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

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#	Date / Author / Journal	LCS	GCS	LCR	CR
701	1215 Zavaljevski N, Stevens FJ, Reifman J Support vector machines with selective kernel scaling for protein classification and identification of key amino acid positions BIOINFORMATICS. 2002 MAY; 18 (5): 689-696	1	45	2	30
702	1426 Ostermeier GC, Dix DJ, Krawetz SA A bioinformatic strategy to rapidly characterize cDNA libraries BIOINFORMATICS. 2002 JUL; 18 (7): 949-952	1	6	2	25
703	1427 Demir E, Babur O, Dogrusoz U, Gursoy A, Nisanci G, et al. PATIKA: an integrated visual environment for collaborative construction and analysis of cellular pathways BIOINFORMATICS. 2002 JUL; 18 (7): 996-1003	0	35	1	32
704	1665 Ellrott K, Yang CH, Sladek FM, Jiang T Identifying transcription factor binding sites through Markov chain optimization BIOINFORMATICS. 2002 OCT; 18: S100-S109	3	31	1	34
705	1735 Kulkarni AV, Williams NS, Lian Y, Wren JD, Mittelman D, et al. ARROGANT: an application to manipulate large gene collections BIOINFORMATICS. 2002 NOV; 18 (11): 1410-1417	0	4	1	24
706	1736 Stojanovic N, Chang JL, Lehoczky J, Zody MC, Dewar K Identification of mixups among DNA sequencing plates BIOINFORMATICS. 2002 NOV; 18 (11): 1418-1426	2	3	2	15
707	1737 Bhan A, Galas DJ, Dewey TG A duplication growth model of gene expression networks BIOINFORMATICS. 2002 NOV; 18 (11): 1486-1493	2	69	2	24
708	2051 Bock JR, Gough DA Whole-proteome interaction mining BIOINFORMATICS. 2003 JAN; 19 (1): 125-134	1	25	3	49
709	2121 Pandey A, Peri S, Thacker C, Whipple CA, Collins JJ, et al. Computational and experimental analysis reveals a novel Src family kinase in the C.elegans genome BIOINFORMATICS. 2003 JAN 22; 19 (2): 169-172	0	0	2	20
710	2122 Cao J, Panetta R, Yue SY, Steyaert A, Young-Bellido M, et al. A naive Bayes model to predict coupling between seven transmembrane domain receptors and G-proteins BIOINFORMATICS. 2003 JAN 22; 19 (2): 234-240	0	17	2	25
#	Date / Author / Journal	LCS	GCS	LCR	CR
711	2123 Chung MH, Kim CK, Nahm K Fractional populations in multiple gene inheritance BIOINFORMATICS. 2003 JAN 22; 19 (2): 256-260	0	1	2	9
712	2290 Subramanian S, Madgula VM, George R, Mishra RK, Pandit MW, et al. Triplet repeats in human genome: distribution and their association with genes and other genomic regions BIOINFORMATICS. 2003 MAR 22; 19 (5): 549-552	9	32	1	16
713	2354 Subramanian S, Mishra RK, Singh L Genome-wide analysis of Bkm sequences (GATA repeats): predominant association with sex chromosomes and potential role in higher order chromatin organization and function BIOINFORMATICS. 2003 APR 12; 19 (6): 681-685	3	13	1	19
714	2355 Saito R, Suzuki H, Hayashizaki Y Construction of reliable protein-protein interaction networks with a new interaction generality measure BIOINFORMATICS. 2003 APR 12; 19 (6): 756-763	0	29	4	36
715	2420 Edvardsson S, Gardner PP, Poole AM, Hendy MD, Penny D, et al. A search for H/ACA snoRNAs in yeast using MFE secondary structure prediction BIOINFORMATICS. 2003 MAY 1; 19 (7): 865-873	1	23	3	49
716	2608 Zhang HY Alignment of BLAST high-scoring segment pairs based on the longest increasing subsequence algorithm BIOINFORMATICS. 2003 JUL 22; 19 (11): 1391-1396	2	14	4	17
717	2609 Fink JL, Drewes S, Patel H, Welsh JB, Masys DR, et al. 2HAPI: a microarray data analysis system BIOINFORMATICS. 2003 JUL 22; 19 (11): 1443-1445	0	3	2	14
718	2678 Paquola ACM, Nishyiama MY, Reis EM, da Silva AM, Verjovski-Almeida S ESTWeb: bioinformatics services for EST sequencing projects BIOINFORMATICS. 2003 AUG 12; 19 (12): 1587-1588	0	24	3	7
719	2744 Li SY, Cutler G, Liu JJJ, Hoey T, Chen LB, et al. A comparative analysis of HGSC and Celera human genome assemblies and gene sets BIOINFORMATICS. 2003 SEP 1; 19 (13): 1597-1605	1	4	13	20
720	2761 Firneisz G, Zehavi I, Vermes C, Hanyecz A, Frieman JA, et al. Identification and quantification of disease-related gene clusters BIOINFORMATICS. 2003 SEP 22; 19 (14): 1781-1786	0	10	2	16
#	Date / Author / Journal	LCS	GCS	LCR	CR
721	2815 Shah M, Passovets S, Kim DS, Ellrott K, Wang L, et al. A computational pipeline for protein structure prediction and analysis at genome scale BIOINFORMATICS. 2003 OCT 12; 19 (15): 1985-1996	0	9	3	38
722	2876 Temkin JM, Gilder MR Extraction of protein interaction information from unstructured text using a context-free grammar BIOINFORMATICS. 2003 NOV 1; 19 (16): 2046-2053	0	58	2	29
723	2892 Vinogradov AE Silent DNA: speaking RNA language? BIOINFORMATICS. 2003 NOV 22; 19 (17): 2167-2170	0	0	6	21
724	3215 Liu L, Gong G, Liu Y, Natarajan S, Larkin DM, et al. Multi-species comparative mapping in silico using the COMPASS strategy BIOINFORMATICS. 2004 JAN 22; 20 (2): 148-154	0	4	6	27
725	3216 Sjolander K Phylogenomic inference of protein molecular function: advances and challenges BIOINFORMATICS. 2004 JAN 22; 20 (2): 170-179	1	68	5	79
726	3217 Hofacker IL, Priwitzer B, Stadler PF Prediction of locally stable RNA secondary structures for genome-wide surveys BIOINFORMATICS. 2004 JAN 22; 20 (2): 186-190	3	29	1	16
727	3353 Sun H, Davuluri RV Java-based application framework for visualization of gene regulatory region annotations BIOINFORMATICS. 2004 MAR 22; 20 (5): 727-U518	2	7	5	26
728	3420 Grover D, Mukerji M, Bhatnagar P, Kannan K, Brahmachari SK Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition BIOINFORMATICS. 2004 APR 12; 20 (6): 813-817	20	31	2	18
729	3421 Vilim RB, Cunningham RM, Lu B, Kheradpour P, Stevens FJ Fold-specific substitution matrices for protein classification BIOINFORMATICS. 2004 APR 12; 20 (6): 847-853	0	7	3	29
730	3502 Flibotte S, Chiu R, Fjell C, Krzywinski M, Schein JE, et al. Automated ordering of fingerprinted clones BIOINFORMATICS. 2004 MAY 22; 20 (8): 1264-1271	4	8	4	21
#	Date / Author / Journal	LCS	GCS	LCR	CR
731	3575 Andreini C, Bertini I, Rosato A A hint to search for metalloproteins in gene banks BIOINFORMATICS. 2004 JUN 12; 20 (9): 1373-1380	3	32	1	33
732	3576 Sharma D, Issac B, Raghava GPS, Ramaswamy R Spectral Repeat Finder (SRF): identification of repetitive sequences using Fourier transformation BIOINFORMATICS. 2004 JUN 12; 20 (9): 1405-1412	2	19	2	33
733	3577 Yuan J, Bush B, Elbrecht A, Liu Y, Zhang T, et al. Enhanced homology searching through genome reading frame predetermination BIOINFORMATICS. 2004 JUN 12; 20 (9): 1416-1427	0	1	6	49
734	3630 Arndt PF, Hwa T Regional and time-resolved mutation patterns of the human genome BIOINFORMATICS. 2004 JUL 1; 20 (10): 1482-1485	2	8	5	23
735	3631 Wendl MC, Yang SP Gap statistics for whole genome shotgun DNA sequencing projects BIOINFORMATICS. 2004 JUL 1; 20 (10): 1527-1534	0	5	12	44
736	3752 Stojanovic N, Dewar K Identifying multiple alignment regions satisfying simple formulas and patterns BIOINFORMATICS. 2004 SEP 1; 20 (13): 2140-2142	0	0	3	7
737	3890 Chou HH, Hsia AP, Mooney DL, Schnable PS PICKY: oligo microarray design for large genomes BIOINFORMATICS. 2004 NOV 22; 20 (17): 2893-2902	1	31	5	57
738	3891 Chuang TJ, Chen FC, Chou MY A comparative method for identification of gene structures and alternatively spliced variants BIOINFORMATICS. 2004 NOV 22; 20 (17): 3064-3079	2	10	10	53
739	3955 Steinhauser D, Usadel B, Luedemann A, Thimm O, Kopka J CSB.DB: a comprehensive systems-biology database BIOINFORMATICS. 2004 DEC 12; 20 (18): 3647-3651	1	66	2	24
740	3956 Frickey T, Lupas A CLANS: a Java application for visualizing protein families based on pairwise similarity BIOINFORMATICS. 2004 DEC 12; 20 (18): 3702-3704	0	51	2	7
#	Date / Author / Journal	LCS	GCS	LCR	CR
741	4237 Chen TM, Lu CC, Li WH Prediction of splice sites with dependency graphs and their expanded bayesian networks BIOINFORMATICS. 2005 FEB 15; 21 (4): 471-482	3	22	2	22
742	4299 Zheng XH, Lu F, Wang ZY, Hoover J, Mural R Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs BIOINFORMATICS. 2005 MAR 15; 21 (6): 703-710	2	16	14	36
743	4300 Boby T, Patch AM, Aves SJ TRbase: a database relating tandem repeats to disease genes for the human genome BIOINFORMATICS. 2005 MAR 15; 21 (6): 811-816	1	12	2	34
744	4345 Dror G, Sorek R, Shamir R Accurate identification of alternatively spliced exons using support vector machine BIOINFORMATICS. 2005 APR 1; 21 (7): 897-901	6	39	12	36
745	4355 Wahl MB, Heinzmann U, Imai K LongSAGE analysis significantly improves genome annotation: identifications of novel genes and alternative transcripts in the mouse BIOINFORMATICS. 2005 APR 15; 21 (8): 1393-1400	1	15	13	35
746	4356 Beyer A, Wilhelm T Dynamic simulation of protein complex formation on a genomic scale BIOINFORMATICS. 2005 APR 15; 21 (8): 1610-1616	0	5	6	29
747	4357 Kopka J, Schauer N, Krueger S, Birkemeyer C, Usadel B, et al. GMD@CSB.DB: the Golm Metabolome Database BIOINFORMATICS. 2005 APR 15; 21 (8): 1635-1638	0	127	2	38
748	4392 Stepanova M, Tiazhelova T, Skoblov M, Baranova A A comparative analysis of relative occurrence of transcription factor binding sites in vertebrate genomes and gene promoter areas BIOINFORMATICS. 2005 MAY 1; 21 (9): 1789-1796	2	8	6	22
749	4393 Cameron JM, Hurd T, Robinson BH Computational identification of human mitochondrial proteins based on homology to yeast mitochondrially targeted proteins BIOINFORMATICS. 2005 MAY 1; 21 (9): 1825-1830	0	4	4	33
750	4411 Edgar RC, Myers EW PILER: identification and classification of genomic repeats BIOINFORMATICS. 2005 JUN; 21: I152-I158	4	9	3	14
#	Date / Author / Journal	LCS	GCS	LCR	CR
751	4412 Price AL, Jones NC, Pevzner PA De novo identification of repeat families in large genomes BIOINFORMATICS. 2005 JUN; 21: I351-I358	6	18	6	26
752	4503 Cartharius K, Frech K, Grote K, Klocke B, Haltmeier M, et al. Matlnspector and beyond: promoter analysis based on transcription factor binding sites BIOINFORMATICS. 2005 JUL 1; 21 (13): 2933-2942	4	374	5	48
753	4513 Zhang WX, Ruan JH, Ho TD, You Y, Yu TT, et al. Cis-regulatory element based targeted gene finding: genome-wide identification of abscisic acid-and abiotic stress-responsive genes in Arabidopsis thaliana BIOINFORMATICS. 2005 JUL 15; 21 (14): 3074-3081	0	34	2	37
754	4610 Allen JE, Salzberg SL JIGSAW: integration of multiple sources of evidence for gene prediction BIOINFORMATICS. 2005 SEP 15; 21 (18): 3596-3603	1	30	4	23
755	5009 Zhang JX, Zhang L, Coombes KR Gene sequence signatures revealed by mining the UniGene affiliation network BIOINFORMATICS. 2006 FEB 15; 22 (4): 385-391	0	1	10	32
756	5050 Hemminger BM, Saelim B, Sullivan PF TAMAL: an integrated approach to choosing SNPs for genetic studies of human complex traits BIOINFORMATICS. 2006 MAR 1; 22 (5): 626-627	0	24	3	11
757	5183 Hsu F, Kent WJ, Clawson H, Kuhn RM, Diekhans M, et al. The UCSC Known Genes BIOINFORMATICS. 2006 MAY 1; 22 (9): 1036-1046	9	70	4	15
758	5340 Dupanloup I, Kaessmann H Evolutionary simulations to detect functional lineage-specific genes BIOINFORMATICS. 2006 AUG 1; 22 (15): 1815-1822	0	4	10	49
759	5341 Offman MN, Fitzjohn PW, Bates PA Developing a move-set for protein model refinement BIOINFORMATICS. 2006 AUG 1; 22 (15): 1838-1845	0	5	1	62
760	5387 Lin K, Zhu L, Zhang DY An initial strategy for comparing proteins at the domain architecture level BIOINFORMATICS. 2006 SEP 1; 22 (17): 2081-2086	1	8	9	43
#	Date / Author / Journal	LCS	GCS	LCR	CR
761	5402 Fang F, Fan SC, Zhang XG, Zhang MQ Predicting methylation status of CpG islands in the human brain BIOINFORMATICS. 2006 SEP 15; 22 (18): 2204-2209	2	21	7	40
762	5474 Xie XD, Wu SH, Lam KM, Yan H PromoterExplorer: an effective promoter identification method based on the AdaBoost algorithm BIOINFORMATICS. 2006 NOV 15; 22 (22): 2722-2728	1	11	6	23
763	5475 Vallender EJ, Paschall JE, Malcom CM, Lahn BT, Wyckoff GJ SPEED: a molecular-evolution-based database of mammalian orthologous groups BIOINFORMATICS. 2006 NOV 15; 22 (22): 2835-2837	1	4	7	25
764	5526 Birtle Z, Ponting CP Meisetz and the birth of the KRAB motif BIOINFORMATICS. 2006 DEC 1; 22 (23): 2841-2845	4	10	8	42
765	5678 Sokol D, Benson G, Tojeira J Tandem repeats over the edit distance BIOINFORMATICS. 2007 JAN 15; 23 (2): E30-E35	0	7	1	28
766	5731 Cockell SJ, Oliva B, Jackson RM Structure-based evaluation of in silico predictions of protein-protein interactions using comparative docking BIOINFORMATICS. 2007 MAR; 23 (5): 573-581	0	9	1	41
767	5767 Brodzik AK Quaternionic periodicity transform: an algebraic solution to the tandem repeat detection problem BIOINFORMATICS. 2007 MAR 15; 23 (6): 694-700	0	4	2	27
768	5960 Lunter G Probabilistic whole-genome alignments reveal high indel rates in the human and mouse genomes BIOINFORMATICS. 2007 JUL 1; 23 (13): I289-I296	0	6	3	18
769	6104 Reed C, Fofanov V, Putonti C, Chumakov S, Slezak T, et al. Effect of the mutation rate and background size on the quality of pathogen identification BIOINFORMATICS. 2007 OCT 15; 23 (20): 2665-2671	0	3	4	31
770	6135 Torkamani A, Schork NJ Accurate prediction of deleterious protein kinase polymorphisms BIOINFORMATICS. 2007 NOV 1; 23 (21): 2918-2925	0	13	9	42
#	Date / Author / Journal	LCS	GCS	LCR	CR
771	6353 Abhiman S, Iyer LM, Aravind L BEN: a novel domain in chromatin factors and DNA viral proteins BIOINFORMATICS. 2008 FEB 15; 24 (4): 458-461	0	2	2	21
772	6587 Lee S, Cheran E, Brudno M A robust framework for detecting structural variations in a genome BIOINFORMATICS. 2008 JUL 1; 24 (13): I59-I67	1	2	7	19
773	6588 Xie MZ, Wang JX, Chen JN A model of higher accuracy for the individual haplotyping problem based on weighted SNP fragments and genotype with errors BIOINFORMATICS. 2008 JUL 1; 24 (13): I105-I113	0	0	5	22
774	6589 Uzgur A, Vu T, Erkan G, Radev DR Identifying gene-disease associations using centrality on a literature mined gene-interaction network BIOINFORMATICS. 2008 JUL 1; 24 (13): I277-I285	0	0	4	47
775	6592 Conley AB, Piriyapongsa J, Jordan IK Retroviral promoters in the human genome BIOINFORMATICS. 2008 JUL 15; 24 (14): 1563-1567	5	7	13	29
776	7027 Batuwita R, Palade V microPred: effective classification of pre-miRNAs for human miRNA gene prediction BIOINFORMATICS. 2009 APR 15; 25 (8): 989-995	0	0	2	43
777	7138 Wren JD A global meta-analysis of microarray expression data to predict unknown gene functions and estimate the literature-data divide BIOINFORMATICS. 2009 JUL 1; 25 (13): 1694-1701	0	3	5	56
778	7299 Dutilh BE, Huynen MA, Strous M Increasing the coverage of a metapopulation consensus genome by iterative read mapping and assembly BIOINFORMATICS. 2009 NOV 1; 25 (21): 2878-2881	0	0	3	15
779	751 Reis A Dissecting the genetic component of complex diseases in humans BIOINFORMATICS AND GENOME ANALYSIS. 2002; 38: 1-15	0	0	2	32
780	6195 Wei XT, Cowen L, Brodley C, Brady A, Sculley D, et al. A distance-based method for detecting horizontal gene transfer in whole genomes BIOINFORMATICS RESEARCH AND APPLICATIONS. 2008; 4983: 26-37	0	0	2	32
#	Date / Author / Journal	LCS	GCS	LCR	CR
781	752 Provencio I The role of melanopsin and other opsins in circadian clock resetting BIOLOGIC EFFECTS OF LIGHT 2001. 2002; : 451-459	0	0	1	39
782	5354 Hemmi K, Ma DP, Miura Y, Kawaguchi M, Sasahara M, et al. A homeodomain-zinc finger protein, ZFHX4, is expressed in neuronal differentiation manner and suppressed in muscle differentiation manner BIOLOGICAL & PHARMACEUTICAL BULLETIN. 2006 SEP; 29 (9): 1830-1835	0	1	2	37
783	961 Carr SM, Marshall HD, Johnstone KA, Pynn LM, Stenson GB How to tell a sea monster: Molecular discrimination of large marine animals of the North Atlantic BIOLOGICAL BULLETIN. 2002 FEB; 202 (1): 1-5	0	2	1	22
784	6496 Freeman RM, Wu M, Cordonnier-Pratt MM, Pratt LH, Gruber CE, et al. cDNA sequences for transcription factors and signaling proteins of the hemichordate Saccoglossus kowalevskii: Efficacy of the expressed sequence tag (EST) approach for evolutionary and developmental studies of a new organism BIOLOGICAL BULLETIN. 2008 JUN; 214 (3): 284-302	0	4	4	73
785	7234 Dean D, Himes CM, Behrman E, Savage RM Hunchback-like Protein Is Expressed in Cleavage Blastomeres, Gastrula Epithelium, and Ciliary Structures in Gastropods BIOLOGICAL BULLETIN. 2009 OCT; 217 (2): 189-201	0	0	4	45
786	2543 Maurer-Stroh S, Washietl S, Eisenhaber F Protein prenyltransferases: Anchor size, pseudogenes and parasites BIOLOGICAL CHEMISTRY. 2003 JUL; 384 (7): 977-989	1	15	3	84
787	3436 Rossi A, Deveraux Q, Turk B, Sali A Comprehensive search for cysteine cathepsins in the human genome BIOLOGICAL CHEMISTRY. 2004 MAY; 385 (5): 363-372	0	16	5	57
788	4125 Sok AJ, Czajewska K, Ozyhar A, Kochman M The structure of the juvenile hormone binding protein gene from Galleria mellonella BIOLOGICAL CHEMISTRY. 2005 JAN; 386 (1): 1-10	0	4	1	60
789	4726 Hui JY, Bindereif A Alternative pre-mRNA splicing in the human system: unexpected role of repetitive sequences as regulatory elements BIOLOGICAL CHEMISTRY. 2005 DEC; 386 (12): 1265-1271	1	14	8	65
790	5203 Tan OL, Whitbread AK, Clements JA, Dong Y Kallikrein-related-peptidase (KLK) family mRNA variants and protein isoforms in hormone-related cancers: do they have a function? BIOLOGICAL CHEMISTRY. 2006 JUN; 387 (6): 697-705	1	14	10	78
#	Date / Author / Journal	LCS	GCS	LCR	CR
791	3654 Furlong RF, Holland PWH Polyploidy in vertebrate ancestry: Ohno and beyond BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2004 AUG; 82 (4): 425-430	1	26	7	29
792	3655 Melayah D, Lim KY, Bonnivard E, Chalhoub B, De Borne FD, et al. Distribution of the Tnt1 retrotransposon family in the amphidiploid tobacco (Nicotiana tabacum) and its wild Nicotiana relatives BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2004 AUG; 82 (4): 639-649	1	16	2	40
793	4246 Payseur BA, Nachman MW The genomics of speciation: investigating the molecular correlates of X chromosome introgression across the hybrid zone between Mus domesticus and Mus musculus BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2005 MAR; 84 (3): 523-534	0	26	4	58
794	5319 Ryan FP Genomic creativity and natural selection: a modern synthesis BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2006 AUG; 88 (4): 655-672	0	9	16	199
795	3998 Stults JT, Arnott D Proteomics BIOLOGICAL MASS SPECTROMETRY. 2005; 402: 245-289	0	16	2	182
796	1649 Merikangas KR, Chakravarti A, Moldin SO, Araj H, Blangero J, et al. Workgroup reports: NIMH strategic plan for mood disorders research - Future of genetics of mood disorders research BIOLOGICAL PSYCHIATRY. 2002 SEP 15; 52 (6): 457-477	4	60	4	140
797	2185 Schulze TG, Chen YS, Badner JA, McInnis MG, DePaulo JR, et al. Additional, physically ordered markers increase linkage signal for bipolar disorder on chromsome 18q22 BIOLOGICAL PSYCHIATRY. 2003 FEB 1; 53 (3): 239-243	1	22	4	25
798	3283 Ryan MM, Huffaker SJ, Webster MJ, Wayland M, Freeman T, et al. Application and optimization of microarray technologies for human postmortem brain studies BIOLOGICAL PSYCHIATRY. 2004 FEB 15; 55 (4): 329-336	0	27	1	13
799	5189 Hariri AR, Drabant EM, Weinberger DR Imaging genetics: Perspectives from studies of genetically driven variation in serotonin function and corticolimbic affective processing BIOLOGICAL PSYCHIATRY. 2006 MAY 15; 59 (10): 888-897	1	79	2	106
800	5246 Scolnick EM Mechanisms of action of medicines for schizophrenia and bipolar illness: Status and limitations BIOLOGICAL PSYCHIATRY. 2006 JUN 1; 59 (11): 1039-1045	0	5	4	56

Date / Author / Journal

LCS

GCS

LCR

701

1215 Zavaljevski N, Stevens FJ, Reifman J

Support vector machines with selective kernel scaling for protein classification and identification of key amino acid positions

BIOINFORMATICS. 2002 MAY; 18 (5): 689-696

702

1426 Ostermeier GC, Dix DJ, Krawetz SA

A bioinformatic strategy to rapidly characterize cDNA libraries

BIOINFORMATICS. 2002 JUL; 18 (7): 949-952

703

1427 Demir E, Babur O, Dogrusoz U, Gursoy A, Nisanci G, et al.

PATIKA: an integrated visual environment for collaborative construction and analysis of cellular pathways

BIOINFORMATICS. 2002 JUL; 18 (7): 996-1003

704

1665 Ellrott K, Yang CH, Sladek FM, Jiang T

Identifying transcription factor binding sites through Markov chain optimization

BIOINFORMATICS. 2002 OCT; 18: S100-S109

705

1735 Kulkarni AV, Williams NS, Lian Y, Wren JD, Mittelman D, et al.

ARROGANT: an application to manipulate large gene collections

BIOINFORMATICS. 2002 NOV; 18 (11): 1410-1417

706

1736 Stojanovic N, Chang JL, Lehoczky J, Zody MC, Dewar K

Identification of mixups among DNA sequencing plates

BIOINFORMATICS. 2002 NOV; 18 (11): 1418-1426

707

1737 Bhan A, Galas DJ, Dewey TG

A duplication growth model of gene expression networks

BIOINFORMATICS. 2002 NOV; 18 (11): 1486-1493

708

2051 Bock JR, Gough DA

Whole-proteome interaction mining

BIOINFORMATICS. 2003 JAN; 19 (1): 125-134

709

2121 Pandey A, Peri S, Thacker C, Whipple CA, Collins JJ, et al.

Computational and experimental analysis reveals a novel Src family kinase in the C.elegans genome

BIOINFORMATICS. 2003 JAN 22; 19 (2): 169-172

710

2122 Cao J, Panetta R, Yue SY, Steyaert A, Young-Bellido M, et al.

A naive Bayes model to predict coupling between seven transmembrane domain receptors and G-proteins

BIOINFORMATICS. 2003 JAN 22; 19 (2): 234-240

Date / Author / Journal

LCS

GCS

LCR

711

2123 Chung MH, Kim CK, Nahm K

Fractional populations in multiple gene inheritance

BIOINFORMATICS. 2003 JAN 22; 19 (2): 256-260

712

2290 Subramanian S, Madgula VM, George R, Mishra RK, Pandit MW, et al.

Triplet repeats in human genome: distribution and their association with genes and other genomic regions

BIOINFORMATICS. 2003 MAR 22; 19 (5): 549-552

713

2354 Subramanian S, Mishra RK, Singh L

Genome-wide analysis of Bkm sequences (GATA repeats): predominant association with sex chromosomes and potential role in higher order chromatin organization and function

BIOINFORMATICS. 2003 APR 12; 19 (6): 681-685

714

2355 Saito R, Suzuki H, Hayashizaki Y

Construction of reliable protein-protein interaction networks with a new interaction generality measure

BIOINFORMATICS. 2003 APR 12; 19 (6): 756-763

715

2420 Edvardsson S, Gardner PP, Poole AM, Hendy MD, Penny D, et al.

A search for H/ACA snoRNAs in yeast using MFE secondary structure prediction

BIOINFORMATICS. 2003 MAY 1; 19 (7): 865-873

716

2608 Zhang HY

Alignment of BLAST high-scoring segment pairs based on the longest increasing subsequence algorithm

BIOINFORMATICS. 2003 JUL 22; 19 (11): 1391-1396

717

2609 Fink JL, Drewes S, Patel H, Welsh JB, Masys DR, et al.

2HAPI: a microarray data analysis system

BIOINFORMATICS. 2003 JUL 22; 19 (11): 1443-1445

718

2678 Paquola ACM, Nishyiama MY, Reis EM, da Silva AM, Verjovski-Almeida S

ESTWeb: bioinformatics services for EST sequencing projects

BIOINFORMATICS. 2003 AUG 12; 19 (12): 1587-1588

719

2744 Li SY, Cutler G, Liu JJJ, Hoey T, Chen LB, et al.

A comparative analysis of HGSC and Celera human genome assemblies and gene sets

BIOINFORMATICS. 2003 SEP 1; 19 (13): 1597-1605

720

2761 Firneisz G, Zehavi I, Vermes C, Hanyecz A, Frieman JA, et al.

Identification and quantification of disease-related gene clusters

BIOINFORMATICS. 2003 SEP 22; 19 (14): 1781-1786

Date / Author / Journal

LCS

GCS

LCR

721

2815 Shah M, Passovets S, Kim DS, Ellrott K, Wang L, et al.

A computational pipeline for protein structure prediction and analysis at genome scale

BIOINFORMATICS. 2003 OCT 12; 19 (15): 1985-1996

722

2876 Temkin JM, Gilder MR

Extraction of protein interaction information from unstructured text using a context-free grammar

BIOINFORMATICS. 2003 NOV 1; 19 (16): 2046-2053

723

2892 Vinogradov AE

Silent DNA: speaking RNA language?

BIOINFORMATICS. 2003 NOV 22; 19 (17): 2167-2170

724

3215 Liu L, Gong G, Liu Y, Natarajan S, Larkin DM, et al.

Multi-species comparative mapping in silico using the COMPASS strategy

BIOINFORMATICS. 2004 JAN 22; 20 (2): 148-154

725

3216 Sjolander K

Phylogenomic inference of protein molecular function: advances and challenges

BIOINFORMATICS. 2004 JAN 22; 20 (2): 170-179

726

3217 Hofacker IL, Priwitzer B, Stadler PF

Prediction of locally stable RNA secondary structures for genome-wide surveys

BIOINFORMATICS. 2004 JAN 22; 20 (2): 186-190

727

3353 Sun H, Davuluri RV

Java-based application framework for visualization of gene regulatory region annotations

BIOINFORMATICS. 2004 MAR 22; 20 (5): 727-U518

728

3420 Grover D, Mukerji M, Bhatnagar P, Kannan K, Brahmachari SK

Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition

BIOINFORMATICS. 2004 APR 12; 20 (6): 813-817

729

3421 Vilim RB, Cunningham RM, Lu B, Kheradpour P, Stevens FJ

Fold-specific substitution matrices for protein classification

BIOINFORMATICS. 2004 APR 12; 20 (6): 847-853

730

3502 Flibotte S, Chiu R, Fjell C, Krzywinski M, Schein JE, et al.

Automated ordering of fingerprinted clones

BIOINFORMATICS. 2004 MAY 22; 20 (8): 1264-1271

Date / Author / Journal

LCS

GCS

LCR

731

3575 Andreini C, Bertini I, Rosato A

A hint to search for metalloproteins in gene banks

BIOINFORMATICS. 2004 JUN 12; 20 (9): 1373-1380

732

3576 Sharma D, Issac B, Raghava GPS, Ramaswamy R

Spectral Repeat Finder (SRF): identification of repetitive sequences using Fourier transformation

BIOINFORMATICS. 2004 JUN 12; 20 (9): 1405-1412

733

3577 Yuan J, Bush B, Elbrecht A, Liu Y, Zhang T, et al.

Enhanced homology searching through genome reading frame predetermination

BIOINFORMATICS. 2004 JUN 12; 20 (9): 1416-1427

734

3630 Arndt PF, Hwa T

Regional and time-resolved mutation patterns of the human genome

BIOINFORMATICS. 2004 JUL 1; 20 (10): 1482-1485

735

3631 Wendl MC, Yang SP

Gap statistics for whole genome shotgun DNA sequencing projects

BIOINFORMATICS. 2004 JUL 1; 20 (10): 1527-1534

736

3752 Stojanovic N, Dewar K

Identifying multiple alignment regions satisfying simple formulas and patterns

BIOINFORMATICS. 2004 SEP 1; 20 (13): 2140-2142

737

3890 Chou HH, Hsia AP, Mooney DL, Schnable PS

PICKY: oligo microarray design for large genomes

BIOINFORMATICS. 2004 NOV 22; 20 (17): 2893-2902

738

3891 Chuang TJ, Chen FC, Chou MY

A comparative method for identification of gene structures and alternatively spliced variants

BIOINFORMATICS. 2004 NOV 22; 20 (17): 3064-3079

739

3955 Steinhauser D, Usadel B, Luedemann A, Thimm O, Kopka J

CSB.DB: a comprehensive systems-biology database

BIOINFORMATICS. 2004 DEC 12; 20 (18): 3647-3651

740

3956 Frickey T, Lupas A

CLANS: a Java application for visualizing protein families based on pairwise similarity

BIOINFORMATICS. 2004 DEC 12; 20 (18): 3702-3704

Date / Author / Journal

LCS

GCS

LCR

741

4237 Chen TM, Lu CC, Li WH

Prediction of splice sites with dependency graphs and their expanded bayesian networks

BIOINFORMATICS. 2005 FEB 15; 21 (4): 471-482

742

4299 Zheng XH, Lu F, Wang ZY, Hoover J, Mural R

Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs

BIOINFORMATICS. 2005 MAR 15; 21 (6): 703-710

743

4300 Boby T, Patch AM, Aves SJ

TRbase: a database relating tandem repeats to disease genes for the human genome

BIOINFORMATICS. 2005 MAR 15; 21 (6): 811-816

744

4345 Dror G, Sorek R, Shamir R

Accurate identification of alternatively spliced exons using support vector machine

BIOINFORMATICS. 2005 APR 1; 21 (7): 897-901

745

4355 Wahl MB, Heinzmann U, Imai K

LongSAGE analysis significantly improves genome annotation: identifications of novel genes and alternative transcripts in the mouse

BIOINFORMATICS. 2005 APR 15; 21 (8): 1393-1400

746

4356 Beyer A, Wilhelm T

Dynamic simulation of protein complex formation on a genomic scale

BIOINFORMATICS. 2005 APR 15; 21 (8): 1610-1616

747

4357 Kopka J, Schauer N, Krueger S, Birkemeyer C, Usadel B, et al.

GMD@CSB.DB: the Golm Metabolome Database

BIOINFORMATICS. 2005 APR 15; 21 (8): 1635-1638

127

748

4392 Stepanova M, Tiazhelova T, Skoblov M, Baranova A

A comparative analysis of relative occurrence of transcription factor binding sites in vertebrate genomes and gene promoter areas

BIOINFORMATICS. 2005 MAY 1; 21 (9): 1789-1796

749

4393 Cameron JM, Hurd T, Robinson BH

Computational identification of human mitochondrial proteins based on homology to yeast mitochondrially targeted proteins

BIOINFORMATICS. 2005 MAY 1; 21 (9): 1825-1830

750

4411 Edgar RC, Myers EW

PILER: identification and classification of genomic repeats

BIOINFORMATICS. 2005 JUN; 21: I152-I158

Date / Author / Journal

LCS

GCS

LCR

751

4412 Price AL, Jones NC, Pevzner PA

De novo identification of repeat families in large genomes

BIOINFORMATICS. 2005 JUN; 21: I351-I358

752

4503 Cartharius K, Frech K, Grote K, Klocke B, Haltmeier M, et al.

Matlnspector and beyond: promoter analysis based on transcription factor binding sites

BIOINFORMATICS. 2005 JUL 1; 21 (13): 2933-2942

374

753

4513 Zhang WX, Ruan JH, Ho TD, You Y, Yu TT, et al.

Cis-regulatory element based targeted gene finding: genome-wide identification of abscisic acid-and abiotic stress-responsive genes in Arabidopsis thaliana

BIOINFORMATICS. 2005 JUL 15; 21 (14): 3074-3081

754

4610 Allen JE, Salzberg SL

JIGSAW: integration of multiple sources of evidence for gene prediction

BIOINFORMATICS. 2005 SEP 15; 21 (18): 3596-3603

755

5009 Zhang JX, Zhang L, Coombes KR

Gene sequence signatures revealed by mining the UniGene affiliation network

BIOINFORMATICS. 2006 FEB 15; 22 (4): 385-391

756

5050 Hemminger BM, Saelim B, Sullivan PF

TAMAL: an integrated approach to choosing SNPs for genetic studies of human complex traits

BIOINFORMATICS. 2006 MAR 1; 22 (5): 626-627

757

5183 Hsu F, Kent WJ, Clawson H, Kuhn RM, Diekhans M, et al.

The UCSC Known Genes

BIOINFORMATICS. 2006 MAY 1; 22 (9): 1036-1046

758

5340 Dupanloup I, Kaessmann H

Evolutionary simulations to detect functional lineage-specific genes

BIOINFORMATICS. 2006 AUG 1; 22 (15): 1815-1822

759

5341 Offman MN, Fitzjohn PW, Bates PA

Developing a move-set for protein model refinement

BIOINFORMATICS. 2006 AUG 1; 22 (15): 1838-1845

760

5387 Lin K, Zhu L, Zhang DY

An initial strategy for comparing proteins at the domain architecture level

BIOINFORMATICS. 2006 SEP 1; 22 (17): 2081-2086

Date / Author / Journal

LCS

GCS

LCR

761

5402 Fang F, Fan SC, Zhang XG, Zhang MQ

Predicting methylation status of CpG islands in the human brain

BIOINFORMATICS. 2006 SEP 15; 22 (18): 2204-2209

762

5474 Xie XD, Wu SH, Lam KM, Yan H

PromoterExplorer: an effective promoter identification method based on the AdaBoost algorithm

BIOINFORMATICS. 2006 NOV 15; 22 (22): 2722-2728

763

5475 Vallender EJ, Paschall JE, Malcom CM, Lahn BT, Wyckoff GJ

SPEED: a molecular-evolution-based database of mammalian orthologous groups

BIOINFORMATICS. 2006 NOV 15; 22 (22): 2835-2837

764

5526 Birtle Z, Ponting CP

Meisetz and the birth of the KRAB motif

BIOINFORMATICS. 2006 DEC 1; 22 (23): 2841-2845

765

5678 Sokol D, Benson G, Tojeira J

Tandem repeats over the edit distance

BIOINFORMATICS. 2007 JAN 15; 23 (2): E30-E35

766

5731 Cockell SJ, Oliva B, Jackson RM

Structure-based evaluation of in silico predictions of protein-protein interactions using comparative docking

BIOINFORMATICS. 2007 MAR; 23 (5): 573-581

767

5767 Brodzik AK

Quaternionic periodicity transform: an algebraic solution to the tandem repeat detection problem

BIOINFORMATICS. 2007 MAR 15; 23 (6): 694-700

768

5960 Lunter G

Probabilistic whole-genome alignments reveal high indel rates in the human and mouse genomes

BIOINFORMATICS. 2007 JUL 1; 23 (13): I289-I296

769

6104 Reed C, Fofanov V, Putonti C, Chumakov S, Slezak T, et al.

Effect of the mutation rate and background size on the quality of pathogen identification

BIOINFORMATICS. 2007 OCT 15; 23 (20): 2665-2671

770

6135 Torkamani A, Schork NJ

Accurate prediction of deleterious protein kinase polymorphisms

BIOINFORMATICS. 2007 NOV 1; 23 (21): 2918-2925

Date / Author / Journal

LCS

GCS

LCR

771

6353 Abhiman S, Iyer LM, Aravind L

BEN: a novel domain in chromatin factors and DNA viral proteins

BIOINFORMATICS. 2008 FEB 15; 24 (4): 458-461

772

6587 Lee S, Cheran E, Brudno M

A robust framework for detecting structural variations in a genome

BIOINFORMATICS. 2008 JUL 1; 24 (13): I59-I67

773

6588 Xie MZ, Wang JX, Chen JN

A model of higher accuracy for the individual haplotyping problem based on weighted SNP fragments and genotype with errors

BIOINFORMATICS. 2008 JUL 1; 24 (13): I105-I113

774

6589 Uzgur A, Vu T, Erkan G, Radev DR

Identifying gene-disease associations using centrality on a literature mined gene-interaction network

BIOINFORMATICS. 2008 JUL 1; 24 (13): I277-I285

775

6592 Conley AB, Piriyapongsa J, Jordan IK

Retroviral promoters in the human genome

BIOINFORMATICS. 2008 JUL 15; 24 (14): 1563-1567

776

7027 Batuwita R, Palade V

microPred: effective classification of pre-miRNAs for human miRNA gene prediction

BIOINFORMATICS. 2009 APR 15; 25 (8): 989-995

777

7138 Wren JD

A global meta-analysis of microarray expression data to predict unknown gene functions and estimate the literature-data divide

BIOINFORMATICS. 2009 JUL 1; 25 (13): 1694-1701

778

7299 Dutilh BE, Huynen MA, Strous M

Increasing the coverage of a metapopulation consensus genome by iterative read mapping and assembly

BIOINFORMATICS. 2009 NOV 1; 25 (21): 2878-2881

779

751 Reis A

Dissecting the genetic component of complex diseases in humans

BIOINFORMATICS AND GENOME ANALYSIS. 2002; 38: 1-15

780

6195 Wei XT, Cowen L, Brodley C, Brady A, Sculley D, et al.

A distance-based method for detecting horizontal gene transfer in whole genomes

BIOINFORMATICS RESEARCH AND APPLICATIONS. 2008; 4983: 26-37

Date / Author / Journal

781

The role of melanopsin and other opsins in circadian clock resetting

BIOLOGIC EFFECTS OF LIGHT 2001. 2002; : 451-459

782

5354 Hemmi K, Ma DP, Miura Y, Kawaguchi M, Sasahara M, et al.

A homeodomain-zinc finger protein, ZFHX4, is expressed in neuronal differentiation manner and suppressed in muscle differentiation manner

BIOLOGICAL & PHARMACEUTICAL BULLETIN. 2006 SEP; 29 (9): 1830-1835

783

961 Carr SM, Marshall HD, Johnstone KA, Pynn LM, Stenson GB

How to tell a sea monster: Molecular discrimination of large marine animals of the North Atlantic

BIOLOGICAL BULLETIN. 2002 FEB; 202 (1): 1-5

784

6496 Freeman RM, Wu M, Cordonnier-Pratt MM, Pratt LH, Gruber CE, et al.

cDNA sequences for transcription factors and signaling proteins of the hemichordate Saccoglossus kowalevskii: Efficacy of the expressed sequence tag (EST) approach for evolutionary and developmental studies of a new organism

BIOLOGICAL BULLETIN. 2008 JUN; 214 (3): 284-302

785

7234 Dean D, Himes CM, Behrman E, Savage RM

Hunchback-like Protein Is Expressed in Cleavage Blastomeres, Gastrula Epithelium, and Ciliary Structures in Gastropods

BIOLOGICAL BULLETIN. 2009 OCT; 217 (2): 189-201

786

2543 Maurer-Stroh S, Washietl S, Eisenhaber F

Protein prenyltransferases: Anchor size, pseudogenes and parasites

BIOLOGICAL CHEMISTRY. 2003 JUL; 384 (7): 977-989

787

3436 Rossi A, Deveraux Q, Turk B, Sali A

Comprehensive search for cysteine cathepsins in the human genome

BIOLOGICAL CHEMISTRY. 2004 MAY; 385 (5): 363-372

788

4125 Sok AJ, Czajewska K, Ozyhar A, Kochman M

The structure of the juvenile hormone binding protein gene from Galleria mellonella

BIOLOGICAL CHEMISTRY. 2005 JAN; 386 (1): 1-10

789

4726 Hui JY, Bindereif A

Alternative pre-mRNA splicing in the human system: unexpected role of repetitive sequences as regulatory elements

BIOLOGICAL CHEMISTRY. 2005 DEC; 386 (12): 1265-1271

790

5203 Tan OL, Whitbread AK, Clements JA, Dong Y

BIOLOGICAL CHEMISTRY. 2006 JUN; 387 (6): 697-705

Date / Author / Journal

LCS

GCS

LCR

791

3654 Furlong RF, Holland PWH

Polyploidy in vertebrate ancestry: Ohno and beyond

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2004 AUG; 82 (4): 425-430

792

3655 Melayah D, Lim KY, Bonnivard E, Chalhoub B, De Borne FD, et al.

Distribution of the Tnt1 retrotransposon family in the amphidiploid tobacco (Nicotiana tabacum) and its wild Nicotiana relatives

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2004 AUG; 82 (4): 639-649

793

4246 Payseur BA, Nachman MW

The genomics of speciation: investigating the molecular correlates of X chromosome introgression across the hybrid zone between Mus domesticus and Mus musculus

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2005 MAR; 84 (3): 523-534

794

5319 Ryan FP

Genomic creativity and natural selection: a modern synthesis

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY. 2006 AUG; 88 (4): 655-672

199

795

3998 Stults JT, Arnott D

Proteomics

BIOLOGICAL MASS SPECTROMETRY. 2005; 402: 245-289

182

796

1649 Merikangas KR, Chakravarti A, Moldin SO, Araj H, Blangero J, et al.

Workgroup reports: NIMH strategic plan for mood disorders research - Future of genetics of mood disorders research

BIOLOGICAL PSYCHIATRY. 2002 SEP 15; 52 (6): 457-477

140

797

2185 Schulze TG, Chen YS, Badner JA, McInnis MG, DePaulo JR, et al.

Additional, physically ordered markers increase linkage signal for bipolar disorder on chromsome 18q22

BIOLOGICAL PSYCHIATRY. 2003 FEB 1; 53 (3): 239-243

798

3283 Ryan MM, Huffaker SJ, Webster MJ, Wayland M, Freeman T, et al.

Application and optimization of microarray technologies for human postmortem brain studies

BIOLOGICAL PSYCHIATRY. 2004 FEB 15; 55 (4): 329-336

799

5189 Hariri AR, Drabant EM, Weinberger DR

Imaging genetics: Perspectives from studies of genetically driven variation in serotonin function and corticolimbic affective processing

BIOLOGICAL PSYCHIATRY. 2006 MAY 15; 59 (10): 888-897

106

800

5246 Scolnick EM

Mechanisms of action of medicines for schizophrenia and bipolar illness: Status and limitations

BIOLOGICAL PSYCHIATRY. 2006 JUN 1; 59 (11): 1039-1045

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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