LD

Do Alu repeats drive the evolution of the primate transcriptome?

GENOME BIOLOGY. 2008; 9 (2): Art. No. R25

2909

6211 Anton MA, Gorostiaga D, Guruceaga E, Segura V, Carmona-Saez P, et al.

SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays

GENOME BIOLOGY. 2008; 9 (2): Art. No. R46

2910

6212 McGuire AM, Pearson MD, Neafsey DE, Galagan JE

Cross-kingdom patterns of alternative splicing and splice recognition

GENOME BIOLOGY. 2008; 9 (3): Art. No. R50

Date / Author / Journal

LCS

GCS

LCR

2911

6213 Phillippy AM, Schatz MC, Pop M

Genome assembly forensics: finding the elusive mis-assembly

GENOME BIOLOGY. 2008; 9 (3): Art. No. R55

2912

6214 Wang SZ, Lorenzen MD, Beeman RW, Brown SJ

Analysis of repetitive DNA distribution patterns in the Tribolium castaneum genome

GENOME BIOLOGY. 2008; 9 (3): Art. No. R61

2913

6215 Rahim NG, Harismendy O, Topol EJ, Frazer KA

Genetic determinants of phenotypic diversity in humans

GENOME BIOLOGY. 2008; 9 (4): Art. No. 215

2914

6216 Cole CG, McCann OT, Collins JE, Oliver K, Willey D, et al.

Finishing the finished human chromosome 22 sequence

GENOME BIOLOGY. 2008; 9 (5): Art. No. R78

2915

6217 Han L, Su B, Li WH, Zhao ZM

CpG island density and its correlations with genomic features in mammalian genomes

GENOME BIOLOGY. 2008; 9 (5): Art. No. R79

2916

6218 Ordonez GR, Hillier LW, Warren WC, Grutzner F, Lopez-Otin C, et al.

Loss of genes implicated in gastric function during platypus evolution

GENOME BIOLOGY. 2008; 9 (5): Art. No. R81

2917

6219 Kristiansson K, Naukkarinen J, Peltonen L

Isolated populations and complex disease gene identification

GENOME BIOLOGY. 2008; 9 (8): Art. No. 109

2918

6220 Ramialison M, Bajoghli B, Aghaallaei N, Ettwiller L, Gaudan S, et al.

Rapid identification of PAX2/5/8 direct downstream targets in the otic vesicle by combinatorial use of bioinformatics tools

GENOME BIOLOGY. 2008; 9 (10): Art. No. R145

2919

6221 Tsipouri V, Schueler MG, Hu SF, Dutra A, Pak E, et al.

Comparative sequence analyses reveal sites of ancestral chromosomal fusions in the Indian muntjac genome

GENOME BIOLOGY. 2008; 9 (10): Art. No. R155

2920

6222 Lomiento M, Jiang ZS, D'Addabbo P, Eichler EE, Rocchi M

Evolutionary-new centromeres preferentially emerge within gene deserts

GENOME BIOLOGY. 2008; 9 (12): Art. No. R173

Date / Author / Journal

LCS

GCS

LCR

2921

6829 Harrow J, Nagy A, Reymond A, Alioto T, Patthy L, et al.

Identifying protein-coding genes in genomic sequences

GENOME BIOLOGY. 2009; 10 (1): Art. No. 201

2922

6830 Balasubramanian S, Zheng DY, Liu YJ, Fang G, Frankish A, et al.

Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes

GENOME BIOLOGY. 2009; 10 (1): Art. No. R2

2923

6831 Milde S, Hemmrich G, Anton-Erxleben F, Khalturin K, Wittlieb J, et al.

Characterization of taxonomically restricted genes in a phylum-restricted cell type

GENOME BIOLOGY. 2009; 10 (1): Art. No. R8

2924

6832 Fulton DL, Sundararajan S, Badis G, Hughes TR, Wasserman WW, et al.

TFCat: the curated catalog of mouse and human transcription factors

GENOME BIOLOGY. 2009; 10 (3): Art. No. R29

2925

6833 Weigel D, Mott R

The 1001 Genomes Project for Arabidopsis thaliana

GENOME BIOLOGY. 2009; 10 (5): Art. No. 107

2926

6834 Chalker DL

Transposons that clean up after themselves

GENOME BIOLOGY. 2009; 10 (6): Art. No. 224

2927

6835 Glessner JT, Hakonarson H

Common variants in polygenic schizophrenia

GENOME BIOLOGY. 2009; 10 (9): Art. No. 236

2928

6836 Rangwala SH, Zhang LL, Kazazian HH

Many LINE1 elements contribute to the transcriptome of human somatic cells

GENOME BIOLOGY. 2009; 10 (9): Art. No. R100

2929

6837 Ramani AK, Nelson AC, Kapranov P, Bell I, Gingeras TR, et al.

High resolution transcriptome maps for wild-type and nonsense-mediated decay-defective Caenorhabditis elegans

GENOME BIOLOGY. 2009; 10 (9): Art. No. R101

2930

113 Gentles AJ, Karlin S

Genome-scale compositional comparisons in eukaryotes

GENOME RESEARCH. 2001 APR; 11 (4): 540-546

Date / Author / Journal

2931

Unlimited access - Limitless success

GENOME RESEARCH. 2001 MAY; 11 (5): 637-638

2932

141 Collins FS

Contemplating the end of the beginning

GENOME RESEARCH. 2001 MAY; 11 (5): 641-643

2933

142 Green ED, Chakravarti A

The human genome sequence expedition: Views from the "Base Camp"

GENOME RESEARCH. 2001 MAY; 11 (5): 645-651

2934

143 Eichler EE

Segmental duplications: What's missing, misassigned, and misassembled - and should we care?

GENOME RESEARCH. 2001 MAY; 11 (5): 653-656

2935

144 Makalowski W

Are we polyploids? A brief history of one hypothesis

GENOME RESEARCH. 2001 MAY; 11 (5): 667-670

2936

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

The complete human olfactory subgenome

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

276

2937

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

2938

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

2939

184 Inoue K, Dewar K, Katsanis N, Reiter LT, Lander ES, et al.

The 1.4-Mb CMT1A duplication/HNPP deletion genomic region reveals unique genome architectural features and provides insights into the recent evolution of new genes

GENOME RESEARCH. 2001 JUN; 11 (6): 1018-1033

2940

225 Dean M, Rzhetsky A, Allikmets R

The human ATP-binding cassette (ABC) transporter superfamily

GENOME RESEARCH. 2001 JUL; 11 (7): 1156-1166

481

Date / Author / Journal

LCS

GCS

LCR

2941

226 Hu GK, Madore SJ, Moldover B, Jatkoe T, Balaban D, et al.

Predicting splice variant from DNA chip expression data

GENOME RESEARCH. 2001 JUL; 11 (7): 1237-1245

2942

227 Tapper WJ, Morton NE, Dunham I, Ke XY, Collins A

A sequence-based integrated map of chromosome 22

GENOME RESEARCH. 2001 JUL; 11 (7): 1290-1295

2943

285 Caceres M, Puig M, Ruiz A

Molecular characterization of two natural hotspots in the Drosophila buzzatii genome induced by transposon insertions

GENOME RESEARCH. 2001 AUG; 11 (8): 1353-1364

2944

286 Mathews DJ, Kashuk C, Brightwell G, Eichler EE, Chakravarti A

Sequence variation within the fragile x locus

GENOME RESEARCH. 2001 AUG; 11 (8): 1382-1391

2945

287 Yu YT, Zhang CG, Zhou GQ, Wu SF, Qu XH, et al.

Gene expression profiling in human fetal liver and identification of tissue-and developmental-stage-specific genes through compiled expression profiles and efficient cloning of full-length cDNAs

GENOME RESEARCH. 2001 AUG; 11 (8): 1392-1403

2946

363 Pevzner PA

Assembling puzzles from preassembled blocks

GENOME RESEARCH. 2001 SEP; 11 (9): 1461-1462

2947

364 Beaudoing E, Gautheret D

Identification of alternate polyadenylation sites and analysis of their tissue distribution using EST data

GENOME RESEARCH. 2001 SEP; 11 (9): 1520-1526

2948

365 Kent WJ, Haussler D

Assembly of the working draft of the human genome with GigAssembler

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

2949

452 Cai WW, Chen R, Gibbs RA, Bradley A

A clone-array pooled shotgun strategy for sequencing large genomes

GENOME RESEARCH. 2001 OCT; 11 (10): 1619-1623

2950

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

Date / Author / Journal

LCS

GCS

LCR

2951

454 Margulies EH, Kardia SLR, Innis JW

A comparative molecular analysis of developing mouse forelimbs and hindlimbs using Serial Analysis of Gene Expression (SAGE)

GENOME RESEARCH. 2001 OCT; 11 (10): 1686-1698

2952

455 Zhao SY, Shatsman S, Ayodeji B, Geer K, Tsegaye G, et al.

Mouse BAC ends quality assessment and sequence analyses

GENOME RESEARCH. 2001 OCT; 11 (10): 1736-1745

2953

456 Crabtree J, Wiltshire T, Brunk B, Zhao SY, Schug J, et al.

High-resolution BAC-based map of the central portion of mouse chromosome 5

GENOME RESEARCH. 2001 OCT; 11 (10): 1746-1757

2954

457 Suzuki H, Fukunishi Y, Kagawa I, Saito R, Oda H, et al.

Protein-protein interaction panel using mouse full-length cDNAs

GENOME RESEARCH. 2001 OCT; 11 (10): 1758-1765

2955

555 Watson JD

The human genome revealed

GENOME RESEARCH. 2001 NOV; 11 (11): 1803-1804

2956

556 Chen R, Bouck JB, Weinstock GM, Gibbs RA

Comparing vertebrate whole-genome shotgun reads to the human genome

GENOME RESEARCH. 2001 NOV; 11 (11): 1807-1816

2957

557 Friedman R, Hughes AL

Pattern and timing of gene duplication in animal genomes

GENOME RESEARCH. 2001 NOV; 11 (11): 1842-1847

2958

558 Hide WA, Babenko VN, van Heusden PA, Seoighe C, Kelso JF

The contribution of exon-skipping events on chromosome 22 to protein coding diversity

GENOME RESEARCH. 2001 NOV; 11 (11): 1848-1853

2959

559 Ponger L, Duret L, Mouchiroud D

Determinants of CpG islands: Expression in early embryo and isochore structure

GENOME RESEARCH. 2001 NOV; 11 (11): 1854-1860

2960

560 Tugendreich S, Perkins E, Couto J, Barthmaier P, Sun DX, et al.

A streamlined process to phenotypically profile heterologous cDNAs in parallel using yeast cell-based assays

GENOME RESEARCH. 2001 NOV; 11 (11): 1899-1912

Date / Author / Journal

LCS

GCS

LCR

2961

561 Cutler DJ, Zwick ME, Carrasquillo MM, Yohn CT, Tobin KP, et al.

High-throughput variation detection and genotyping using microarrays

GENOME RESEARCH. 2001 NOV; 11 (11): 1913-1925

148

2962

562 Kwitek AE, Tonellato PJ, Chen D, Gullings-Handley J, Cheng YJS, et al.

Automated construction of high-density comparative maps between rat, human, and mouse

GENOME RESEARCH. 2001 NOV; 11 (11): 1935-1943

2963

563 Wheelan SJ, Church DM, Ostell JM

Spidey: A tool for mRNA-to-genomic alignments

GENOME RESEARCH. 2001 NOV; 11 (11): 1952-1957

127

2964

658 Wong GKS, Passey DA, Yu J

Most of the human genome is transcribed

GENOME RESEARCH. 2001 DEC; 11 (12): 1975-1977

2965

659 Ponting CP, Mott R, Bork P, Copley RR

Novel protein domains and repeats in Drosophila melanogaster: Insights into structure, function, and evolution

GENOME RESEARCH. 2001 DEC; 11 (12): 1996-2008

2966

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

2967

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

2968

662 Lenhard B, Hayes WS, Wasserman WW

GeneLynx: A gene-centric portal to the human genome

GENOME RESEARCH. 2001 DEC; 11 (12): 2151-2157

2969

875 DeSilva U, Elnitski L, Idol JR, Doyle JL, Gan WN, et al.

Generation and comparative analysis of similar to 3.3 Mb of mouse genomic sequence orthologous to the region of human chromosome 7q11.23 implicated in Williams syndrome

GENOME RESEARCH. 2002 JAN; 12 (1): 3-15

120

2970

876 Bourque G, Pevzner PA

Genome-scale evolution: Reconstructing gene orders in the ancestral species

GENOME RESEARCH. 2002 JAN; 12 (1): 26-36

154

Date / Author / Journal

LCS

GCS

LCR

2971

877 Doerks T, Copley RR, Schultz J, Ponting CP, Bork P

Systematic identification of novel protein domain families associated with nuclear functions

GENOME RESEARCH. 2002 JAN; 12 (1): 47-56

2972

878 Bolshakov VN, Topalis P, Blass C, Kokoza E, della Torre A, et al.

A comparative genomic analysis of two distant diptera, the fruit fly, Drosophila melanogaster, and the malaria mosquito, Anopheles gambiae

GENOME RESEARCH. 2002 JAN; 12 (1): 57-66

2973

879 Crosier M, Viggiano L, Guy J, Misceo D, Stones R, et al.

Human paralogs of KIAA0187 were created through independent pericentromeric-directed and chromosome-specific duplication mechanisms

GENOME RESEARCH. 2002 JAN; 12 (1): 67-80

2974

880 Lane RP, Roach JC, Lee IY, Boysen C, Smit A, et al.

Genomic analysis of the olfactory receptor region of the mouse and human T-cell receptor alpha/delta loci

GENOME RESEARCH. 2002 JAN; 12 (1): 81-87

2975

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

2976

882 Raymond CK, Sims EH, Olson MV

Linker-mediated recombinational subcloning of large DNA fragments using yeast

GENOME RESEARCH. 2002 JAN; 12 (1): 190-197

2977

883 Nekrutenko A, Makova KD, Li WH

The K-A/K-S ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study

GENOME RESEARCH. 2002 JAN; 12 (1): 198-202

2978

983 Grisart B, Coppieters W, Farnir F, Karim L, Ford C, et al.

Positional candidate cloning of a QTL in dairy cattle: Identification of a missense mutation in the bovine DGAT1 gene with major effect on milk yield and composition

GENOME RESEARCH. 2002 FEB; 12 (2): 222-231

222

2979

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

2980

985 Ogiwara I, Miya M, Ohshima K, Okada N

V-SINEs: A new superfamily of vertebrate SINEs that are widespread in vertebrate Genomes and retain a strongly conserved segment within each repetitive unit

GENOME RESEARCH. 2002 FEB; 12 (2): 316-324

Date / Author / Journal

LCS

GCS

LCR

2981

1068 Yoshihama M, Uechi T, Asakawa S, Kawasaki K, Kato S, et al.

The human ribosomal protein genes: Sequencing and comparative analysis of 73 genes

GENOME RESEARCH. 2002 MAR; 12 (3): 379-390

2982

1069 Pavlicek A, Paces J, Elleder D, Hejnar J

Processed Pseudogenes of human endogenous retroviruses generated by LINEs: Their integration, stability, and distribution

GENOME RESEARCH. 2002 MAR; 12 (3): 391-399

2983

1070 Liu RX, States DJ

Consensus promoter identification in the human genome utilizing expressed gene markers and gene modeling

GENOME RESEARCH. 2002 MAR; 12 (3): 462-469

2984

1071 Doi N, Takashima H, Kinjo M, Sakata K, Kawahashi Y, et al.

Novel fluorescence labeling and high-throughput assay technologies for in vitro analysis of protein interactions

GENOME RESEARCH. 2002 MAR; 12 (3): 487-492

2985

1072 Lee Y, Sultana R, Pertea G, Cho J, Karamycheva S, et al.

Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA)

GENOME RESEARCH. 2002 MAR; 12 (3): 493-502

2986

1150 Kent WJ

BLAT - The BLAST-like alignment tool

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

206

1355

2987

1233 Mardis E, McPherson J, Martienssen R, Wilson RK, McCombie WR

What is finished, and why does it matter

GENOME RESEARCH. 2002 MAY; 12 (5): 669-671

2988

1234 Bi WM, Yan J, Stankiewicz P, Park SS, Walz K, et al.

Genes in a refined Smith-Magenis syndrome critical deletion interval on chromosome 17p11.2 and the syntenic region of the mouse

GENOME RESEARCH. 2002 MAY; 12 (5): 713-728

2989

1235 Park SS, Stankiewicz P, Bi WM, Shaw C, Lehoczky J, et al.

Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs

GENOME RESEARCH. 2002 MAY; 12 (5): 729-738

2990

1236 Xie HQ, Wasserman A, Levine Z, Novik A, Grebinskiy V, et al.

Large-scale protein annotation through gene ontology

GENOME RESEARCH. 2002 MAY; 12 (5): 785-794

Date / Author / Journal

LCS

GCS

LCR

2991

1237 Wang J, Wong GKS, Ni PX, Han YJ, Huang XG, et al.

RePS: A sequence assembler that masks exact repeats identified from the shotgun data

GENOME RESEARCH. 2002 MAY; 12 (5): 824-831

2992

1346 Woischnik M, Moraes CT

Pattern of organization of human mitochondrial pseudogenes in the nuclear genome

GENOME RESEARCH. 2002 JUN; 12 (6): 885-893

100

2993

1347 Chureau C, Prissette M, Bourdet A, Barbe V, Cattolico L, et al.

Comparative sequence analysis of the X-inactivation center region in mouse, human, and bovine

GENOME RESEARCH. 2002 JUN; 12 (6): 894-908

2994

1348 Borstnik B, Pumpernik D

Tandem repeats in protein coding regions of primate genes

GENOME RESEARCH. 2002 JUN; 12 (6): 909-915

2995

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

2996

1442 Sorek R, Ast G, Graur D

Alu-containing exons are alternatively spliced

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

188

2997

1443 Chen LYY, Lu SH, Shih ESC, Hwang MJ

Single nucleotide polymorphism mapping using genome-wide unique sequences

GENOME RESEARCH. 2002 JUL; 12 (7): 1106-1111

2998

1444 Abdi FA, Mundt M, Doggett N, Bradbury EM, Chen X

Validation of DNA sequences using mass spectrometry coupled with nucleoside mass tagging

GENOME RESEARCH. 2002 JUL; 12 (7): 1135-1141

2999

1445 Xuan ZY, McCombie WR, Zhang MQ

GFScan: A gene family search tool at genomic DNA level

GENOME RESEARCH. 2002 JUL; 12 (7): 1142-1149

3000

1528 Aravind L, Iyer LM

Intraproteomic networks: New forays into predicting interaction partners

GENOME RESEARCH. 2002 AUG; 12 (8): 1156-1158

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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