-
1
-
-
0027169136
-
HIV-1 infection of the SCID-hu mouse: An animal model for virus pathogenesis
-
Aldrovandi,G.M., Feuer,G., Gao,L., Kristeva,M., Chen,I.S.V., Jamieson,B. and Zach,J.A.(1993) HIV-1 infection of the SCID-hu mouse: an animal model for virus pathogenesis. Nature, 363, 732-736.
-
(1993)
Nature
, vol.363
, pp. 732-736
-
-
Aldrovandi, G.M.1
Feuer, G.2
Gao, L.3
Kristeva, M.4
Chen, I.S.V.5
Jamieson, B.6
Zach, J.A.7
-
2
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini,Y. and Hochberg,Y. (1995) Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. Roy. Stat. Soc. Ser. B, 57, 289-300.
-
(1995)
J. Roy. Stat. Soc. Ser. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
3
-
-
0034730161
-
Building a dictionary for genomes: Identification of presumptive regulatory sites by statistical analysis
-
Bussemaker,H.J., Li,H. and Siggia,E.D. (2000) Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis. Proc. Natl Acad. Sci. USA, 97, 10096-100100.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 10096-100100
-
-
Bussemaker, H.J.1
Li, H.2
Siggia, E.D.3
-
4
-
-
0035135420
-
Regulatory element detection using correlation with expression
-
Bussemaker,H.J., Li,H. and Siggia,E.D. (2001) Regulatory element detection using correlation with expression. Nat. Genet., 27, 167-171.
-
(2001)
Nat. Genet.
, vol.27
, pp. 167-171
-
-
Bussemaker, H.J.1
Li, H.2
Siggia, E.D.3
-
5
-
-
0003392343
-
-
Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
-
Carey,M. and Smale,S.T. (2000) Transcriptional Regulation in Eukaryotes: concepts, Strategies, and Techniques. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
-
(2000)
Transcriptional Regulation in Eukaryotes: Concepts, Strategies, and Techniques
-
-
Carey, M.1
Smale, S.T.2
-
6
-
-
0035236830
-
Visualizing associations between genome sequences and gene expression data using genome-mean expression profiles
-
Chiang,D.Y., Brown,P.O. and Eisen,M.B. (2001) Visualizing associations between genome sequences and gene expression data using genome-mean expression profiles. Bioinformatics, 17(Suppl. 1), S49-S55.
-
(2001)
Bioinformatics
, vol.17
, Issue.SUPPL. 1
-
-
Chiang, D.Y.1
Brown, P.O.2
Eisen, M.B.3
-
7
-
-
0141506115
-
Controlling false-negative errors in microarray differential expression analysis: A PRIM approach
-
Cole,S.W., Galic,Z. and Zack,J.A. (2003) Controlling false-negative errors in microarray differential expression analysis: a PRIM approach. Bioinformatics, 19, 1808-1816.
-
(2003)
Bioinformatics
, vol.19
, pp. 1808-1816
-
-
Cole, S.W.1
Galic, Z.2
Zack, J.A.3
-
8
-
-
0034916701
-
Temporal gene regulation during HIV-1 infection of human CD4+T cells
-
Corbeil,J., Sheeter,D., Genini,D., Rought,S., Leoni,L. Du,P., Ferguson,M., Masys,D.R., Welsh,J.B., Fink,J.L. et al. (2001) Temporal gene regulation during HIV-1 infection of human CD4+T cells. Genome. Res., 11, 1198-11204.
-
(2001)
Genome Res.
, vol.11
, pp. 1198-11204
-
-
Corbeil, J.1
Sheeter, D.2
Genini, D.3
Rought, S.4
Leoni, L.5
Du, P.6
Ferguson, M.7
Masys, D.R.8
Welsh, J.B.9
Fink, J.L.10
-
9
-
-
0031897632
-
NF-kappa B and Rel proteins: Evolutionarily conserved mediators of immune response
-
Ghosh,S., May,M.J. and Kopp,E.B. (1998) NF-kappa B and Rel proteins: evolutionarily conserved mediators of immune response. Ann. Rev. Immunol., 16, 225-260.
-
(1998)
Ann. Rev. Immunol.
, vol.16
, pp. 225-260
-
-
Ghosh, S.1
May, M.J.2
Kopp, E.B.3
-
10
-
-
0032826179
-
Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
-
Hertz,G.Z. and Stormo,G.D. (1999) Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics, 15, 563-577.
-
(1999)
Bioinformatics
, vol.15
, pp. 563-577
-
-
Hertz, G.Z.1
Stormo, G.D.2
-
11
-
-
0028897113
-
Transcriptional regulation by extracellular signals: Mechanisms and specificity
-
Hill,C.S. and Treisman,R. (1995) Transcriptional regulation by extracellular signals: mechanisms and specificity. Cell, 80 199-211.
-
(1995)
Cell
, vol.80
, pp. 199-211
-
-
Hill, C.S.1
Treisman, R.2
-
12
-
-
0034564606
-
Finding regulatory elements using joint likelihoods for sequence and expression profile data
-
Holmes,I. and Bruno,W.J. (2000) Finding regulatory elements using joint likelihoods for sequence and expression profile data. Proc. Int. Conf. Intell Syst. Mol. Biol., 8, 202-210.
-
(2000)
Proc. Int. Conf. Intell. Syst. Mol. Biol.
, vol.8
, pp. 202-210
-
-
Holmes, I.1
Bruno, W.J.2
-
14
-
-
0028245686
-
The c-fos serum response element (SRE) confers negative response to glucocorticoids
-
Karagianni,N. and Tsawdaroglou,N. (1994) The c-fos serum response element (SRE) confers negative response to glucocorticoids. Oncogene, 9, 2327-2334.
-
(1994)
Oncogene
, vol.9
, pp. 2327-2334
-
-
Karagianni, N.1
Tsawdaroglou, N.2
-
15
-
-
0036136882
-
IFN-alpha secretion by type 2 predendritic cells up-regulates MHC class I in the HIV-1-infected thymus
-
Keir,M.E., Stoddart,C.A., Linquist-Stepps,V., Moreno,M.E. and McCune,J.M. (2002) IFN-alpha secretion by type 2 predendritic cells up-regulates MHC class I in the HIV-1-infected thymus. J. Immunol., 168, 325-331.
-
(2002)
J. Immunol.
, vol.168
, pp. 325-331
-
-
Keir, M.E.1
Stoddart, C.A.2
Linquist-Stepps, V.3
Moreno, M.E.4
McCune, J.M.5
-
16
-
-
0024604148
-
Measurement of the binding of transcription factor Sp1 to a single GC box recognition sequence
-
Letovsky,J. and Dynan,W.S. (1989) Measurement of the binding of transcription factor Sp1 to a single GC box recognition sequence. Nucleic Acids Res., 17, 2639-2653.
-
(1989)
Nucleic Acids Res.
, vol.17
, pp. 2639-2653
-
-
Letovsky, J.1
Dynan, W.S.2
-
17
-
-
0035228215
-
BioProspector: Discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes
-
Liu,X., Brutlag,D.L. and Liu,J.S. (2001) BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes. Pac. Symp. Biocomput., 127-138.
-
(2001)
Pac. Symp. Biocomput.
, pp. 127-138
-
-
Liu, X.1
Brutlag, D.L.2
Liu, J.S.3
-
18
-
-
10544256600
-
Expression monitoring by high-density oligonucleotide arrays
-
Lockhart,D., Dong,H., Byre,M.C., Follettie,M.T., Gallo,M.V., Chee,M.S., Mittman,M., Wang,C., Kobayashi,M., Horton,H. and Brown,E.L. (1996) Expression monitoring by high-density oligonucleotide arrays. Nat. Biotechnol., 14, 1675-1680.
-
(1996)
Nat. Biotechnol.
, vol.14
, pp. 1675-1680
-
-
Lockhart, D.1
Dong, H.2
Byre, M.C.3
Follettie, M.T.4
Gallo, M.V.5
Chee, M.S.6
Mittman, M.7
Wang, C.8
Kobayashi, M.9
Horton, H.10
Brown, E.L.11
-
19
-
-
0037154247
-
Deciphering genetic regulatory codes: A challenge for functional genomics
-
Michelson,A.M. (2002) Deciphering genetic regulatory codes: a challenge for functional genomics. Proc. Natl Acad. Sci. USA, 99 546-548.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 546-548
-
-
Michelson, A.M.1
-
20
-
-
0038337006
-
Activation of the signal transducer and activator of transcription 1 signaling pathway in thymocytes from HIV-1-infected human thymus
-
Miller,E.D., Smith,J.A., Lichtinger,M., Wang,L. and Su,L. (2003) Activation of the signal transducer and activator of transcription 1 signaling pathway in thymocytes from HIV-1-infected human thymus. Aids, 17, 1269-1277.
-
(2003)
Aids
, vol.17
, pp. 1269-1277
-
-
Miller, E.D.1
Smith, J.A.2
Lichtinger, M.3
Wang, L.4
Su, L.5
-
22
-
-
0024396320
-
Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins
-
Mitchell,P.J. and Tjian,R. (1989) Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins. Science 245, 371-378.
-
(1989)
Science
, vol.245
, pp. 371-378
-
-
Mitchell, P.J.1
Tjian, R.2
-
23
-
-
0033830252
-
Dexamethasone inhibition of TGF beta-induced cell growth and type II collagen mRNA expression through ERK-integrated AP-1 activity in cultured rat articular chondrocytes
-
Miyazaki,Y., Tsukazaki,T., Hirota,Y., Yonekura,A., Osaki,M., Shindo,H. and Yamashita,S. (2000) Dexamethasone inhibition of TGF beta-induced cell growth and type II collagen mRNA expression through ERK-integrated AP-1 activity in cultured rat articular chondrocytes. Osteoarthritis Cartilage, 8, 378-385.
-
(2000)
Osteoarthritis Cartilage
, vol.8
, pp. 378-385
-
-
Miyazaki, Y.1
Tsukazaki, T.2
Hirota, Y.3
Yonekura, A.4
Osaki, M.5
Shindo, H.6
Yamashita, S.7
-
24
-
-
0035252126
-
Identification and analysis of eukaryotic promoters: Recent computational approaches
-
Ohler,U. and Niemann,H. (2001) Identification and analysis of eukaryotic promoters: recent computational approaches. Trends Genet. 17, 56-60.
-
(2001)
Trends Genet.
, vol.17
, pp. 56-60
-
-
Ohler, U.1
Niemann, H.2
-
25
-
-
0026682657
-
Transcription factors: Structural families and principles of DNA recognition
-
Pabo,C.O. and Sauer,R.T. (1992) Transcription factors: structural families and principles of DNA recognition. Annu. Rev. Biochem., 61, 1053-1095.
-
(1992)
Annu. Rev. Biochem.
, vol.61
, pp. 1053-1095
-
-
Pabo, C.O.1
Sauer, R.T.2
-
26
-
-
0032515034
-
Glucocorticoid receptor transcriptional activity determined by spacing of receptor and nonreceptor DNA sites
-
Pearce,D., Matsui,W., Miner,J.N. and Yamamoto,K.R. (1998) Glucocorticoid receptor transcriptional activity determined by spacing of receptor and nonreceptor DNA sites. J. Biol. Chem., 273, 30081-30085.
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 30081-30085
-
-
Pearce, D.1
Matsui, W.2
Miner, J.N.3
Yamamoto, K.R.4
-
27
-
-
0039316318
-
Recruitment of octamer transcription factors to DNA by glucocorticoid receptor
-
Prefontaine,G.G., Lemieux,M.E., Giffin,W., Schild-Poulter,C., Pope,L., LaCasse,E., Walker,P. and Hache,R.J. (1998) Recruitment of octamer transcription factors to DNA by glucocorticoid receptor. Mol. Cell Biol., 18, 3416-3430.
-
(1998)
Mol. Cell Biol.
, vol.18
, pp. 3416-3430
-
-
Prefontaine, G.G.1
Lemieux, M.E.2
Giffin, W.3
Schild-Poulter, C.4
Pope, L.5
LaCasse, E.6
Walker, P.7
Hache, R.J.8
-
28
-
-
0035162594
-
RefSeq and LocusLink: NCBI gene-centered resources
-
Pruitt,K.D. and Maglott,D.R. (2001) RefSeq and LocusLink: NCBI gene-centered resources. Nucl. Acids Res., 29, 137-140.
-
(2001)
Nucl. Acids Res.
, vol.29
, pp. 137-140
-
-
Pruitt, K.D.1
Maglott, D.R.2
-
29
-
-
0028971143
-
MatInd and MatInspector: New fast and versatile tools for detection of consensus matches in nucleotide sequence data
-
Quandt,K., Frech,K., Karas,H., Wingender,E. and Werner,T. (1995) MatInd and MatInspector: new fast and versatile tools for detection of consensus matches in nucleotide sequence data. Nucleic Acids Res., 23, 4878-4884.
-
(1995)
Nucleic Acids Res.
, vol.23
, pp. 4878-4884
-
-
Quandt, K.1
Frech, K.2
Karas, H.3
Wingender, E.4
Werner, T.5
-
30
-
-
0028238351
-
The macromolecular state of the transcription factor E2F and glucocorticoid regulation of c-myc transcription
-
Rhee,K., Ma,T. and Thompson,E.A. (1994) The macromolecular state of the transcription factor E2F and glucocorticoid regulation of c-myc transcription. J. Biol. Chem., 269, 17035-17042.
-
(1994)
J. Biol. Chem.
, vol.269
, pp. 17035-17042
-
-
Rhee, K.1
Ma, T.2
Thompson, E.A.3
-
31
-
-
0031787969
-
Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation
-
Roth,F.P., Hughes,J.D., and Estep,P.W. and Church,G.M. (1998) Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation. Nat. Biotechnol., 16, 939-945.
-
(1998)
Nat. Biotechnol.
, vol.16
, pp. 939-945
-
-
Roth, F.P.1
Hughes, J.D.2
Estep, P.W.3
Church, G.M.4
-
32
-
-
0029128427
-
Regulation of human immunodeficiency virus type 1 and cytokine gene expression in myeloid cells by NF-kappa B/Rel transcription factors
-
Roulston,A., Lin,R., Beauparlant,P., Wainberg,M.A. and Hiscott,J. (1995) Regulation of human immunodeficiency virus type 1 and cytokine gene expression in myeloid cells by NF-kappa B/Rel transcription factors. Microbiol. Rev., 59, 481-505.
-
(1995)
Microbiol. Rev.
, vol.59
, pp. 481-505
-
-
Roulston, A.1
Lin, R.2
Beauparlant, P.3
Wainberg, M.A.4
Hiscott, J.5
-
34
-
-
0028806048
-
Quantitative monitoring of gene expression profiles in complementary DNA microarrays
-
Schena,M., Shalon,D., Davis,R.W. and Brown,P.O. (1995) Quantitative monitoring of gene expression profiles in complementary DNA microarrays. Science, 270, 467-470.
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
35
-
-
0035477896
-
Core promoters: Active contributors to combinatorial gene regulation
-
Smale,S.T. (2001) Core promoters: active contributors to combinatorial gene regulation. Genes Dev., 15, 2503-2508.
-
(2001)
Genes Dev.
, vol.15
, pp. 2503-2508
-
-
Smale, S.T.1
-
36
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
Spellman,P.T., Sherlock,G., Zhang,M.Q., Iyer,V.R., Anders,K., Eisen,M.B., Brown,P.O., Bolstein,D. and Futcher,B. (1998) Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol. Biol. Cell, 9, 3273-3297.
-
(1998)
Mol. Biol. Cell
, vol.9
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, V.R.4
Anders, K.5
Eisen, M.B.6
Brown, P.O.7
Bolstein, D.8
Futcher, B.9
-
37
-
-
0032483307
-
Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies
-
van Helden,J., Andre,B. and Collado-Vides,J. (1998) Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies. J. Mol. Biol. 281, 827-842.
-
(1998)
J. Mol. Biol.
, vol.281
, pp. 827-842
-
-
van Helden, J.1
Andre, B.2
Collado-Vides, J.3
-
38
-
-
0028789793
-
Serial analysis of gene expression
-
Velculescu,V.E., Zhang,L., Vogelstein,B. and Kinzler,K.W. (1995) Serial analysis of gene expression. Science, 270, 484-487.
-
(1995)
Science
, vol.270
, pp. 484-487
-
-
Velculescu, V.E.1
Zhang, L.2
Vogelstein, B.3
Kinzler, K.W.4
-
39
-
-
0033394535
-
Genes regulated cooperatively by one or more transcription factors and their identification in whole eukaryotic genomes
-
Wagner,A. (1999) Genes regulated cooperatively by one or more transcription factors and their identification in whole eukaryotic genomes. Bioinformatics, 15, 776-784.
-
(1999)
Bioinformatics
, vol.15
, pp. 776-784
-
-
Wagner, A.1
-
40
-
-
0029960055
-
TRANSFAC: A database on transcription factors and their DNA binding sites
-
Wingender,E., Dietze,P., Karas,H. and Knüppel,R. (1996) TRANSFAC: a database on transcription factors and their DNA binding sites. Nucleic Acids Res., 24, 238-241.
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 238-241
-
-
Wingender, E.1
Dietze, P.2
Karas, H.3
Knüppel, R.4
-
41
-
-
0032848435
-
Candidate regulatory sequence elements for cell cycle-dependent transcription in Saccharomyces cerevisiae
-
Wolfsberg,T.G., Gabrielian,A.E., Campbell,M.J., Cho,R.J., Spouge,J.L. and Landsman,D. (1999) Candidate regulatory sequence elements for cell cycle-dependent transcription in Saccharomyces cerevisiae. Genome Res., 9, 775-792.
-
(1999)
Genome Res.
, vol.9
, pp. 775-792
-
-
Wolfsberg, T.G.1
Gabrielian, A.E.2
Campbell, M.J.3
Cho, R.J.4
Spouge, J.L.5
Landsman, D.6
-
42
-
-
0037333615
-
Natural alpha interferon-producing cells respond to human immunodeficiency virus type 1 with alpha interferon production and maturation into dendritic cells
-
Yonezawa,A., Morita,R., Takaori-Kondo,A., Kadowaki,N., Kitawaki,T., Hori,T. and Uchiyama,T. (2003) Natural alpha interferon-producing cells respond to human immunodeficiency virus type 1 with alpha interferon production and maturation into dendritic cells. J. Virol., 77, 3777-3784.
-
(2003)
J. Virol.
, vol.77
, pp. 3777-3784
-
-
Yonezawa, A.1
Morita, R.2
Takaori-Kondo, A.3
Kadowaki, N.4
Kitawaki, T.5
Hori, T.6
Uchiyama, T.7
-
43
-
-
0036171022
-
CDP binding to multiple sites in the mouse mammary tumor virus long terminal repeat suppresses basal and glucocorticoid-induced transcription
-
Zhu,Q. and Dudley,J.P. (2002) CDP binding to multiple sites in the mouse mammary tumor virus long terminal repeat suppresses basal and glucocorticoid-induced transcription. J. Virol., 76, 2168-2179.
-
(2002)
J. Virol.
, vol.76
, pp. 2168-2179
-
-
Zhu, Q.1
Dudley, J.P.2
|