-
1
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways
-
N. Cancer Genome Atlas Research
-
N. Cancer Genome Atlas Research Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 2008, 455:1061-1068.
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
-
2
-
-
0014797273
-
A relational model of data for large shared data banks
-
Codd E.F. A relational model of data for large shared data banks. Commun. ACM 1970, 13:377-387.
-
(1970)
Commun. ACM
, vol.13
, pp. 377-387
-
-
Codd, E.F.1
-
4
-
-
77954364618
-
Will NoSQL databases live up to their promise?
-
Leavitt N. Will NoSQL databases live up to their promise?. Computer 2010, 43:12-14.
-
(2010)
Computer
, vol.43
, pp. 12-14
-
-
Leavitt, N.1
-
5
-
-
78650802666
-
SeqWare query engine: storing and searching sequence data in the cloud
-
O'Connor B.D., Merriman B., Nelson S.F. SeqWare query engine: storing and searching sequence data in the cloud. BMC Bioinformatics 2010, 11(Suppl. 12):S2.
-
(2010)
BMC Bioinformatics
, vol.11
, Issue.SUPPL. 12
-
-
O'Connor, B.D.1
Merriman, B.2
Nelson, S.F.3
-
6
-
-
80052032711
-
Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case
-
Russ T.A., Ramakrishnan C., Hovy E.H., Bota M., Burns G.A. Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case. BMC Bioinformatics 2011, 12:351.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 351
-
-
Russ, T.A.1
Ramakrishnan, C.2
Hovy, E.H.3
Bota, M.4
Burns, G.A.5
-
7
-
-
27544446224
-
The international HapMap Project web site
-
Thorisson G.A., Smith A.V., Krishnan L., Stein L.D. The international HapMap Project web site. Genome Res. 2005, 15:1592-1593.
-
(2005)
Genome Res.
, vol.15
, pp. 1592-1593
-
-
Thorisson, G.A.1
Smith, A.V.2
Krishnan, L.3
Stein, L.D.4
-
8
-
-
79959503826
-
The international HapMap Project
-
The international HapMap Project Nature 2003, 426:789-796.
-
(2003)
Nature
, vol.426
, pp. 789-796
-
-
-
9
-
-
61649083057
-
BioMart-biological queries made easy
-
Smedley D., Haider S., Ballester B., Holland R., London D., Thorisson G., Kasprzyk A. BioMart-biological queries made easy. BMC Genomics 2009, 10:22.
-
(2009)
BMC Genomics
, vol.10
, pp. 22
-
-
Smedley, D.1
Haider, S.2
Ballester, B.3
Holland, R.4
London, D.5
Thorisson, G.6
Kasprzyk, A.7
-
10
-
-
67849095416
-
BioMart Central Portal-unified access to biological data
-
Haider S., Ballester B., Smedley D., Zhang J., Rice P., Kasprzyk A. BioMart Central Portal-unified access to biological data. Nucleic Acids Res. 2009, 37:W23-W27.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Haider, S.1
Ballester, B.2
Smedley, D.3
Zhang, J.4
Rice, P.5
Kasprzyk, A.6
-
11
-
-
78650928159
-
GeneCards version 3: the human gene integrator
-
((2010) baq020)
-
Safran M., Dalah I., Alexander J., Rosen N., Iny Stein T., Shmoish M., Nativ N., Bahir I., Doniger T., Krug H., Sirota-Madi A., Olender T., Golan Y., Stelzer G., Harel A., Lancet D. GeneCards version 3: the human gene integrator. Database (Oxford) 2010, ((2010) baq020).
-
(2010)
Database (Oxford)
-
-
Safran, M.1
Dalah, I.2
Alexander, J.3
Rosen, N.4
Iny Stein, T.5
Shmoish, M.6
Nativ, N.7
Bahir, I.8
Doniger, T.9
Krug, H.10
Sirota-Madi, A.11
Olender, T.12
Golan, Y.13
Stelzer, G.14
Harel, A.15
Lancet, D.16
-
12
-
-
71849119227
-
GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation
-
Stelzer G., Inger A., Olender T., Iny-Stein T., Dalah I., Harel A., Safran M., Lancet D. GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation. OMICS 2009, 13:477-487.
-
(2009)
OMICS
, vol.13
, pp. 477-487
-
-
Stelzer, G.1
Inger, A.2
Olender, T.3
Iny-Stein, T.4
Dalah, I.5
Harel, A.6
Safran, M.7
Lancet, D.8
-
13
-
-
2942547885
-
The distributed annotation system
-
Dowell R.D., Jokerst R.M., Day A., Eddy S.R., Stein L. The distributed annotation system. BMC Bioinformatics 2001, 2:7.
-
(2001)
BMC Bioinformatics
, vol.2
, pp. 7
-
-
Dowell, R.D.1
Jokerst, R.M.2
Day, A.3
Eddy, S.R.4
Stein, L.5
-
14
-
-
48249136122
-
Integrating biological data-the Distributed Annotation System
-
Jenkinson A.M., Albrecht M., Birney E., Blankenburg H., Down T., Finn R.D., Hermjakob H., Hubbard T.J., Jimenez R.C., Jones P., Kahari A., Kulesha E., Macias J.R., Reeves G.A., Prlic A. Integrating biological data-the Distributed Annotation System. BMC Bioinformatics 2008, 9(Suppl. 8):S3.
-
(2008)
BMC Bioinformatics
, vol.9
, Issue.SUPPL. 8
-
-
Jenkinson, A.M.1
Albrecht, M.2
Birney, E.3
Blankenburg, H.4
Down, T.5
Finn, R.D.6
Hermjakob, H.7
Hubbard, T.J.8
Jimenez, R.C.9
Jones, P.10
Kahari, A.11
Kulesha, E.12
Macias, J.R.13
Reeves, G.A.14
Prlic, A.15
-
16
-
-
78651320424
-
The UCSC Genome Browser database: update 2011
-
Fujita P.A., Rhead B., Zweig A.S., Hinrichs A.S., Karolchik D., Cline M.S., Goldman M., Barber G.P., Clawson H., Coelho A., Diekhans M., Dreszer T.R., Giardine B.M., Harte R.A., Hillman-Jackson J., Hsu F., Kirkup V., Kuhn R.M., Learned K., Li C.H., Meyer L.R., Pohl A., Raney B.J., Rosenbloom K.R., Smith K.E., Haussler D., Kent W.J. The UCSC Genome Browser database: update 2011. Nucleic Acids Res. 2011, 39:D876-D882.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Fujita, P.A.1
Rhead, B.2
Zweig, A.S.3
Hinrichs, A.S.4
Karolchik, D.5
Cline, M.S.6
Goldman, M.7
Barber, G.P.8
Clawson, H.9
Coelho, A.10
Diekhans, M.11
Dreszer, T.R.12
Giardine, B.M.13
Harte, R.A.14
Hillman-Jackson, J.15
Hsu, F.16
Kirkup, V.17
Kuhn, R.M.18
Learned, K.19
Li, C.H.20
Meyer, L.R.21
Pohl, A.22
Raney, B.J.23
Rosenbloom, K.R.24
Smith, K.E.25
Haussler, D.26
Kent, W.J.27
more..
-
18
-
-
33644750115
-
MiRBase: microRNA sequences, targets and gene nomenclature
-
Griffiths-Jones S., Grocock R.J., van Dongen S., Bateman A., Enright A.J. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 2006, 34:D140-D144.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Griffiths-Jones, S.1
Grocock, R.J.2
van Dongen, S.3
Bateman, A.4
Enright, A.J.5
-
20
-
-
78651293534
-
MiRBase: integrating microRNA annotation and deep-sequencing data
-
Kozomara A., Griffiths-Jones S. miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res. 2011, 39:D152-D157.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Kozomara, A.1
Griffiths-Jones, S.2
-
21
-
-
84862771773
-
-
Affymetrix, pp. NetAffxTM Analysis Center.
-
Affymetrix, 2011, pp. NetAffxTM Analysis Center. http://www.affymetrix.com/analysis/index.affx.
-
(2011)
-
-
-
22
-
-
84862762148
-
-
Illumina, pp. Annotation files - whole-genome arrays.
-
Illumina, 2011, pp. Annotation files - whole-genome arrays. http://www.switchtoi.com/annotationfiles.ilmn.
-
(2011)
-
-
-
23
-
-
84862757872
-
-
Agilent, pp. eArray web portal.
-
Agilent, 2011, pp. eArray web portal. https://earray.chem.agilent.com/earray/.
-
(2011)
-
-
-
25
-
-
75549090848
-
Update of TTD: Therapeutic Target Database
-
Zhu F., Han B., Kumar P., Liu X., Ma X., Wei X., Huang L., Guo Y., Han L., Zheng C., Chen Y. Update of TTD: Therapeutic Target Database. Nucleic Acids Res. 2010, 38:D787-D791.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Zhu, F.1
Han, B.2
Kumar, P.3
Liu, X.4
Ma, X.5
Wei, X.6
Huang, L.7
Guo, Y.8
Han, L.9
Zheng, C.10
Chen, Y.11
-
26
-
-
33644876210
-
DrugBank: a comprehensive resource for in silico drug discovery and exploration
-
Wishart D.S., Knox C., Guo A.C., Shrivastava S., Hassanali M., Stothard P., Chang Z., Woolsey J. DrugBank: a comprehensive resource for in silico drug discovery and exploration. Nucleic Acids Res. 2006, 34:D668-D672.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
Shrivastava, S.4
Hassanali, M.5
Stothard, P.6
Chang, Z.7
Woolsey, J.8
-
27
-
-
78651287426
-
DrugBank 3.0: a comprehensive resource for 'omics' research on drugs
-
Knox C., Law V., Jewison T., Liu P., Ly S., Frolkis A., Pon A., Banco K., Mak C., Neveu V., Djoumbou Y., Eisner R., Guo A.C., Wishart D.S. DrugBank 3.0: a comprehensive resource for 'omics' research on drugs. Nucleic Acids Res. 2011, 39:D1035-D1041.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Knox, C.1
Law, V.2
Jewison, T.3
Liu, P.4
Ly, S.5
Frolkis, A.6
Pon, A.7
Banco, K.8
Mak, C.9
Neveu, V.10
Djoumbou, Y.11
Eisner, R.12
Guo, A.C.13
Wishart, D.S.14
-
28
-
-
40549130652
-
PDTD: a web-accessible protein database for drug target identification
-
Gao Z., Li H., Zhang H., Liu X., Kang L., Luo X., Zhu W., Chen K., Wang X., Jiang H. PDTD: a web-accessible protein database for drug target identification. BMC Bioinformatics 2008, 9:104.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 104
-
-
Gao, Z.1
Li, H.2
Zhang, H.3
Liu, X.4
Kang, L.5
Luo, X.6
Zhu, W.7
Chen, K.8
Wang, X.9
Jiang, H.10
-
29
-
-
75549087827
-
STITCH 2: an interaction network database for small molecules and proteins
-
Kuhn M., Szklarczyk D., Franceschini A., Campillos M., von Mering C., Jensen L.J., Beyer A., Bork P. STITCH 2: an interaction network database for small molecules and proteins. Nucleic Acids Res. 2010, 38:D552-D556.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Kuhn, M.1
Szklarczyk, D.2
Franceschini, A.3
Campillos, M.4
von Mering, C.5
Jensen, L.J.6
Beyer, A.7
Bork, P.8
-
30
-
-
38549130733
-
STITCH: interaction networks of chemicals and proteins
-
Kuhn M., von Mering C., Campillos M., Jensen L.J., Bork P. STITCH: interaction networks of chemicals and proteins. Nucleic Acids Res. 2008, 36:D684-D688.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Kuhn, M.1
von Mering, C.2
Campillos, M.3
Jensen, L.J.4
Bork, P.5
-
31
-
-
38549182474
-
SuperTarget and Matador: resources for exploring drug-target relationships
-
Gunther S., Kuhn M., Dunkel M., Campillos M., Senger C., Petsalaki E., Ahmed J., Urdiales E.G., Gewiess A., Jensen L.J., Schneider R., Skoblo R., Russell R.B., Bourne P.E., Bork P., Preissner R. SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Res. 2008, 36:D919-D922.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Gunther, S.1
Kuhn, M.2
Dunkel, M.3
Campillos, M.4
Senger, C.5
Petsalaki, E.6
Ahmed, J.7
Urdiales, E.G.8
Gewiess, A.9
Jensen, L.J.10
Schneider, R.11
Skoblo, R.12
Russell, R.B.13
Bourne, P.E.14
Bork, P.15
Preissner, R.16
-
32
-
-
0036081355
-
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
-
Edgar R., Domrachev M., Lash A.E. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 2002, 30:207-210.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 207-210
-
-
Edgar, R.1
Domrachev, M.2
Lash, A.E.3
-
33
-
-
67549093672
-
Array CGH analysis of chronic lymphocytic leukemia reveals frequent cryptic monoallelic and biallelic deletions of chromosome 22q11 that include the PRAME gene
-
Gunn S.R., Bolla A.R., Barron L.L., Gorre M.E., Mohammed M.S., Bahler D.W., Mellink C.H., van Oers M.H., Keating M.J., Ferrajoli A., Coombes K.R., Abruzzo L.V., Robetorye R.S. Array CGH analysis of chronic lymphocytic leukemia reveals frequent cryptic monoallelic and biallelic deletions of chromosome 22q11 that include the PRAME gene. Leuk. Res. 2009, 33:1276-1281.
-
(2009)
Leuk. Res.
, vol.33
, pp. 1276-1281
-
-
Gunn, S.R.1
Bolla, A.R.2
Barron, L.L.3
Gorre, M.E.4
Mohammed, M.S.5
Bahler, D.W.6
Mellink, C.H.7
van Oers, M.H.8
Keating, M.J.9
Ferrajoli, A.10
Coombes, K.R.11
Abruzzo, L.V.12
Robetorye, R.S.13
-
34
-
-
64249136718
-
Uniparental disomies, homozygous deletions, amplifications, and target genes in mantle cell lymphoma revealed by integrative high-resolution whole-genome profiling
-
Bea S., Salaverria I., Armengol L., Pinyol M., Fernandez V., Hartmann E.M., Jares P., Amador V., Hernandez L., Navarro A., Ott G., Rosenwald A., Estivill X., Campo E. Uniparental disomies, homozygous deletions, amplifications, and target genes in mantle cell lymphoma revealed by integrative high-resolution whole-genome profiling. Blood 2009, 113:3059-3069.
-
(2009)
Blood
, vol.113
, pp. 3059-3069
-
-
Bea, S.1
Salaverria, I.2
Armengol, L.3
Pinyol, M.4
Fernandez, V.5
Hartmann, E.M.6
Jares, P.7
Amador, V.8
Hernandez, L.9
Navarro, A.10
Ott, G.11
Rosenwald, A.12
Estivill, X.13
Campo, E.14
-
35
-
-
84862762145
-
-
GeoCouch, github, pp. GeoCouch is a spatial extension for Apache CouchDB and Couchbase.
-
GeoCouch, github, pp. GeoCouch is a spatial extension for Apache CouchDB and Couchbase. https://github.com/couchbase/geocouch/.
-
-
-
-
38
-
-
0033927616
-
Medical Subject Headings (MeSH)
-
Lipscomb C.E. Medical Subject Headings (MeSH). Bull. Med. Libr. Assoc. 2000, 88:265-266.
-
(2000)
Bull. Med. Libr. Assoc.
, vol.88
, pp. 265-266
-
-
Lipscomb, C.E.1
-
39
-
-
38549151817
-
DrugBank: a knowledgebase for drugs, drug actions and drug targets
-
Wishart D.S., Knox C., Guo A.C., Cheng D., Shrivastava S., Tzur D., Gautam B., Hassanali M. DrugBank: a knowledgebase for drugs, drug actions and drug targets. Nucleic Acids Res. 2008, 36:D901-D906.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Wishart, D.S.1
Knox, C.2
Guo, A.C.3
Cheng, D.4
Shrivastava, S.5
Tzur, D.6
Gautam, B.7
Hassanali, M.8
-
40
-
-
33644874819
-
From genomics to chemical genomics: new developments in KEGG
-
Kanehisa M., Goto S., Hattori M., Aoki-Kinoshita K.F., Itoh M., Kawashima S., Katayama T., Araki M., Hirakawa M. From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 2006, 34:D354-D357.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Kanehisa, M.1
Goto, S.2
Hattori, M.3
Aoki-Kinoshita, K.F.4
Itoh, M.5
Kawashima, S.6
Katayama, T.7
Araki, M.8
Hirakawa, M.9
-
41
-
-
13444270892
-
The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema
-
Deshpande N., Addess K.J., Bluhm W.F., Merino-Ott J.C., Townsend-Merino W., Zhang Q., Knezevich C., Xie L., Chen L., Feng Z., Green R.K., Flippen-Anderson J.L., Westbrook J., Berman H.M., Bourne P.E. The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema. Nucleic Acids Res. 2005, 33:D233-D237.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Deshpande, N.1
Addess, K.J.2
Bluhm, W.F.3
Merino-Ott, J.C.4
Townsend-Merino, W.5
Zhang, Q.6
Knezevich, C.7
Xie, L.8
Chen, L.9
Feng, Z.10
Green, R.K.11
Flippen-Anderson, J.L.12
Westbrook, J.13
Berman, H.M.14
Bourne, P.E.15
-
42
-
-
78651345652
-
The RCSB Protein Data Bank: redesigned web site and web services
-
Rose P.W., Beran B., Bi C., Bluhm W.F., Dimitropoulos D., Goodsell D.S., Prlic A., Quesada M., Quinn G.B., Westbrook J.D., Young J., Yukich B., Zardecki C., Berman H.M., Bourne P.E. The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Res. 2011, 39:D392-D401.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Rose, P.W.1
Beran, B.2
Bi, C.3
Bluhm, W.F.4
Dimitropoulos, D.5
Goodsell, D.S.6
Prlic, A.7
Quesada, M.8
Quinn, G.B.9
Westbrook, J.D.10
Young, J.11
Yukich, B.12
Zardecki, C.13
Berman, H.M.14
Bourne, P.E.15
-
43
-
-
25444449536
-
SuperLigands - a database of ligand structures derived from the Protein Data Bank
-
Michalsky E., Dunkel M., Goede A., Preissner R. SuperLigands - a database of ligand structures derived from the Protein Data Bank. BMC Bioinformatics 2005, 6:122.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 122
-
-
Michalsky, E.1
Dunkel, M.2
Goede, A.3
Preissner, R.4
-
44
-
-
13444249988
-
STRING: known and predicted protein-protein associations, integrated and transferred across organisms
-
von Mering C., Jensen L.J., Snel B., Hooper S.D., Krupp M., Foglierini M., Jouffre N., Huynen M.A., Bork P. STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res. 2005, 33:D433-D437.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
von Mering, C.1
Jensen, L.J.2
Snel, B.3
Hooper, S.D.4
Krupp, M.5
Foglierini, M.6
Jouffre, N.7
Huynen, M.A.8
Bork, P.9
-
45
-
-
3543105225
-
Circular binary segmentation for the analysis of array-based DNA copy number data
-
Olshen A.B., Venkatraman E.S., Lucito R., Wigler M. Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics 2004, 5:557-572.
-
(2004)
Biostatistics
, vol.5
, pp. 557-572
-
-
Olshen, A.B.1
Venkatraman, E.S.2
Lucito, R.3
Wigler, M.4
-
46
-
-
34147104969
-
A faster circular binary segmentation algorithm for the analysis of array CGH data
-
Venkatraman E.S., Olshen A.B. A faster circular binary segmentation algorithm for the analysis of array CGH data. Bioinformatics 2007, 23:657-663.
-
(2007)
Bioinformatics
, vol.23
, pp. 657-663
-
-
Venkatraman, E.S.1
Olshen, A.B.2
|