Gene expression profiling (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Gene expression profiling" in English language version.

refsWebsite

Global rank English rank

31nih.gov

4^th place

18doi.org

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3semanticscholar.org

11^th place

8^th place

2mit.edu

415^th place

327^th place

1zenodo.org

621^st place

380^th place

1micans.org

low place

1web.archive.org

1^st place

1stanford.edu

179^th place

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1harvard.edu

18^th place

17^th place

1rug.nl

2,779^th place

1,997^th place

1fda.gov

447^th place

338^th place

1ctdbase.org

low place

1ingenuity.com

low place

ctdbase.org

"CTD: The Comparative Toxicogenomics Database". Retrieved 2008-01-03.

doi.org

Suter L, Babiss LE, Wheeldon EB (2004). "Toxicogenomics in predictive toxicology in drug development". Chem. Biol. 11 (2): 161–71. doi:10.1016/j.chembiol.2004.02.003. PMID 15123278.
Cheung AN (2007). "Molecular targets in gynaecological cancers". Pathology. 39 (1): 26–45. doi:10.1080/00313020601153273. PMID 17365821. S2CID 40896577.
Mirza SP, Olivier M (2007). "Methods and approaches for the comprehensive characterization and quantification of cellular proteomes using mass spectrometry". Physiol Genomics. 33 (1): 3–11. doi:10.1152/physiolgenomics.00292.2007. PMC 2771641. PMID 18162499.
Hebert AS, Richards AL, et al. (2014). "The One Hour Yeast Proteome". Mol Cell Proteomics. 13 (1): 339–347. doi:10.1074/mcp.M113.034769. PMC 3879625. PMID 24143002.
Chen JJ (2007). "Key aspects of analyzing microarray gene-expression data". Pharmacogenomics. 8 (5): 473–82. doi:10.2217/14622416.8.5.473. PMID 17465711.
Jaskowiak, Pablo A; Campello, Ricardo JGB; Costa, Ivan G (24 January 2014). "On the selection of appropriate distances for gene expression data clustering". BMC Bioinformatics. 15 (Suppl 2): S2. doi:10.1186/1471-2105-15-S2-S2. PMC 4072854. PMID 24564555.
Vardhanabhuti S, Blakemore SJ, Clark SM, Ghosh S, Stephens RJ, Rajagopalan D (2006). "A comparison of statistical tests for detecting differential expression using Affymetrix oligonucleotide microarrays". OMICS. 10 (4): 555–66. doi:10.1089/omi.2006.10.555. PMID 17233564.
Yauk CL, Berndt ML (2007). "Review of the literature examining the correlation among DNA microarray technologies". Environ. Mol. Mutagen. 48 (5): 380–94. Bibcode:2007EnvMM..48..380Y. doi:10.1002/em.20290. PMC 2682332. PMID 17370338.
Breitling R (2006). "Biological microarray interpretation: the rules of engagement" (PDF). Biochim. Biophys. Acta. 1759 (7): 319–27. doi:10.1016/j.bbaexp.2006.06.003. PMID 16904203. S2CID 1857997.
Draminski M, Rada-Iglesias A, Enroth S, Wadelius C, Koronacki J, Komorowski J (2008). "Monte Carlo feature selection for supervised classification". Bioinformatics. 24 (1): 110–7. doi:10.1093/bioinformatics/btm486. PMID 18048398.
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP (2005). "Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles". Proc. Natl. Acad. Sci. U.S.A. 102 (43): 15545–50. doi:10.1073/pnas.0506580102. PMC 1239896. PMID 16199517.
Luo W, Friedman M, Shedden K, Hankenson KD, Woolf JP (2009). "GAGE: generally applicable gene set enrichment for pathway analysis". BMC Bioinformatics. 10: 161. doi:10.1186/1471-2105-10-161. PMC 2696452. PMID 19473525.
Dai M, Wang P, Boyd AD, et al. (2005). "Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data". Nucleic Acids Res. 33 (20): e175. doi:10.1093/nar/gni179. PMC 1283542. PMID 16284200.
Alberts R, Terpstra P, Hardonk M, et al. (2007). "A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat". BMC Bioinformatics. 8: 132. doi:10.1186/1471-2105-8-132. PMC 1865557. PMID 17448222.
Alekseev OM, Richardson RT, Alekseev O, O'Rand MG (2009). "Analysis of gene expression profiles in HeLa cells in response to overexpression or siRNA-mediated depletion of NASP". Reprod. Biol. Endocrinol. 7: 45. doi:10.1186/1477-7827-7-45. PMC 2686705. PMID 19439102.
Curtis RK, Oresic M, Vidal-Puig A (2005). "Pathways to the analysis of microarray data". Trends Biotechnol. 23 (8): 429–35. doi:10.1016/j.tibtech.2005.05.011. PMID 15950303.
Corsello SM, Roti G, Ross KN, Chow KT, Galinsky I, DeAngelo DJ, Stone RM, Kung AL, Golub TR, Stegmaier K (June 2009). "Identification of AML1-ETO modulators by chemical genomics". Blood. 113 (24): 6193–205. doi:10.1182/blood-2008-07-166090. PMC 2699238. PMID 19377049.
Couzin J (2006). "Genomics. Microarray data reproduced, but some concerns remain". Science. 313 (5793): 1559. doi:10.1126/science.313.5793.1559a. PMID 16973852. S2CID 58528299.

fda.gov

Dr. Leming Shi, National Center for Toxicological Research. "MicroArray Quality Control (MAQC) Project". U.S. Food and Drug Administration. Retrieved 2007-12-26.^{[dead link]}

harvard.edu

ui.adsabs.harvard.edu

Yauk CL, Berndt ML (2007). "Review of the literature examining the correlation among DNA microarray technologies". Environ. Mol. Mutagen. 48 (5): 380–94. Bibcode:2007EnvMM..48..380Y. doi:10.1002/em.20290. PMC 2682332. PMID 17370338.

ingenuity.com

"Ingenuity Systems". Retrieved 2007-12-27.

micans.org

van Dongen, Stijn (2000). Graph Clustering by Flow Simulation. University of Utrecht.

mit.edu

broad.mit.edu

"GSEA – MSigDB". Retrieved 2008-01-03.
"GSEA". Retrieved 2008-01-09.

nih.gov

pubmed.ncbi.nlm.nih.gov

Suter L, Babiss LE, Wheeldon EB (2004). "Toxicogenomics in predictive toxicology in drug development". Chem. Biol. 11 (2): 161–71. doi:10.1016/j.chembiol.2004.02.003. PMID 15123278.
Magic Z, Radulovic S, Brankovic-Magic M (2007). "cDNA microarrays: identification of gene signatures and their application in clinical practice". J BUON. 12 (Suppl 1): S39–44. PMID 17935276.
Cheung AN (2007). "Molecular targets in gynaecological cancers". Pathology. 39 (1): 26–45. doi:10.1080/00313020601153273. PMID 17365821. S2CID 40896577.
Mirza SP, Olivier M (2007). "Methods and approaches for the comprehensive characterization and quantification of cellular proteomes using mass spectrometry". Physiol Genomics. 33 (1): 3–11. doi:10.1152/physiolgenomics.00292.2007. PMC 2771641. PMID 18162499.
Hebert AS, Richards AL, et al. (2014). "The One Hour Yeast Proteome". Mol Cell Proteomics. 13 (1): 339–347. doi:10.1074/mcp.M113.034769. PMC 3879625. PMID 24143002.
Chen JJ (2007). "Key aspects of analyzing microarray gene-expression data". Pharmacogenomics. 8 (5): 473–82. doi:10.2217/14622416.8.5.473. PMID 17465711.
Jaskowiak, Pablo A; Campello, Ricardo JGB; Costa, Ivan G (24 January 2014). "On the selection of appropriate distances for gene expression data clustering". BMC Bioinformatics. 15 (Suppl 2): S2. doi:10.1186/1471-2105-15-S2-S2. PMC 4072854. PMID 24564555.
Vardhanabhuti S, Blakemore SJ, Clark SM, Ghosh S, Stephens RJ, Rajagopalan D (2006). "A comparison of statistical tests for detecting differential expression using Affymetrix oligonucleotide microarrays". OMICS. 10 (4): 555–66. doi:10.1089/omi.2006.10.555. PMID 17233564.
Yauk CL, Berndt ML (2007). "Review of the literature examining the correlation among DNA microarray technologies". Environ. Mol. Mutagen. 48 (5): 380–94. Bibcode:2007EnvMM..48..380Y. doi:10.1002/em.20290. PMC 2682332. PMID 17370338.
Breitling R (2006). "Biological microarray interpretation: the rules of engagement" (PDF). Biochim. Biophys. Acta. 1759 (7): 319–27. doi:10.1016/j.bbaexp.2006.06.003. PMID 16904203. S2CID 1857997.
Draminski M, Rada-Iglesias A, Enroth S, Wadelius C, Koronacki J, Komorowski J (2008). "Monte Carlo feature selection for supervised classification". Bioinformatics. 24 (1): 110–7. doi:10.1093/bioinformatics/btm486. PMID 18048398.
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP (2005). "Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles". Proc. Natl. Acad. Sci. U.S.A. 102 (43): 15545–50. doi:10.1073/pnas.0506580102. PMC 1239896. PMID 16199517.
Luo W, Friedman M, Shedden K, Hankenson KD, Woolf JP (2009). "GAGE: generally applicable gene set enrichment for pathway analysis". BMC Bioinformatics. 10: 161. doi:10.1186/1471-2105-10-161. PMC 2696452. PMID 19473525.
Dai M, Wang P, Boyd AD, et al. (2005). "Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data". Nucleic Acids Res. 33 (20): e175. doi:10.1093/nar/gni179. PMC 1283542. PMID 16284200.
Alberts R, Terpstra P, Hardonk M, et al. (2007). "A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat". BMC Bioinformatics. 8: 132. doi:10.1186/1471-2105-8-132. PMC 1865557. PMID 17448222.
Alekseev OM, Richardson RT, Alekseev O, O'Rand MG (2009). "Analysis of gene expression profiles in HeLa cells in response to overexpression or siRNA-mediated depletion of NASP". Reprod. Biol. Endocrinol. 7: 45. doi:10.1186/1477-7827-7-45. PMC 2686705. PMID 19439102.
Curtis RK, Oresic M, Vidal-Puig A (2005). "Pathways to the analysis of microarray data". Trends Biotechnol. 23 (8): 429–35. doi:10.1016/j.tibtech.2005.05.011. PMID 15950303.
Mook S, Van't Veer LJ, Rutgers EJ, Piccart-Gebhart MJ, Cardoso F (2007). "Individualization of therapy using Mammaprint: from development to the MINDACT Trial". Cancer Genomics Proteomics. 4 (3): 147–55. PMID 17878518.
Corsello SM, Roti G, Ross KN, Chow KT, Galinsky I, DeAngelo DJ, Stone RM, Kung AL, Golub TR, Stegmaier K (June 2009). "Identification of AML1-ETO modulators by chemical genomics". Blood. 113 (24): 6193–205. doi:10.1182/blood-2008-07-166090. PMC 2699238. PMID 19377049.
Couzin J (2006). "Genomics. Microarray data reproduced, but some concerns remain". Science. 313 (5793): 1559. doi:10.1126/science.313.5793.1559a. PMID 16973852. S2CID 58528299.

ncbi.nlm.nih.gov

"Microarrays Factsheet". Retrieved 2007-12-28.
Mirza SP, Olivier M (2007). "Methods and approaches for the comprehensive characterization and quantification of cellular proteomes using mass spectrometry". Physiol Genomics. 33 (1): 3–11. doi:10.1152/physiolgenomics.00292.2007. PMC 2771641. PMID 18162499.
Hebert AS, Richards AL, et al. (2014). "The One Hour Yeast Proteome". Mol Cell Proteomics. 13 (1): 339–347. doi:10.1074/mcp.M113.034769. PMC 3879625. PMID 24143002.
Jaskowiak, Pablo A; Campello, Ricardo JGB; Costa, Ivan G (24 January 2014). "On the selection of appropriate distances for gene expression data clustering". BMC Bioinformatics. 15 (Suppl 2): S2. doi:10.1186/1471-2105-15-S2-S2. PMC 4072854. PMID 24564555.
Yauk CL, Berndt ML (2007). "Review of the literature examining the correlation among DNA microarray technologies". Environ. Mol. Mutagen. 48 (5): 380–94. Bibcode:2007EnvMM..48..380Y. doi:10.1002/em.20290. PMC 2682332. PMID 17370338.
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP (2005). "Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles". Proc. Natl. Acad. Sci. U.S.A. 102 (43): 15545–50. doi:10.1073/pnas.0506580102. PMC 1239896. PMID 16199517.
Luo W, Friedman M, Shedden K, Hankenson KD, Woolf JP (2009). "GAGE: generally applicable gene set enrichment for pathway analysis". BMC Bioinformatics. 10: 161. doi:10.1186/1471-2105-10-161. PMC 2696452. PMID 19473525.
Dai M, Wang P, Boyd AD, et al. (2005). "Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data". Nucleic Acids Res. 33 (20): e175. doi:10.1093/nar/gni179. PMC 1283542. PMID 16284200.
Alberts R, Terpstra P, Hardonk M, et al. (2007). "A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat". BMC Bioinformatics. 8: 132. doi:10.1186/1471-2105-8-132. PMC 1865557. PMID 17448222.
Alekseev OM, Richardson RT, Alekseev O, O'Rand MG (2009). "Analysis of gene expression profiles in HeLa cells in response to overexpression or siRNA-mediated depletion of NASP". Reprod. Biol. Endocrinol. 7: 45. doi:10.1186/1477-7827-7-45. PMC 2686705. PMID 19439102.
Corsello SM, Roti G, Ross KN, Chow KT, Galinsky I, DeAngelo DJ, Stone RM, Kung AL, Golub TR, Stegmaier K (June 2009). "Identification of AML1-ETO modulators by chemical genomics". Blood. 113 (24): 6193–205. doi:10.1182/blood-2008-07-166090. PMC 2699238. PMID 19377049.

rug.nl

pure.rug.nl

Breitling R (2006). "Biological microarray interpretation: the rules of engagement" (PDF). Biochim. Biophys. Acta. 1759 (7): 319–27. doi:10.1016/j.bbaexp.2006.06.003. PMID 16904203. S2CID 1857997.

semanticscholar.org

api.semanticscholar.org

Cheung AN (2007). "Molecular targets in gynaecological cancers". Pathology. 39 (1): 26–45. doi:10.1080/00313020601153273. PMID 17365821. S2CID 40896577.
Breitling R (2006). "Biological microarray interpretation: the rules of engagement" (PDF). Biochim. Biophys. Acta. 1759 (7): 319–27. doi:10.1016/j.bbaexp.2006.06.003. PMID 16904203. S2CID 1857997.
Couzin J (2006). "Genomics. Microarray data reproduced, but some concerns remain". Science. 313 (5793): 1559. doi:10.1126/science.313.5793.1559a. PMID 16973852. S2CID 58528299.

stanford.edu

www-stat.stanford.edu

"Significance Analysis of Microarrays". Archived from the original on 2008-01-20. Retrieved 2007-12-27.

web.archive.org

"Significance Analysis of Microarrays". Archived from the original on 2008-01-20. Retrieved 2007-12-27.

zenodo.org

Chen JJ (2007). "Key aspects of analyzing microarray gene-expression data". Pharmacogenomics. 8 (5): 473–82. doi:10.2217/14622416.8.5.473. PMID 17465711.