@misc{Aebersold_2008, title={Quantitative Proteomics}, url={https://hstalks.com/t/949/quantitative-proteomics/}, author={Aebersold, Ruedi}, year={2008} }
@article{Aebersold_Mann_2003a, title={Mass Spectrometry-Based Proteomics}, volume={422}, DOI={10.1038/nature01511}, number={6928}, journal={Nature}, author={Aebersold, Ruedi and Mann, Matthias}, year={2003}, pages={198–207} }
@article{Aebersold_Mann_2003b, title={Mass Spectrometry-Based Proteomics}, volume={422}, DOI={10.1038/nature01511}, number={6928}, journal={Nature}, author={Aebersold, Ruedi and Mann, Matthias}, year={2003}, pages={198–207} }
@article{Aebersold_Mann_2003c, title={Mass Spectrometry-Based Proteomics}, volume={422}, DOI={10.1038/nature01511}, number={6928}, journal={Nature}, author={Aebersold, Ruedi and Mann, Matthias}, year={2003}, pages={198–207} }
@article{Aebersold_Mann_2003d, title={Mass Spectrometry-Based Proteomics}, volume={422}, DOI={10.1038/nature01511}, number={6928}, journal={Nature}, author={Aebersold, Ruedi and Mann, Matthias}, year={2003}, pages={198–207} }
@article{Ahn_Shabb_Old_Resing_2007, title={Achieving In-Depth Proteomics Profiling by Mass Spectrometry}, volume={2}, DOI={10.1021/cb600357d}, number={1}, journal={ACS Chemical Biology}, author={Ahn, Natalie G. and Shabb, John B. and Old, William M. and Resing, Katheryn A.}, year={2007}, pages={39–52} }
@article{Ahrens_Brunner_al_2010, title={Generating and Navigating Proteome Maps Using Mass Spectrometry}, volume={11}, DOI={10.1038/nrm2973}, number={11}, journal={Nature Reviews Molecular Cell Biology}, author={Ahrens, Christian H. and Brunner, Erich and al, Et}, year={2010}, pages={789–801} }
@article{Aloy_Russell_2005a, title={Structure-Based Systems Biology: A Zoom Lens for the Cell}, volume={579}, DOI={10.1016/j.febslet.2005.02.014}, number={8}, journal={FEBS Letters}, author={Aloy, Patrick and Russell, Robert B}, year={2005}, pages={1854–1858} }
@article{Aloy_Russell_2005b, title={Structure-Based Systems Biology: A Zoom Lens for the Cell}, volume={579}, DOI={10.1016/j.febslet.2005.02.014}, number={8}, journal={FEBS Letters}, author={Aloy, Patrick and Russell, Robert B}, year={2005}, pages={1854–1858} }
@article{Altschul_Boguski_Gish_Wootton_1994, title={Issues in Searching Molecular Sequence Databases}, volume={6}, number={2}, journal={Nature Genetics}, author={Altschul, Stephen F. and Boguski, Mark S. and Gish, Warren and Wootton, John C.}, year={1994}, pages={119–129} }
@article{Amaral_Megens_2009, title={Application of Massive Parallel Sequencing to Whole Genome SNP Discovery in the Porcine Genome}, volume={10}, DOI={10.1186/1471-2164-10-374}, number={1}, journal={BMC Genomics}, author={Amaral, Andreia J. and Megens, Hendrik-Jan}, year={2009} }
@article{Ansong_Purvine_2008a, title={Proteogenomics: Needs and Roles to Be Filled by Proteomics in Genome Annotation}, volume={7}, DOI={10.1093/bfgp/eln010}, number={1}, journal={Briefings in Functional Genomics and Proteomics}, author={Ansong, C. and Purvine, S. O.}, year={2008}, pages={50–62} }
@article{Ansong_Purvine_2008b, title={Proteogenomics: Needs and Roles to Be Filled by Proteomics in Genome Annotation}, volume={7}, DOI={10.1093/bfgp/eln010}, number={1}, journal={Briefings in Functional Genomics and Proteomics}, author={Ansong, C. and Purvine, S. O.}, year={2008}, pages={50–62} }
@article{Apweiler_Attwood_2001, title={The InterPro Database, an Integrated Documentation Resource for Protein Families, Domains and Functional Sites}, volume={29}, DOI={10.1093/nar/29.1.37}, number={1}, journal={Nucleic Acids Research}, author={Apweiler, R. and Attwood, T. K.}, year={2001}, pages={37–40} }
@misc{Ashcroft, title={An Introduction to Mass Spectrometry}, url={http://www.astbury.leeds.ac.uk/facil/MStut/mstutorial.htm}, author={Ashcroft, Dr Alison E.} }
@article{Baker_Sali_2001, title={Protein Structure Prediction and Structural Genomics}, volume={294}, DOI={10.1126/science.1065659}, number={5540}, journal={Science}, author={Baker, David and Sali, Andrej}, year={2001}, pages={93–96} }
@article{Balog_Sasi-Szabo_2013, title={Intraoperative Tissue Identification Using Rapid Evaporative Ionization Mass Spectrometry}, volume={5}, DOI={10.1126/scitranslmed.3005623}, number={194}, journal={Science Translational Medicine}, author={Balog, J. and Sasi-Szabo, L.}, year={2013}, pages={194ra93-194ra93} }
@article{Bantscheff_Schirle_al_2007, title={Quantitative Mass Spectrometry in Proteomics: A Critical Review}, volume={389}, DOI={10.1007/s00216-007-1486-6}, number={4}, journal={Analytical and Bioanalytical Chemistry}, author={Bantscheff, Marcus and Schirle, Markus and al, Et}, year={2007}, pages={1017–1031} }
@article{Benschop_Mohammed_2007, title={Quantitative Phosphoproteomics of Early Elicitor Signaling in Arabidopsis}, volume={6}, DOI={10.1074/mcp.M600429-MCP200}, number={7}, journal={Molecular & Cellular Proteomics : Mcp}, author={Benschop, Joris J. and Mohammed, Shabaz}, year={2007}, pages={1198–1214} }
@article{Bindschedler_Cramer_2011a, title={Quantitative Plant Proteomics}, volume={11}, DOI={10.1002/pmic.201000426}, number={4}, journal={Proteomics}, author={Bindschedler, Laurence V. and Cramer, Rainer}, year={2011}, pages={756–775} }
@article{Bindschedler_Cramer_2011b, title={Quantitative Plant Proteomics}, volume={11}, DOI={10.1002/pmic.201000426}, number={4}, journal={Proteomics}, author={Bindschedler, Laurence V. and Cramer, Rainer}, year={2011}, pages={756–775} }
@article{Bisson_James_2011, title={Selected Reaction Monitoring Mass Spectrometry Reveals the Dynamics of Signaling Through the GRB2 Adaptor}, volume={29}, DOI={10.1038/nbt.1905}, number={7}, journal={Nature Biotechnology}, author={Bisson, Nicolas and James, D Andrew}, year={2011}, pages={653–658} }
@article{Boersema_Kahraman_Picotti_2015, title={Proteomics Beyond Large-Scale Protein Expression Analysis}, volume={34}, DOI={10.1016/j.copbio.2015.01.005}, journal={Current Opinion in Biotechnology}, author={Boersema, Paul J and Kahraman, Abdullah and Picotti, Paola}, year={2015}, pages={162–170} }
@article{Bork_Jensen_2004a, title={Protein Interaction Networks From Yeast to Human}, volume={14}, DOI={10.1016/j.sbi.2004.05.003}, number={3}, journal={Current Opinion in Structural Biology}, author={Bork, Peer and Jensen, Lars J}, year={2004}, pages={292–299} }
@article{Bork_Jensen_2004b, title={Protein Interaction Networks From Yeast to Human}, volume={14}, DOI={10.1016/j.sbi.2004.05.003}, number={3}, journal={Current Opinion in Structural Biology}, author={Bork, Peer and Jensen, Lars J}, year={2004}, pages={292–299} }
@article{Brazma_Sarkans_2007, title={Gene Expression Databases}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005248.html}, DOI={10.1002/9780470015902.a0005248.pub2}, author={Brazma, Alvis and Sarkans, Ugis}, year={2007} }
@article{Bruggeman_Westerhoff_2007a, title={The Nature of Systems Biology}, volume={15}, DOI={10.1016/j.tim.2006.11.003}, number={1}, journal={Trends in Microbiology}, author={Bruggeman, Frank J. and Westerhoff, Hans V.}, year={2007}, pages={45–50} }
@article{Bruggeman_Westerhoff_2007b, title={The Nature of Systems Biology}, volume={15}, DOI={10.1016/j.tim.2006.11.003}, number={1}, journal={Trends in Microbiology}, author={Bruggeman, Frank J. and Westerhoff, Hans V.}, year={2007}, pages={45–50} }
@article{Canas_2006a, title={Mass Spectrometry Technologies for Proteomics}, volume={4}, DOI={10.1093/bfgp/eli002}, number={4}, journal={Briefings in Functional Genomics and Proteomics}, author={Canas, B.}, year={2006}, pages={295–320} }
@article{Canas_2006b, title={Mass Spectrometry Technologies for Proteomics}, volume={4}, DOI={10.1093/bfgp/eli002}, number={4}, journal={Briefings in Functional Genomics and Proteomics}, author={Canas, B.}, year={2006}, pages={295–320} }
@article{Canas_2006c, title={Mass Spectrometry Technologies for Proteomics}, volume={4}, DOI={10.1093/bfgp/eli002}, number={4}, journal={Briefings in Functional Genomics and Proteomics}, author={Canas, B.}, year={2006}, pages={295–320} }
@article{Canas_2006d, title={Mass Spectrometry Technologies for Proteomics}, volume={4}, DOI={10.1093/bfgp/eli002}, number={4}, journal={Briefings in Functional Genomics and Proteomics}, author={Canas, B.}, year={2006}, pages={295–320} }
@article{Chen_Sun_2007a, title={Amino Acid-Coded Tagging Approaches in Quantitative Proteomics}, volume={4}, DOI={10.1586/14789450.4.1.25}, number={1}, journal={Expert Review of Proteomics}, author={Chen, Xian and Sun, Liwei}, year={2007}, pages={25–37} }
@article{Chen_Sun_2007b, title={Amino Acid-Coded Tagging Approaches in Quantitative Proteomics}, volume={4}, DOI={10.1586/14789450.4.1.25}, number={1}, journal={Expert Review of Proteomics}, author={Chen, Xian and Sun, Liwei}, year={2007}, pages={25–37} }
@article{Choudhary_Mann_2010a, title={Decoding Signalling Networks by Mass Spectrometry-Based Proteomics}, volume={11}, DOI={10.1038/nrm2900}, number={6}, journal={Nature Reviews Molecular Cell Biology}, author={Choudhary, Chunaram and Mann, Matthias}, year={2010}, pages={427–439} }
@article{Choudhary_Mann_2010b, title={Decoding Signalling Networks by Mass Spectrometry-Based Proteomics}, volume={11}, DOI={10.1038/nrm2900}, number={6}, journal={Nature Reviews Molecular Cell Biology}, author={Choudhary, Chunaram and Mann, Matthias}, year={2010}, pages={427–439} }
@article{Coombs_Berard_2010a, title={Quantitative Proteomic Analyses of Influenza Virus-Infected Cultured Human Lung Cells}, volume={84}, DOI={10.1128/JVI.00431-10}, number={20}, journal={Journal Of Virology}, author={Coombs, Kevin M. and Berard, Alicia}, year={2010}, pages={10888–10906} }
@article{Coombs_Berard_2010b, title={Quantitative Proteomic Analyses of Influenza Virus-Infected Cultured Human Lung Cells}, volume={84}, DOI={10.1128/JVI.00431-10}, number={20}, journal={Journal Of Virology}, author={Coombs, Kevin M. and Berard, Alicia}, year={2010}, pages={10888–10906} }
@article{Cox_Mann_2007a, title={Is Proteomics the New Genomics?}, volume={130}, DOI={10.1016/j.cell.2007.07.032}, number={3}, journal={Cell}, author={Cox, Jürgen and Mann, Matthias}, year={2007}, pages={395–398} }
@article{Cox_Mann_2007b, title={Is Proteomics the New Genomics?}, volume={130}, DOI={10.1016/j.cell.2007.07.032}, number={3}, journal={Cell}, author={Cox, Jürgen and Mann, Matthias}, year={2007}, pages={395–398} }
@article{Cox_Mann_2011a, title={Quantitative, High-Resolution Proteomics for Data-Driven Systems Biology}, volume={80}, DOI={10.1146/annurev-biochem-061308-093216}, number={1}, journal={Annual Review of Biochemistry}, author={Cox, Jürgen and Mann, Matthias}, year={2011}, pages={273–299} }
@article{Cox_Mann_2011b, title={Quantitative, High-Resolution Proteomics for Data-Driven Systems Biology}, volume={80}, DOI={10.1146/annurev-biochem-061308-093216}, number={1}, journal={Annual Review of Biochemistry}, author={Cox, Jürgen and Mann, Matthias}, year={2011}, pages={273–299} }
@article{Cravatt_Simon_Yates III_2007a, title={The Biological Impact of Mass-Spectrometry-Based Proteomics}, volume={450}, DOI={10.1038/nature06525}, number={7172}, journal={Nature}, author={Cravatt, Benjamin F. and Simon, Gabriel M. and Yates III, John R.}, year={2007}, pages={991–1000} }
@article{Cravatt_Simon_Yates III_2007b, title={The Biological Impact of Mass-Spectrometry-Based Proteomics}, volume={450}, DOI={10.1038/nature06525}, number={7172}, journal={Nature}, author={Cravatt, Benjamin F. and Simon, Gabriel M. and Yates III, John R.}, year={2007}, pages={991–1000} }
@article{Cravatt_Simon_Yates III_2007c, title={The Biological Impact of Mass-Spectrometry-Based Proteomics}, volume={450}, DOI={10.1038/nature06525}, number={7172}, journal={Nature}, author={Cravatt, Benjamin F. and Simon, Gabriel M. and Yates III, John R.}, year={2007}, pages={991–1000} }
@article{Cravatt_Simon_Yates III_2007d, title={The Biological Impact of Mass-Spectrometry-Based Proteomics}, volume={450}, DOI={10.1038/nature06525}, number={7172}, journal={Nature}, author={Cravatt, Benjamin F. and Simon, Gabriel M. and Yates III, John R.}, year={2007}, pages={991–1000} }
@article{Cravatt_Simon_Yates III_2007e, title={The Biological Impact of Mass-Spectrometry-Based Proteomics}, volume={450}, DOI={10.1038/nature06525}, number={7172}, journal={Nature}, author={Cravatt, Benjamin F. and Simon, Gabriel M. and Yates III, John R.}, year={2007}, pages={991–1000} }
@article{Danial_Gramm_al_2003, title={BAD and Glucokinase Reside in a Mitochondrial Complex That Integrates Glycolysis and Apoptosis}, volume={424}, DOI={10.1038/nature01825}, number={6951}, journal={Nature}, author={Danial, Nika N. and Gramm, Colette F. and al, Et}, year={2003}, pages={952–956} }
@article{Devoto_Turner_2005a, title={Jasmonate-Regulated Arabidopsis Stress Signalling Network}, volume={123}, DOI={10.1111/j.1399-3054.2004.00418.x}, number={2}, journal={Physiologia Plantarum}, author={Devoto, Alessandra and Turner, John G.}, year={2005}, pages={161–172} }
@article{Devoto_Turner_2005b, title={Jasmonate-Regulated Arabidopsis Stress Signalling Network}, volume={123}, DOI={10.1111/j.1399-3054.2004.00418.x}, number={2}, journal={Physiologia Plantarum}, author={Devoto, Alessandra and Turner, John G.}, year={2005}, pages={161–172} }
@article{Domon_Aebersold_2006a, title={Mass Spectrometry and Protein Analysis}, volume={312}, DOI={10.1126/science.1124619}, number={5771}, journal={Science}, author={Domon, Bruno and Aebersold, Ruedi}, year={2006}, pages={212–217} }
@article{Domon_Aebersold_2006b, title={Mass Spectrometry and Protein Analysis}, volume={312}, DOI={10.1126/science.1124619}, number={5771}, journal={Science}, author={Domon, Bruno and Aebersold, Ruedi}, year={2006}, pages={212–217} }
@article{Domon_Aebersold_2006c, title={Mass Spectrometry and Protein Analysis}, volume={312}, DOI={10.1126/science.1124619}, number={5771}, journal={Science}, author={Domon, Bruno and Aebersold, Ruedi}, year={2006}, pages={212–217} }
@article{Domon_Aebersold_2010a, title={Options and Considerations When Selecting a Quantitative Proteomics Strategy}, volume={28}, DOI={10.1038/nbt.1661}, number={7}, journal={Nature Biotechnology}, author={Domon, Bruno and Aebersold, Ruedi}, year={2010}, pages={710–721} }
@article{Domon_Aebersold_2010b, title={Options and Considerations When Selecting a Quantitative Proteomics Strategy}, volume={28}, DOI={10.1038/nbt.1661}, number={7}, journal={Nature Biotechnology}, author={Domon, Bruno and Aebersold, Ruedi}, year={2010}, pages={710–721} }
@article{Domon_Aebersold_2010c, title={Options and Considerations When Selecting a Quantitative Proteomics Strategy}, volume={28}, DOI={10.1038/nbt.1661}, number={7}, journal={Nature Biotechnology}, author={Domon, Bruno and Aebersold, Ruedi}, year={2010}, pages={710–721} }
@article{E. Nicolas_Lopez-Gomollon_F. Lopez-Martinez_Dalmay_2011, title={Silencing Human Cancer: Identification and Uses of MicroRNAs}, volume={6}, DOI={10.2174/157489211793980033}, number={1}, journal={Recent Patents on Anti-Cancer Drug Discovery}, author={E. Nicolas, Francisco and Lopez-Gomollon, Sara and F. Lopez-Martinez, Alfonso and Dalmay, Tamas}, year={2011}, pages={94–105} }
@article{Eamens_Wang_2008, title={RNA Silencing in Plants: Yesterday, Today, and Tomorrow}, volume={147}, url={http://www.jstor.org/stable/40066045}, number={2}, journal={Plant Physiology}, author={Eamens, Andrew and Wang, Ming-Bo}, year={2008}, pages={456–468} }
@article{Ebhardt_Root_Sander_Aebersold_2015, title={Applications of Targeted Proteomics in Systems Biology and Translational Medicine}, volume={15}, DOI={10.1002/pmic.201500004}, number={18}, journal={Proteomics}, author={Ebhardt, H. Alexander and Root, Alex and Sander, Chris and Aebersold, Ruedi}, year={2015}, pages={3193–3208} }
@article{Engholm-Keller_Birck_2012, title={TiSH — a Robust and Sensitive Global Phosphoproteomics Strategy Employing a Combination of TiO2, SIMAC, and HILIC}, volume={75}, DOI={10.1016/j.jprot.2012.08.007}, number={18}, journal={Journal of Proteomics}, author={Engholm-Keller, Kasper and Birck, Pernille}, year={2012}, pages={5749–5761} }
@article{Engholm-Keller_Larsen_2013, title={Technologies and Challenges in Large-Scale Phosphoproteomics}, volume={13}, DOI={10.1002/pmic.201200484}, number={6}, journal={Proteomics}, author={Engholm-Keller, Kasper and Larsen, Martin R.}, year={2013}, pages={910–931} }
@article{Foster_De Hoog_Mann_2003, title={Unbiased Quantitative Proteomics of Lipid Rafts Reveals High Specificity for Signaling Factors}, volume={100}, url={http://www.jstor.org/stable/3147499}, number={10}, journal={Proceedings Of The National Academy Of Sciences Of The United States Of America}, author={Foster, Leonard J. and De Hoog, Carmen L. and Mann, Matthias}, year={2003}, pages={5813–5818} }
@article{Foster_de Hoog_2006a, title={A Mammalian Organelle Map by Protein Correlation Profiling}, volume={125}, DOI={10.1016/j.cell.2006.03.022}, number={1}, journal={Cell}, author={Foster, Leonard J. and de Hoog, Carmen L.}, year={2006}, pages={187–199} }
@article{Foster_de Hoog_2006b, title={A Mammalian Organelle Map by Protein Correlation Profiling}, volume={125}, DOI={10.1016/j.cell.2006.03.022}, number={1}, journal={Cell}, author={Foster, Leonard J. and de Hoog, Carmen L.}, year={2006}, pages={187–199} }
@book{Gary Siuzdak_2003a, title={The Expanding Role of Mass Spectrometry in Biotechnology}, publisher={Mcc Pr}, author={Gary Siuzdak}, year={2003} }
@book{Gary Siuzdak_2003b, title={The Expanding Role of Mass Spectrometry in Biotechnology}, publisher={Mcc Pr}, author={Gary Siuzdak}, year={2003} }
@article{Gehring_Ikeo_1999a, title={Pax 6: Mastering Eye Morphogenesis and Eye Evolution}, volume={15}, DOI={10.1016/S0168-9525(99)01776-X}, number={9}, journal={Trends in Genetics}, author={Gehring, Walter J and Ikeo, Kazuho}, year={1999}, pages={371–377} }
@article{Gehring_Ikeo_1999b, title={Pax 6: Mastering Eye Morphogenesis and Eye Evolution}, volume={15}, DOI={10.1016/S0168-9525(99)01776-X}, number={9}, journal={Trends in Genetics}, author={Gehring, Walter J and Ikeo, Kazuho}, year={1999}, pages={371–377} }
@article{Geiger_Wehner_2012a, title={Comparative Proteomic Analysis of Eleven Common Cell Lines Reveals Ubiquitous but Varying Expression of Most Proteins}, volume={11}, url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3316730/}, DOI={10.1074/mcp.M111.014050}, number={3}, journal={Molecular & Cellular Proteomics}, author={Geiger, T. and Wehner, A.}, year={2012} }
@article{Geiger_Wehner_2012b, title={Comparative Proteomic Analysis of Eleven Common Cell Lines Reveals Ubiquitous but Varying Expression of Most Proteins}, volume={11}, url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3316730/}, DOI={10.1074/mcp.M111.014050}, number={3}, journal={Molecular & Cellular Proteomics}, author={Geiger, T. and Wehner, A.}, year={2012} }
@article{Geiger_Cox_2010, title={Super-SILAC Mix for Quantitative Proteomics of Human Tumor Tissue}, volume={7}, DOI={10.1038/nmeth.1446}, number={5}, journal={Nature Methods}, author={Geiger, Tamar and Cox, Juergen}, year={2010}, pages={383–385} }
@article{Goldsmith-Fischman_Honig_2003, title={Structural Genomics: Computational Methods for Structure Analysis}, volume={12}, DOI={10.1110/ps.0242903}, number={9}, journal={Protein Science}, author={Goldsmith-Fischman, Sharon and Honig, Barry}, year={2003}, pages={1813–1821} }
@article{Goljanek-Whysall_Sweetman_2011, title={Microrna Regulation of the Paired-Box Transcription Factor Pax3 Confers Robustness to Developmental Timing of Myogenesis (Developmental Biology)}, volume={108}, url={http://www.jstor.org/stable/27978927}, number={29}, journal={Proceedings of the National Academy of Sciences of the United States}, author={Goljanek-Whysall, Katarzyna and Sweetman, Dylan}, year={2011}, pages={11936–11941} }
@article{Gstaiger_Aebersold_2009a, title={Applying Mass Spectrometry-Based Proteomics to Genetics, Genomics and Network Biology}, volume={10}, DOI={10.1038/nrg2633}, number={9}, journal={Nature Reviews Genetics}, author={Gstaiger, Matthias and Aebersold, Ruedi}, year={2009}, pages={617–627} }
@article{Gstaiger_Aebersold_2009b, title={Applying Mass Spectrometry-Based Proteomics to Genetics, Genomics and Network Biology}, volume={10}, DOI={10.1038/nrg2633}, number={9}, journal={Nature Reviews Genetics}, author={Gstaiger, Matthias and Aebersold, Ruedi}, year={2009}, pages={617–627} }
@article{Han_Aslanian_Yates_2008a, title={Mass Spectrometry for Proteomics}, volume={12}, DOI={10.1016/j.cbpa.2008.07.024}, number={5}, journal={Current Opinion in Chemical Biology}, author={Han, Xuemei and Aslanian, Aaron and Yates, John R}, year={2008}, pages={483–490} }
@article{Han_Aslanian_Yates_2008b, title={Mass Spectrometry for Proteomics}, volume={12}, DOI={10.1016/j.cbpa.2008.07.024}, number={5}, journal={Current Opinion in Chemical Biology}, author={Han, Xuemei and Aslanian, Aaron and Yates, John R}, year={2008}, pages={483–490} }
@article{Hannon_2002, title={RNA Interference}, volume={418}, DOI={10.1038/418244a}, number={6894}, journal={Nature}, author={Hannon, Gregory J.}, year={2002}, pages={244–251} }
@article{Harbison_Gordon_Young_2004a, title={Transcriptional Regulatory Code of a Eukaryotic Genome}, volume={431}, DOI={10.1038/nature02800}, number={7004}, journal={Nature}, author={Harbison, Christopher T. and Gordon, D. Benjamin and Young, Richard A.}, year={2004}, pages={99–104} }
@article{Harbison_Gordon_Young_2004b, title={Transcriptional Regulatory Code of a Eukaryotic Genome}, volume={431}, DOI={10.1038/nature02800}, number={7004}, journal={Nature}, author={Harbison, Christopher T. and Gordon, D. Benjamin and Young, Richard A.}, year={2004}, pages={99–104} }
@article{Hughes_Marton_2000, title={Functional Discovery via a Compendium of Expression Profiles}, volume={102}, DOI={10.1016/S0092-8674(00)00015-5}, number={1}, journal={Cell}, author={Hughes, Timothy R and Marton, Matthew J}, year={2000}, pages={109–126} }
@article{Ideker_Galitski_Hood_2001a, title={A New Approach to Decoding Life: Systems Biology}, volume={2}, DOI={10.1146/annurev.genom.2.1.343}, number={1}, journal={Annual Review of Genomics and Human Genetics}, author={Ideker, Trey and Galitski, Timothy and Hood, Leroy}, year={2001}, pages={343–372} }
@article{Ideker_Galitski_Hood_2001b, title={A New Approach to Decoding Life: Systems Biology}, volume={2}, DOI={10.1146/annurev.genom.2.1.343}, number={1}, journal={Annual Review of Genomics and Human Genetics}, author={Ideker, Trey and Galitski, Timothy and Hood, Leroy}, year={2001}, pages={343–372} }
@article{Jacque_Triques_Stevenson_2002, title={Modulation of HIV-1 Replication by RNA Interference}, volume={418}, DOI={10.1038/nature00896}, number={6896}, journal={Nature}, author={Jacque, Jean-Marc and Triques, Karine and Stevenson, Mario}, year={2002}, pages={435–438} }
@article{Jen_Manfield_2006a, title={The Arabidopsis Co-Expression Tool (Act): A WWW-Based Tool and Database for Microarray-Based Gene Expression Analysis}, volume={46}, DOI={10.1111/j.1365-313X.2006.02681.x}, number={2}, journal={The Plant Journal}, author={Jen, Chih-Hung and Manfield, Iain W.}, year={2006}, pages={336–348} }
@article{Jen_Manfield_2006b, title={The Arabidopsis Co-Expression Tool (Act): A WWW-Based Tool and Database for Microarray-Based Gene Expression Analysis}, volume={46}, DOI={10.1111/j.1365-313X.2006.02681.x}, number={2}, journal={The Plant Journal}, author={Jen, Chih-Hung and Manfield, Iain W.}, year={2006}, pages={336–348} }
@article{Jensen_Kuhn_2009a, title={STRING 8--a Global View on Proteins and Their Functional Interactions in 630 Organisms}, volume={37}, DOI={10.1093/nar/gkn760}, number={Database}, journal={Nucleic Acids Research}, author={Jensen, L. J. and Kuhn, M.}, year={2009}, pages={D412–D416} }
@article{Jensen_Kuhn_2009b, title={STRING 8--a Global View on Proteins and Their Functional Interactions in 630 Organisms}, volume={37}, DOI={10.1093/nar/gkn760}, number={Database}, journal={Nucleic Acids Research}, author={Jensen, L. J. and Kuhn, M.}, year={2009}, pages={D412–D416} }
@article{Johnson_Mortazavi_Myers_Wold_2007, title={Genome-Wide Mapping of in Vivo Protein-DNA Interactions}, volume={316}, DOI={10.1126/science.1141319}, number={5830}, journal={Science (New York, N.Y.)}, author={Johnson, David S. and Mortazavi, Ali and Myers, Richard M. and Wold, Barbara}, year={2007}, pages={1497–1502} }
@article{Jung_Lee_2004, title={Structure-Based Functional Discovery of Proteins: Structural Proteomics}, volume={37}, number={1}, journal={Journal of Biochemistry and Molecular Biology}, author={Jung, J. W. and Lee, W}, year={2004}, pages={28–34} }
@article{Katoh_Kato_2003, title={Comparative Genomics between Drosophila and Human [open access]}, volume={14}, url={http://www.jsbi.org/pdfs/journal1/GIW03/GIW03P190.pdf}, journal={Genome Informatics}, author={Katoh, M and Kato, M}, year={2003}, pages={587–588} }
@article{Keck_Jones_2011, title={A Cell Cycle Phosphoproteome of the Yeast Centrosome}, volume={332}, DOI={10.1126/science.1205193}, number={6037}, journal={Science}, author={Keck, J. M. and Jones, M. H.}, year={2011}, pages={1557–1561} }
@article{Kitano_2002, title={Computational Systems Biology}, volume={420}, DOI={10.1038/nature01254}, number={6912}, journal={Nature}, author={Kitano, Hiroaki}, year={2002}, pages={206–210} }
@article{Knight_Knight_2001a, title={Abiotic Stress Signalling Pathways: Specificity and Cross-Talk}, volume={6}, DOI={10.1016/S1360-1385(01)01946-X}, number={6}, journal={Trends in Plant Science}, author={Knight, Heather and Knight, Marc R}, year={2001}, pages={262–267} }
@article{Knight_Knight_2001b, title={Abiotic Stress Signalling Pathways: Specificity and Cross-Talk}, volume={6}, DOI={10.1016/S1360-1385(01)01946-X}, number={6}, journal={Trends in Plant Science}, author={Knight, Heather and Knight, Marc R}, year={2001}, pages={262–267} }
@article{Krogan_Cagney_2006a, title={Global Landscape of Protein Complexes in the Yeast Saccharomyces Cerevisiae}, volume={440}, DOI={10.1038/nature04670}, number={7084}, journal={Nature}, author={Krogan, Nevan J. and Cagney, Gerard}, year={2006}, pages={637–643} }
@article{Krogan_Cagney_2006b, title={Global Landscape of Protein Complexes in the Yeast Saccharomyces Cerevisiae}, volume={440}, DOI={10.1038/nature04670}, number={7084}, journal={Nature}, author={Krogan, Nevan J. and Cagney, Gerard}, year={2006}, pages={637–643} }
@article{Larance_Lamond_2015, title={Multidimensional Proteomics for Cell Biology}, volume={16}, DOI={10.1038/nrm3970}, number={5}, journal={Nature Reviews Molecular Cell Biology}, author={Larance, Mark and Lamond, Angus I.}, year={2015}, pages={269–280} }
@article{Latchman_2005a, title={Transcriptional Gene Regulation in Eukaryotes}, DOI={10.1002/9780470015902.a0002322.pub2}, author={Latchman, David S.}, year={2005} }
@article{Latchman_2005b, title={Transcriptional Gene Regulation in Eukaryotes}, DOI={10.1002/9780470015902.a0002322.pub2}, author={Latchman, David S.}, year={2005} }
@article{Latchman_2007a, title={Transcription Factors}, url={https://onlinelibrary.wiley.com/doi/10.1002/9780470015902.a0005278.pub2}, DOI={10.1002/9780470015902.a0005278.pub2}, author={Latchman, David S}, year={2007} }
@article{Latchman_2007b, title={Transcription Factors}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005278.html}, DOI={10.1002/9780470015902.a0005278.pub2}, author={Latchman, David S}, year={2007} }
@article{Legrain_2006a, title={Protein-Protein Interaction Maps}, url={http://doi.wiley.com/10.1002/9780470015902.a0006205}, DOI={10.1002/9780470015902.a0006205}, journal={Encyclopedia of life sciences}, publisher={Wiley Interscience}, author={Legrain, Pierre}, year={2006} }
@article{Legrain_2006b, title={Protein-Protein Interaction Maps}, url={https://onlinelibrary.wiley.com/doi/full/10.1002/9780470015902.a0006205}, journal={eLS}, author={Legrain, Pierre}, year={2006} }
@article{Leitner_Faini_Stengel_Aebersold_2016, title={Crosslinking and Mass Spectrometry: An Integrated Technology to Understand the Structure and Function of Molecular Machines}, volume={41}, DOI={10.1016/j.tibs.2015.10.008}, number={1}, journal={Trends in Biochemical Sciences}, author={Leitner, Alexander and Faini, Marco and Stengel, Florian and Aebersold, Ruedi}, year={2016}, pages={20–32} }
@article{Lesur_Domon_2015, title={Advances in High-Resolution Accurate Mass Spectrometry Application to Targeted Proteomics}, volume={15}, DOI={10.1002/pmic.201400450}, number={5–6}, journal={Proteomics}, author={Lesur, Antoine and Domon, Bruno}, year={2015}, pages={880–890} }
@article{Liu_Aebersold_2016, title={The Interdependence of Transcript and Protein Abundance: New Data-New Complexities}, volume={12}, DOI={10.15252/msb.20156720}, number={1}, journal={Molecular Systems Biology}, author={Liu, Y. and Aebersold, R.}, year={2016}, pages={856–856} }
@article{Macek_Mann_Olsen_2009, title={Global and Site-Specific Quantitative Phosphoproteomics: Principles and Applications}, volume={49}, DOI={10.1146/annurev.pharmtox.011008.145606}, number={1}, journal={Annual Review of Pharmacology and Toxicology}, author={Macek, Boris and Mann, Matthias and Olsen, Jesper V.}, year={2009}, pages={199–221} }
@inbook{Makałowski_Shabardina_Makałowska_2018, title={Bioinformatics}, url={http://doi.wiley.com/10.1002/9780470015902.a0005247.pub3}, DOI={10.1002/9780470015902.a0005247.pub3}, booktitle={Encyclopedia of Life Sciences}, publisher={Wiley Interscience}, author={Makałowski, Wojciech and Shabardina, Victoria and Makałowska, Izabela}, year={2018}, pages={1–9} }
@article{Mansouri_2005, title={Knockout and Knock-in Animals}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0000991.html}, DOI={10.1038/npg.els.0003840}, author={Mansouri, A.}, year={2005} }
@article{Mardis_2007, title={ChIP-Seq: Welcome to the New Frontier}, volume={4}, DOI={10.1038/nmeth0807-613}, number={8}, journal={Nature Methods}, author={Mardis, Elaine R.}, year={2007}, pages={613–614} }
@article{Mardis_2008a, title={Next-Generation DNA Sequencing Methods}, volume={9}, DOI={10.1146/annurev.genom.9.081307.164359}, number={1}, journal={Annual Review of Genomics and Human Genetics}, author={Mardis, Elaine R.}, year={2008}, pages={387–402} }
@article{Mardis_2008b, title={The Impact of Next-Generation Sequencing Technology on Genetics}, volume={24}, DOI={10.1016/j.tig.2007.12.007}, number={3}, journal={Trends in Genetics}, author={Mardis, Elaine R.}, year={2008}, pages={133–141} }
@article{Massie_Mills_2008, title={ChIPping Away at Gene Regulation}, volume={9}, DOI={10.1038/embor.2008.44}, number={4}, journal={EMBO Reports}, author={Massie, Charles E and Mills, Ian G}, year={2008}, pages={337–343} }
@article{Mathé_Sagot_2002, title={Current Methods of Gene Prediction, Their Strengths and Weaknesses}, volume={30}, DOI={10.1093/nar/gkf543}, number={19}, journal={Nucleic Acids Research}, author={Mathé, Catherine and Sagot, Marie-France}, year={2002}, pages={4103–4117} }
@article{Matsuoka_Ballif_2007, title={ATM and ATR Substrate Analysis Reveals Extensive Protein Networks Responsive to DNA Damage}, volume={316}, url={http://www.jstor.org/stable/20036331}, number={5828}, journal={Science (New York, N.Y.)}, author={Matsuoka, Shuhei and Ballif, Bryan A.}, year={2007}, pages={1160–1166} }
@article{Matys_Fricke_2003a, title={TRANSFAC: Transcriptional Regulation, From Patterns to Profiles}, volume={31}, DOI={10.1093/nar/gkg108}, number={1}, journal={Nucleic Acids Research}, author={Matys, V. and Fricke, E.}, year={2003}, pages={374–378} }
@article{Matys_Fricke_2003b, title={TRANSFAC: Transcriptional Regulation, From Patterns to Profiles}, volume={31}, DOI={10.1093/nar/gkg108}, number={1}, journal={Nucleic Acids Research}, author={Matys, V. and Fricke, E.}, year={2003}, pages={374–378} }
@article{Metzker_2005, title={Emerging Technologies in DNA Sequencing}, volume={15}, DOI={10.1101/gr.3770505}, number={12}, journal={Genome Research}, author={Metzker, Michael L.}, year={2005}, pages={1767–1776} }
@article{Meyer_2006, title={Gene Silencing in Plants}, url={https://onlinelibrary.wiley.com/doi/10.1002/9780470015902.a0002022.pub2}, DOI={10.1002/9780470015902.a0002022.pub2}, author={Meyer, Peter}, year={2006} }
@article{Mitchell_Tjian_1989a, title={Transcriptional Regulation in Mammalian Cells by Sequence-Specific DNA Binding Proteins}, volume={245}, DOI={10.1126/science.2667136}, number={4916}, journal={Science}, author={Mitchell, Pamela J. and Tjian, Robert}, year={1989}, pages={371–378} }
@article{Mitchell_Tjian_1989b, title={Transcriptional Regulation in Mammalian Cells by Sequence-Specific DNA Binding Proteins}, volume={245}, DOI={10.1126/science.2667136}, number={4916}, journal={Science}, author={Mitchell, Pamela J. and Tjian, Robert}, year={1989}, pages={371–378} }
@article{Murray_Doran_MacMathuna_Moss_2007, title={In Silico Gene Expression Analysis – an Overview}, volume={6}, DOI={10.1186/1476-4598-6-50}, number={1}, journal={Molecular Cancer}, author={Murray, David and Doran, Peter and MacMathuna, Padraic and Moss, Alan C}, year={2007} }
@article{Nemhauser_Hong_Chory_2006a, title={Different Plant Hormones Regulate Similar Processes through Largely Nonoverlapping Transcriptional Responses}, volume={126}, DOI={10.1016/j.cell.2006.05.050}, number={3}, journal={Cell}, author={Nemhauser, Jennifer L. and Hong, Fangxin and Chory, Joanne}, year={2006}, pages={467–475} }
@article{Nemhauser_Hong_Chory_2006b, title={Different Plant Hormones Regulate Similar Processes through Largely Nonoverlapping Transcriptional Responses}, volume={126}, DOI={10.1016/j.cell.2006.05.050}, number={3}, journal={Cell}, author={Nemhauser, Jennifer L. and Hong, Fangxin and Chory, Joanne}, year={2006}, pages={467–475} }
@inbook{Nikolov_Schmidt_Urlaub_2012a, address={New York}, title={Quantitative Mass Spectrometry-Based Proteomics: An Overview}, volume={Methods in molecular biology}, booktitle={Quantitative Methods in Proteomics}, publisher={Humana Press}, author={Nikolov, Miroslav and Schmidt, Carla and Urlaub, Henning}, year={2012}, pages={85–100} }
@inbook{Nikolov_Schmidt_Urlaub_2012b, address={New York}, title={Quantitative Mass Spectrometry-Based Proteomics: An Overview}, volume={Methods in molecular biology}, booktitle={Quantitative Methods in Proteomics}, publisher={Humana Press}, author={Nikolov, Miroslav and Schmidt, Carla and Urlaub, Henning}, year={2012}, pages={85–100} }
@article{Nilsson_2012, title={Advances in Quantitative Phosphoproteomics}, volume={84}, DOI={10.1021/ac202877y}, number={2}, journal={Analytical Chemistry}, author={Nilsson, Carol L.}, year={2012}, pages={735–746} }
@article{Olsen_Blagoev_al_2006, title={Global, In Vivo, and Site-Specific Phosphorylation Dynamics in Signaling Networks}, volume={127}, DOI={10.1016/j.cell.2006.09.026}, number={3}, journal={Cell}, author={Olsen, Jesper V. and Blagoev, Blagoy and al, Et}, year={2006}, pages={635–648} }
@article{Olsen_Vermeulen_al_2010a, title={Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis}, volume={3}, url={http://stke.sciencemag.org/content/3/104/ra3}, number={104}, journal={Science Signalling}, author={Olsen, Jesper V. and Vermeulen, Michiel and al, Et}, year={2010} }
@article{Olsen_Vermeulen_al_2010b, title={Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis}, volume={3}, url={http://stke.sciencemag.org/content/3/104/ra3}, number={104}, journal={Science Signalling}, author={Olsen, Jesper V. and Vermeulen, Michiel and al, Et}, year={2010} }
@article{Oltvai_2002, title={Systems Biology: Life’s Complexity Pyramid}, volume={298}, DOI={10.1126/science.1078563}, number={5594}, journal={Science}, author={Oltvai, Z. N.}, year={2002}, pages={763–764} }
@article{Oltvai_Barabási_2002, title={Systems Biology. Life’s Complexity Pyramid}, volume={298}, DOI={10.1126/science.1078563}, number={5594}, journal={Science (New York, N.Y.)}, author={Oltvai, Zoltán N. and Barabási, Albert-László}, year={2002}, pages={763–764} }
@article{Oppermann_Gnad_al_2009, title={Large-Scale Proteomics Analysis of the Human Kinome}, volume={8}, url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2709199/}, DOI={10.1074/mcp.M800588-MCP200}, number={7}, journal={Molecular & Cellular Proteomics}, author={Oppermann, F. S. and Gnad, F. and al, Et}, year={2009}, pages={1751–1764} }
@article{Palumbo_Smith_2011, title={Tandem Mass Spectrometry Strategies for Phosphoproteome Analysis}, volume={30}, DOI={10.1002/mas.20310}, number={4}, journal={Mass Spectrometry Reviews}, author={Palumbo, Amanda M. and Smith, Scott A.}, year={2011}, pages={600–625} }
@article{Pan_Olsen_Daub_Mann_2009a, title={Global Effects of Kinase Inhibitors on Signaling Networks Revealed by Quantitative Phosphoproteomics}, volume={8}, DOI={10.1074/mcp.M900285-MCP200}, number={12}, journal={Molecular & Cellular Proteomics}, author={Pan, C. and Olsen, J. V. and Daub, H. and Mann, M.}, year={2009}, pages={2796–2808} }
@article{Pan_Olsen_Daub_Mann_2009b, title={Global Effects of Kinase Inhibitors on Signaling Networks Revealed by Quantitative Phosphoproteomics}, volume={8}, DOI={10.1074/mcp.M900285-MCP200}, number={12}, journal={Molecular & Cellular Proteomics}, author={Pan, C. and Olsen, J. V. and Daub, H. and Mann, M.}, year={2009}, pages={2796–2808} }
@article{Pavy_Leroy_1999, title={Evaluation of Gene Prediction Software Using a Genomic Data Set: Application to Arabidopsis Thaliana Sequences}, volume={15}, DOI={10.1093/bioinformatics/15.11.887}, number={11}, journal={Bioinformatics}, author={Pavy, Nathalie and Leroy, Philippe}, year={1999}, pages={887–899} }
@article{Petschnigg_Snider_Stagljar_2011a, title={Interactive Proteomics Research Technologies: Recent Applications and Advances}, volume={22}, DOI={10.1016/j.copbio.2010.09.001}, number={1}, journal={Current Opinion in Biotechnology}, author={Petschnigg, Julia and Snider, Jamie and Stagljar, Igor}, year={2011}, pages={50–58} }
@article{Petschnigg_Snider_Stagljar_2011b, title={Interactive Proteomics Research Technologies: Recent Applications and Advances}, volume={22}, DOI={10.1016/j.copbio.2010.09.001}, number={1}, journal={Current Opinion in Biotechnology}, author={Petschnigg, Julia and Snider, Jamie and Stagljar, Igor}, year={2011}, pages={50–58} }
@article{Pieroni_de la Fuente van Bentem_2008a, title={Protein Networking: Insights Into Global Functional Organization of Proteomes}, volume={8}, DOI={10.1002/pmic.200700767}, number={4}, journal={Proteomics}, author={Pieroni, Enrico and de la Fuente van Bentem, Sergio}, year={2008}, pages={799–816} }
@article{Pieroni_de la Fuente van Bentem_2008b, title={Protein Networking: Insights Into Global Functional Organization of Proteomes}, volume={8}, DOI={10.1002/pmic.200700767}, number={4}, journal={Proteomics}, author={Pieroni, Enrico and de la Fuente van Bentem, Sergio}, year={2008}, pages={799–816} }
@article{Puig_Caspary_2001, title={The Tandem Affinity Purification (TAP) Method: A General Procedure of Protein Complex Purification}, volume={24}, DOI={10.1006/meth.2001.1183}, number={3}, journal={Methods}, author={Puig, Oscar and Caspary, Friederike}, year={2001}, pages={218–229} }
@article{Rajagopala_Sikorski_Caufield_Tovchigrechko_Uetz_2012a, title={Studying Protein Complexes by the Yeast Two-Hybrid System}, volume={58}, DOI={10.1016/j.ymeth.2012.07.015}, number={4}, journal={Methods}, author={Rajagopala, Seesandra V. and Sikorski, Patricia and Caufield, J. Harry and Tovchigrechko, Andrey and Uetz, Peter}, year={2012}, pages={392–399} }
@article{Rajagopala_Sikorski_Caufield_Tovchigrechko_Uetz_2012b, title={Studying Protein Complexes by the Yeast Two-Hybrid System}, volume={58}, DOI={10.1016/j.ymeth.2012.07.015}, number={4}, journal={Methods}, author={Rajagopala, Seesandra V. and Sikorski, Patricia and Caufield, J. Harry and Tovchigrechko, Andrey and Uetz, Peter}, year={2012}, pages={392–399} }
@article{Rank_Hanzel_2006, title={Microarrays: Use in Gene Identification}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005952.html}, DOI={10.1038/npg.els.0005952}, author={Rank, David R. and Hanzel, David K.}, year={2006} }
@article{Ren_Dynlacht_2003, title={Use of Chromatin Immunoprecipitation Assays in Genome-Wide Location Analysis of Mammalian Transcription Factors}, volume={376}, url={https://doi.org/10.1016/S0076-6879(03)76020-0}, journal={Chromatin and Chromatin Remodeling Enzymes, Part B}, publisher={Elsevier}, author={Ren, Bing and Dynlacht, Brian D}, year={2003}, pages={304–315} }
@article{Ren_Robert_2000, title={Genome-Wide Location and Function of DNA Binding Proteins}, volume={290}, DOI={10.1126/science.290.5500.2306}, number={5500}, journal={Science}, author={Ren, Bing and Robert, François}, year={2000}, pages={2306–2309} }
@article{Rockett_Dix_2006, title={Gene Expression Networks}, url={https://doi.org/10.1038/npg.els.0005280}, DOI={10.1038/npg.els.0005280}, author={Rockett, John C and Dix, David J.}, year={2006} }
@article{Rual_Venkatesan_2005a, title={Towards a Proteome-Scale Map of the Human Protein–protein Interaction Network}, volume={437}, DOI={10.1038/nature04209}, number={7062}, journal={Nature}, author={Rual, Jean-François and Venkatesan, Kavitha}, year={2005}, pages={1173–1178} }
@article{Rual_Venkatesan_2005b, title={Towards a Proteome-Scale Map of the Human Protein–protein Interaction Network}, volume={437}, DOI={10.1038/nature04209}, number={7062}, journal={Nature}, author={Rual, Jean-François and Venkatesan, Kavitha}, year={2005}, pages={1173–1178} }
@article{Sakuma_Maruyama_2006, title={Dual Function of an Arabidopsis Transcription Factor DREB2A in Water-Stress-Responsive and Heat-Stress-Responsive Gene Expression}, volume={103}, DOI={10.1073/pnas.0605639103}, number={49}, journal={Proceedings of the National Academy of Sciences of the United States}, author={Sakuma, Yoh and Maruyama, Kyonoshin}, year={2006}, pages={18822–18827} }
@article{Santamaria_Wang_2011, title={The Plk1-dependent Phosphoproteome of the Early Mitotic Spindle}, volume={10}, DOI={10.1074/mcp.M110.004457}, number={1}, journal={Molecular & Cellular Proteomics}, author={Santamaria, A. and Wang, B.}, year={2011}, pages={M110.004457-M110.004457} }
@article{Schreiber_Mausbacher_2010, title={An Integrated Phosphoproteomics Work Flow Reveals Extensive Network Regulation in Early Lysophosphatidic Acid Signaling}, volume={9}, url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877970/}, DOI={10.1074/mcp.M900486-MCP200}, number={6}, journal={Molecular & Cellular Proteomics}, author={Schreiber, T. B. and Mausbacher, N.}, year={2010}, pages={1047–1062} }
@article{Semenza_2005a, title={Transcription Factors and Human Disorders}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005504.html}, DOI={10.1038/npg.els.0005504}, author={Semenza, Gregg L.}, year={2005} }
@article{Semenza_2005b, title={Transcription Factors and Human Disorders}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005504.html}, DOI={10.1038/npg.els.0005504}, author={Semenza, Gregg L.}, year={2005} }
@article{Silva_Hammond_Hannon_2002, title={RNA Interference: A Promising Approach to Antiviral Therapy?}, volume={8}, DOI={10.1016/S1471-4914(02)02421-8}, number={11}, journal={Trends in Molecular Medicine}, author={Silva, Jose M and Hammond, Scott M and Hannon, Gregory J}, year={2002}, pages={505–508} }
@article{Singh_2002a, title={Transcription Factors in Plant Defense and Stress Responses}, volume={5}, DOI={10.1016/S1369-5266(02)00289-3}, number={5}, journal={Current Opinion in Plant Biology}, author={Singh, K}, year={2002}, pages={430–436} }
@article{Singh_2002b, title={Transcription Factors in Plant Defense and Stress Responses}, volume={5}, DOI={10.1016/S1369-5266(02)00289-3}, number={5}, journal={Current Opinion in Plant Biology}, author={Singh, K}, year={2002}, pages={430–436} }
@article{Smith_Gutierrez-Arcelus_2008, title={Structural Diversity of the Human Genome and Disease Susceptibility}, DOI={10.1002/9780470015902.a0020764}, author={Smith, Richard S. and Gutierrez-Arcelus, Maria}, year={2008} }
@article{Sonnhammer_Eddy_1998, title={Pfam: Multiple Sequence Alignments and HMM-Profiles of Protein Domains}, volume={26}, DOI={10.1093/nar/26.1.320}, number={1}, journal={Nucleic Acids Research}, author={Sonnhammer, E. L. and Eddy, S. R.}, year={1998}, pages={320–322} }
@article{Soppe_Jacobsen_al_2000, title={The Late Flowering Phenotype of Fwa Mutants Is Caused by Gain-of-Function Epigenetic Alleles of a Homeodomain Gene}, volume={6}, DOI={10.1016/S1097-2765(05)00090-0}, number={4}, journal={Molecular Cell}, author={Soppe, Wim J.J and Jacobsen, Steven E and al, Et}, year={2000}, pages={791–802} }
@article{Steckelberg_Boehm_Gromadzka_Gehring_2012a, title={CWC22 Connects Pre-mRNA Splicing and Exon Junction Complex Assembly}, volume={2}, DOI={10.1016/j.celrep.2012.08.017}, number={3}, journal={Cell Reports}, author={Steckelberg, Anna-Lena and Boehm, Volker and Gromadzka, Agnieszka M. and Gehring, Niels H.}, year={2012}, pages={454–461} }
@article{Steckelberg_Boehm_Gromadzka_Gehring_2012b, title={CWC22 Connects Pre-mRNA Splicing and Exon Junction Complex Assembly}, volume={2}, DOI={10.1016/j.celrep.2012.08.017}, number={3}, journal={Cell Reports}, author={Steckelberg, Anna-Lena and Boehm, Volker and Gromadzka, Agnieszka M. and Gehring, Niels H.}, year={2012}, pages={454–461} }
@article{Steen_Mann_2004, title={The ABC’s (And XYZ’s) of Peptide Sequencing}, volume={5}, DOI={10.1038/nrm1468}, number={9}, journal={Nature Reviews Molecular Cell Biology}, author={Steen, Hanno and Mann, Matthias}, year={2004}, pages={699–711} }
@article{Stubbs_Van Yper_van der Spek_2008, title={Microarray Bioinformatics}, url={http://www.els.net/WileyCDA/ElsArticle/refId-a0005957.html}, DOI={10.1002/9780470015902.a0005957.pub2}, author={Stubbs, Andrew P. and Van Yper, Stefan J. L. and van der Spek, Peter J.}, year={2008} }
@article{Suter_Kittanakom_Stagljar_2008a, title={Two-Hybrid Technologies in Proteomics Research}, volume={19}, DOI={10.1016/j.copbio.2008.06.005}, number={4}, journal={Current Opinion in Biotechnology}, author={Suter, Bernhard and Kittanakom, Saranya and Stagljar, Igor}, year={2008}, pages={316–323} }
@article{Suter_Kittanakom_Stagljar_2008b, title={Two-Hybrid Technologies in Proteomics Research}, volume={19}, DOI={10.1016/j.copbio.2008.06.005}, number={4}, journal={Current Opinion in Biotechnology}, author={Suter, Bernhard and Kittanakom, Saranya and Stagljar, Igor}, year={2008}, pages={316–323} }
@article{Thingholm_Jensen_2008, title={SIMAC (Sequential Elution From IMAC), a Phosphoproteomics Strategy for the Rapid Separation of Monophosphorylated From Multiply Phosphorylated Peptides}, volume={7}, DOI={10.1074/mcp.M700362-MCP200}, number={4}, journal={Molecular & Cellular Proteomics: Mcp}, author={Thingholm, Tine E. and Jensen, Ole N.}, year={2008}, pages={661–671} }
@article{Tohge_Fernie_2012, title={Co-Expression and Co-Responses: Within and Beyond Transcription}, volume={3}, DOI={10.3389/fpls.2012.00248}, journal={Frontiers in Plant Science}, author={Tohge, Takayuki and Fernie, Alisdair R.}, year={2012} }
@article{Tuschl_2003, title={Functional Genomics: RNA Sets the Standard}, volume={421}, DOI={10.1038/421220a}, number={6920}, journal={Nature}, author={Tuschl, Thomas}, year={2003}, pages={220–221} }
@article{Tyson_Chen_Novak_2001a, title={Milestones Network Dynamics and Cell Physiology}, volume={2}, DOI={10.1038/35103078}, number={12}, journal={Nature Reviews Molecular Cell Biology}, author={Tyson, John J. and Chen, Kathy and Novak, Bela}, year={2001}, pages={908–916} }
@article{Tyson_Chen_Novak_2001b, title={Milestones Network Dynamics and Cell Physiology}, volume={2}, DOI={10.1038/35103078}, number={12}, journal={Nature Reviews Molecular Cell Biology}, author={Tyson, John J. and Chen, Kathy and Novak, Bela}, year={2001}, pages={908–916} }
@article{Ummanni_Mundt_Balabanov_2011, title={Identification of Clinically Relevant Protein Targets in Prostate Cancer with 2D-DIGE Coupled Mass Spectrometry and Systems Biology Network Platform}, volume={6}, DOI={10.1371/journal.pone.0016833}, number={2}, journal={PLoS ONE}, author={Ummanni, Ramesh and Mundt, Frederike and Balabanov, Stefan}, year={2011} }
@article{Von Mering_Jensen_2005a, title={STRING: Known and Predicted Protein-Protein Associations, Integrated and Transferred Across Organisms}, volume={33}, DOI={10.1093/nar/gki005}, number={Database issue}, journal={Nucleic Acids Research}, author={Von Mering, Christian and Jensen, Lars J.}, year={2005}, pages={D433–D437} }
@article{Von Mering_Jensen_2005b, title={STRING: Known and Predicted Protein-Protein Associations, Integrated and Transferred Across Organisms}, volume={33}, DOI={10.1093/nar/gki005}, number={Database issue}, journal={Nucleic Acids Research}, author={Von Mering, Christian and Jensen, Lars J.}, year={2005}, pages={D433–D437} }
@article{Weigel_Ahn_2000, title={Activation Tagging in Arabidopsis}, volume={122}, url={https://doi.org/10.1038/npg.els.0005280}, number={4}, journal={Plant Physiology}, author={Weigel, Detlef and Ahn, Ji Hoon}, year={2000}, pages={1003–1013} }
@article{Yates_Link_1999, title={Direct Analysis of Protein Complexes Using Mass Spectrometry}, volume={17}, DOI={10.1038/10890}, number={7}, journal={Nature Biotechnology}, author={Yates, John R. and Link, Andrew J.}, year={1999}, pages={676–682} }
@article{Zerbino_Paten_Haussler_2012, title={Integrating Genomes}, volume={336}, DOI={10.1126/science.1216830}, number={6078}, journal={Science}, author={Zerbino, D. R. and Paten, B. and Haussler, D.}, year={2012}, pages={179–182} }
@article{Zhang_Pedersen_al_2012, title={Interaction of Barley Powdery Mildew Effector Candidate CSEP0055 With the Defence Protein PR17c}, volume={13}, DOI={10.1111/j.1364-3703.2012.00820.x}, number={9}, journal={Molecular Plant Pathology}, author={Zhang, Wen-Jing and Pedersen, Carsten and al, Et}, year={2012}, pages={1110–1119} }
@article{Zhu_2002a, title={Salt and Drought Stress Signal Transduction in Plants}, volume={53}, DOI={10.1146/annurev.arplant.53.091401.143329}, number={1}, journal={Annual Review of Plant Biology}, author={Zhu, Jian-Kang}, year={2002}, pages={247–273} }
@article{Zhu_2002b, title={Salt and Drought Stress Signal Transduction in Plants}, volume={53}, DOI={10.1146/annurev.arplant.53.091401.143329}, number={1}, journal={Annual Review of Plant Biology}, author={Zhu, Jian-Kang}, year={2002}, pages={247–273} }
@article{Zilberman_Henikoff_2005, title={Epigenetic Inheritance in Arabidopsis: Selective Silence}, volume={15}, DOI={10.1016/j.gde.2005.07.002}, number={5}, journal={Current Opinion in Genetics & Development}, author={Zilberman, Daniel and Henikoff, Steven}, year={2005}, pages={557–562} }
@book{Zvelebil_Baum_2008a, address={New York}, title={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008b, address={New York}, title={Protein Structure}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008c, address={New York}, title={Dealing with Databases}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008d, address={New York}, title={Revealing Genome Features}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008e, address={New York}, title={Gene Detection and Genome Annotation}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008f, address={New York}, title={Predicting Secondary Structures}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008g, address={New York}, title={Analyzing Structure-Function Relationships}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008h, address={New York}, title={Proteome and Gene Expression Analysis}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@inbook{Zvelebil_Baum_2008i, address={New York}, title={Systems Biology}, booktitle={Understanding Bioinformatics}, publisher={Garland Science}, author={Zvelebil, Marketa J. and Baum, Jeremy O.}, year={2008} }
@article{Genetic Analysis of Genomic Methylation Patterns in Plants and Mammals_1996, volume={377}, DOI={10.1515/bchm3.1996.377.10.605}, number={10}, journal={Biological Chemistry Hoppe-Seyler}, year={1996}, pages={605–618} }
@misc{Mass Spectrometry - FTICR_2006, url={https://www.youtube.com/watch?v=a5aLlm9q-Xc}, year={2006} }
@misc{Proteomics Analysis Step by Step Tutorial Educative File, url={https://moodle.royalholloway.ac.uk/mod/resource/view.php?id=97161} }
@misc{Center for Metabolomics and Mass Spectrometry | Scripps Research, url={https://www.scripps.edu/science-and-medicine/cores-and-services/mass-spec-and-metabolomics/index.html} }
@misc{Mass Spectrometry Facility, url={http://www.chm.bris.ac.uk/ms/mshome.xhtml} }
@misc{Peptide Mass Fingerprinting an IonSource Tutorial, url={http://www.ionsource.com/tutorial/} }
@misc{Mass Spectrometry Proteomics - Wikipedia, the Free Encyclopedia, url={https://en.wikipedia.org/wiki/Mass_spectrometry_proteomics} }
@misc{About Mass Spec, url={https://www.asms.org/about-mass-spectrometry} }
@misc{What is Mass Spectrometry?, url={https://masspec.scripps.edu/landing_page.php?pgcontent=whatIsMassSpec} }
