| Year |
Citation |
Score |
| 2023 |
McAfee JC, Lee S, Lee J, Bell JL, Krupa O, Davis J, Insigne K, Bond ML, Zhao N, Boyle AP, Phanstiel DH, Love MI, Stein JL, Ruzicka WB, Davila-Velderrain J, et al. Systematic investigation of allelic regulatory activity of schizophrenia-associated common variants. Cell Genomics. 3: 100404. PMID 37868037 DOI: 10.1016/j.xgen.2023.100404 |
0.598 |
|
| 2022 |
Kramer NE, Davis ES, Wenger CD, Deoudes EM, Parker SM, Love MI, Phanstiel DH. Plotgardener: Cultivating precise multi-panel figures in R. Bioinformatics (Oxford, England). PMID 35134826 DOI: 10.1093/bioinformatics/btac057 |
0.655 |
|
| 2020 |
Matoba N, Quiroga IY, Phanstiel DH, Won H. Mapping Alzheimer's Disease Variants to Their Target Genes Using Computational Analysis of Chromatin Configuration. Journal of Visualized Experiments : Jove. PMID 31984958 DOI: 10.3791/60428 |
0.34 |
|
| 2019 |
Patwardhan MN, Wenger CD, Davis ES, Phanstiel DH. Bedtoolsr: An R package for genomic data analysis and manipulation. Journal of Open Source Software. 4. PMID 31903447 DOI: 10.21105/joss.01742 |
0.667 |
|
| 2019 |
Tycko J, Wainberg M, Marinov GK, Ursu O, Hess GT, Ego BK, Aradhana, Li A, Truong A, Trevino AE, Spees K, Yao D, Kaplow IM, Greenside PG, Morgens DW, ... Phanstiel DH, et al. Mitigation of off-target toxicity in CRISPR-Cas9 screens for essential non-coding elements. Nature Communications. 10: 4063. PMID 31492858 DOI: 10.1038/S41467-019-11955-7 |
0.431 |
|
| 2018 |
Metz KS, Deoudes EM, Berginski ME, Jimenez-Ruiz I, Aksoy BA, Hammerbacher J, Gomez SM, Phanstiel DH. Coral: Clear and Customizable Visualization of Human Kinome Data. Cell Systems. PMID 30172842 DOI: 10.1016/J.Cels.2018.07.001 |
0.309 |
|
| 2017 |
Van Bortle K, Phanstiel DH, Snyder MP. Topological organization and dynamic regulation of human tRNA genes during macrophage differentiation. Genome Biology. 18: 180. PMID 28931413 DOI: 10.1186/S13059-017-1310-3 |
0.468 |
|
| 2017 |
Phanstiel DH, Van Bortle K, Spacek D, Hess GT, Shamim MS, Machol I, Love MI, Aiden EL, Bassik MC, Snyder MP. Static and Dynamic DNA Loops form AP-1-Bound Activation Hubs during Macrophage Development. Molecular Cell. PMID 28890333 DOI: 10.1016/J.Molcel.2017.08.006 |
0.752 |
|
| 2015 |
Grubert F, Zaugg JB, Kasowski M, Ursu O, Spacek DV, Martin AR, Greenside P, Srivas R, Phanstiel DH, Pekowska A, Heidari N, Euskirchen G, Huber W, Pritchard JK, Bustamante CD, et al. Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions. Cell. PMID 26300125 DOI: 10.1016/J.Cell.2015.07.048 |
0.708 |
|
| 2015 |
Phanstiel DH, Boyle AP, Heidari N, Snyder MP. Mango: A bias correcting ChIA-PET analysis pipeline. Bioinformatics (Oxford, England). PMID 26034063 DOI: 10.1093/Bioinformatics/Btv336 |
0.681 |
|
| 2014 |
Heidari N, Phanstiel DH, He C, Grubert F, Jahanbani F, Kasowski M, Zhang MQ, Snyder MP. Genome-wide map of regulatory interactions in the human genome. Genome Research. 24: 1905-17. PMID 25228660 DOI: 10.1101/Gr.176586.114 |
0.75 |
|
| 2014 |
Phanstiel DH, Boyle AP, Araya CL, Snyder MP. Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures. Bioinformatics (Oxford, England). 30: 2808-10. PMID 24903420 DOI: 10.1093/Bioinformatics/Btu379 |
0.747 |
|
| 2013 |
Chen R, Giliani S, Lanzi G, Mias GI, Lonardi S, Dobbs K, Manis J, Im H, Gallagher JE, Phanstiel DH, Euskirchen G, Lacroute P, Bettinger K, Moratto D, Weinacht K, et al. Whole-exome sequencing identifies tetratricopeptide repeat domain 7A (TTC7A) mutations for combined immunodeficiency with intestinal atresias. The Journal of Allergy and Clinical Immunology. 132: 656-664.e17. PMID 23830146 DOI: 10.1016/J.Jaci.2013.06.013 |
0.69 |
|
| 2011 |
Brumbaugh J, Rose CM, Phanstiel DH, Thomson JA, Coon JJ. Proteomics and pluripotency. Critical Reviews in Biochemistry and Molecular Biology. 46: 493-506. PMID 21999516 DOI: 10.3109/10409238.2011.624491 |
0.704 |
|
| 2011 |
Phanstiel DH, Brumbaugh J, Wenger CD, Tian S, Probasco MD, Bailey DJ, Swaney DL, Tervo MA, Bolin JM, Ruotti V, Stewart R, Thomson JA, Coon JJ. Proteomic and phosphoproteomic comparison of human ES and iPS cells. Nature Methods. 8: 821-7. PMID 21983960 DOI: 10.1038/Nmeth.1699 |
0.747 |
|
| 2011 |
Wenger CD, Lee MV, Hebert AS, McAlister GC, Phanstiel DH, Westphall MS, Coon JJ. Gas-phase purification enables accurate, multiplexed proteome quantification with isobaric tagging. Nature Methods. 8: 933-5. PMID 21963608 DOI: 10.1038/Nmeth.1716 |
0.731 |
|
| 2011 |
McAlister GC, Phanstiel DH, Brumbaugh J, Westphall MS, Coon JJ. Higher-energy collision-activated dissociation without a dedicated collision cell. Molecular & Cellular Proteomics : McP. 10: O111.009456. PMID 21393638 DOI: 10.1074/Mcp.O111.009456 |
0.779 |
|
| 2011 |
Wenger CD, Phanstiel DH, Lee MV, Bailey DJ, Coon JJ. COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA. Proteomics. 11: 1064-74. PMID 21298793 DOI: 10.1002/Pmic.201000616 |
0.76 |
|
| 2010 |
McAlister GC, Phanstiel D, Wenger CD, Lee MV, Coon JJ. Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification. Analytical Chemistry. 82: 316-22. PMID 19938823 DOI: 10.1021/Ac902005S |
0.758 |
|
| 2009 |
Phanstiel D, Unwin R, McAlister GC, Coon JJ. Peptide quantification using 8-plex isobaric tags and electron transfer dissociation tandem mass spectrometry. Analytical Chemistry. 81: 1693-8. PMID 19154110 DOI: 10.1021/Ac8019202 |
0.732 |
|
| 2008 |
Brumbaugh J, Phanstiel D, Coon JJ. Unraveling the histone's potential: a proteomics perspective. Epigenetics. 3: 254-7. PMID 18849650 DOI: 10.4161/Epi.3.5.7005 |
0.704 |
|
| 2008 |
Phanstiel D, Zhang Y, Marto JA, Coon JJ. Peptide and protein quantification using iTRAQ with electron transfer dissociation. Journal of the American Society For Mass Spectrometry. 19: 1255-62. PMID 18620867 DOI: 10.1016/J.Jasms.2008.05.023 |
0.585 |
|
| 2008 |
McAlister GC, Berggren WT, Griep-Raming J, Horning S, Makarov A, Phanstiel D, Stafford G, Swaney DL, Syka JE, Zabrouskov V, Coon JJ. A proteomics grade electron transfer dissociation-enabled hybrid linear ion trap-orbitrap mass spectrometer. Journal of Proteome Research. 7: 3127-36. PMID 18613715 DOI: 10.1021/Pr800264T |
0.787 |
|
| 2008 |
Faca VM, Song KS, Wang H, Zhang Q, Krasnoselsky AL, Newcomb LF, Plentz RR, Gurumurthy S, Redston MS, Pitteri SJ, Pereira-Faca SR, Ireton RC, Katayama H, Glukhova V, Phanstiel D, et al. A mouse to human search for plasma proteome changes associated with pancreatic tumor development. Plos Medicine. 5: e123. PMID 18547137 DOI: 10.1371/Journal.Pmed.0050123 |
0.301 |
|
| 2008 |
Phanstiel D, Brumbaugh J, Berggren WT, Conard K, Feng X, Levenstein ME, McAlister GC, Thomson JA, Coon JJ. Mass spectrometry identifies and quantifies 74 unique histone H4 isoforms in differentiating human embryonic stem cells. Proceedings of the National Academy of Sciences of the United States of America. 105: 4093-8. PMID 18326628 DOI: 10.1073/Pnas.0710515105 |
0.768 |
|
| 2007 |
Faca V, Pitteri SJ, Newcomb L, Glukhova V, Phanstiel D, Krasnoselsky A, Zhang Q, Struthers J, Wang H, Eng J, Fitzgibbon M, McIntosh M, Hanash S. Contribution of protein fractionation to depth of analysis of the serum and plasma proteomes Journal of Proteome Research. 6: 3558-3565. PMID 17696519 DOI: 10.1021/Pr070233Q |
0.356 |
|
| 2007 |
McAlister GC, Phanstiel D, Good DM, Berggren WT, Coon JJ. Implementation of electron-transfer dissociation on a hybrid linear ion trap-orbitrap mass spectrometer. Analytical Chemistry. 79: 3525-34. PMID 17441688 DOI: 10.1021/Ac070020K |
0.744 |
|
| 2006 |
Faca V, Coram M, Phanstiel D, Glukhova V, Zhang Q, Fitzgibbon M, McIntosh M, Hanash S. Quantitative analysis of acrylamide labeled serum proteins by LC-MS/MS Journal of Proteome Research. 5: 2009-2018. PMID 16889424 DOI: 10.1021/Pr060102+ |
0.382 |
|
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