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Items: 28

1.

Peptide mimetics of immunoglobulin A (IgA) and FcαRI block IgA-induced human neutrophil activation and migration.

Heineke MH, van der Steen LPE, Korthouwer RM, Hage JJ, Langedijk JPM, Benschop JJ, Bakema JE, Slootstra JW, van Egmond M.

Eur J Immunol. 2017 Oct;47(10):1835-1845. doi: 10.1002/eji.201646782. Epub 2017 Sep 6.

2.

A high-resolution gene expression atlas of epistasis between gene-specific transcription factors exposes potential mechanisms for genetic interactions.

Sameith K, Amini S, Groot Koerkamp MJ, van Leenen D, Brok M, Brabers N, Lijnzaad P, van Hooff SR, Benschop JJ, Lenstra TL, Apweiler E, van Wageningen S, Snel B, Holstege FC, Kemmeren P.

BMC Biol. 2015 Dec 23;13:112. doi: 10.1186/s12915-015-0222-5.

3.

Phage display and hybridoma generation of antibodies to human CXCR2 yields antibodies with distinct mechanisms and epitopes.

Rossant CJ, Carroll D, Huang L, Elvin J, Neal F, Walker E, Benschop JJ, Kim EE, Barry ST, Vaughan TJ.

MAbs. 2014;6(6):1425-38. doi: 10.4161/mabs.34376.

4.

Reconstructing the discontinuous and conformational β1/β3-loop binding site on hFSH/hCG by using highly constrained multicyclic peptides.

Smeenk LE, Timmers-Parohi D, Benschop JJ, Puijk WC, Hiemstra H, van Maarseveen JH, Timmerman P.

Chembiochem. 2015 Jan 2;16(1):91-9. doi: 10.1002/cbic.201402540. Epub 2014 Dec 2.

PMID:
25469830
5.

Cell cycle population effects in perturbation studies.

O'Duibhir E, Lijnzaad P, Benschop JJ, Lenstra TL, van Leenen D, Groot Koerkamp MJ, Margaritis T, Brok MO, Kemmeren P, Holstege FC.

Mol Syst Biol. 2014 Jun 21;10:732. doi: 10.15252/msb.20145172.

6.

Large-scale genetic perturbations reveal regulatory networks and an abundance of gene-specific repressors.

Kemmeren P, Sameith K, van de Pasch LA, Benschop JJ, Lenstra TL, Margaritis T, O'Duibhir E, Apweiler E, van Wageningen S, Ko CW, van Heesch S, Kashani MM, Ampatziadis-Michailidis G, Brok MO, Brabers NA, Miles AJ, Bouwmeester D, van Hooff SR, van Bakel H, Sluiters E, Bakker LV, Snel B, Lijnzaad P, van Leenen D, Groot Koerkamp MJ, Holstege FC.

Cell. 2014 Apr 24;157(3):740-52. doi: 10.1016/j.cell.2014.02.054.

7.

Suppression of Mediator is regulated by Cdk8-dependent Grr1 turnover of the Med3 coactivator.

Gonzalez D, Hamidi N, Del Sol R, Benschop JJ, Nancy T, Li C, Francis L, Tzouros M, Krijgsveld J, Holstege FC, Conlan RS.

Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2500-5. doi: 10.1073/pnas.1307525111. Epub 2014 Feb 3.

8.

High-throughput genetic and gene expression analysis of the RNAPII-CTD reveals unexpected connections to SRB10/CDK8.

Aristizabal MJ, Negri GL, Benschop JJ, Holstege FC, Krogan NJ, Kobor MS.

PLoS Genet. 2013 Aug;9(8):e1003758. doi: 10.1371/journal.pgen.1003758. Epub 2013 Aug 29.

9.

From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II.

Braberg H, Jin H, Moehle EA, Chan YA, Wang S, Shales M, Benschop JJ, Morris JH, Qiu C, Hu F, Tang LK, Fraser JS, Holstege FC, Hieter P, Guthrie C, Kaplan CD, Krogan NJ.

Cell. 2013 Aug 15;154(4):775-88. doi: 10.1016/j.cell.2013.07.033. Epub 2013 Aug 8.

10.

Characterization of the complex formed between a potent neutralizing ovine-derived polyclonal anti-TNFα Fab fragment and human TNFα.

Abbott WM, Snow M, Eckersley S, Renshaw J, Davies G, Norman RA, Ceuppens P, Slootstra J, Benschop JJ, Hamuro Y, Lee JE, Newham P.

Biosci Rep. 2013 Aug 23;33(4). pii: e00060. doi: 10.1042/BSR20130044.

11.

Immune focusing and enhanced neutralization induced by HIV-1 gp140 chemical cross-linking.

Schiffner T, Kong L, Duncan CJ, Back JW, Benschop JJ, Shen X, Huang PS, Stewart-Jones GB, DeStefano J, Seaman MS, Tomaras GD, Montefiori DC, Schief WR, Sattentau QJ.

J Virol. 2013 Sep;87(18):10163-72. doi: 10.1128/JVI.01161-13. Epub 2013 Jul 10.

12.

Two distinct repressive mechanisms for histone 3 lysine 4 methylation through promoting 3'-end antisense transcription.

Margaritis T, Oreal V, Brabers N, Maestroni L, Vitaliano-Prunier A, Benschop JJ, van Hooff S, van Leenen D, Dargemont C, Géli V, Holstege FC.

PLoS Genet. 2012 Sep;8(9):e1002952. doi: 10.1371/journal.pgen.1002952. Epub 2012 Sep 20.

13.

Distinct role of Mediator tail module in regulation of SAGA-dependent, TATA-containing genes in yeast.

Ansari SA, Ganapathi M, Benschop JJ, Holstege FC, Wade JT, Morse RH.

EMBO J. 2012 Jan 4;31(1):44-57. doi: 10.1038/emboj.2011.362. Epub 2011 Oct 4.

14.

The specificity and topology of chromatin interaction pathways in yeast.

Lenstra TL, Benschop JJ, Kim T, Schulze JM, Brabers NA, Margaritis T, van de Pasch LA, van Heesch SA, Brok MO, Groot Koerkamp MJ, Ko CW, van Leenen D, Sameith K, van Hooff SR, Lijnzaad P, Kemmeren P, Hentrich T, Kobor MS, Buratowski S, Holstege FC.

Mol Cell. 2011 May 20;42(4):536-49. doi: 10.1016/j.molcel.2011.03.026.

15.

Functional overlap and regulatory links shape genetic interactions between signaling pathways.

van Wageningen S, Kemmeren P, Lijnzaad P, Margaritis T, Benschop JJ, de Castro IJ, van Leenen D, Groot Koerkamp MJ, Ko CW, Miles AJ, Brabers N, Brok MO, Lenstra TL, Fiedler D, Fokkens L, Aldecoa R, Apweiler E, Taliadouros V, Sameith K, van de Pasch LA, van Hooff SR, Bakker LV, Krogan NJ, Snel B, Holstege FC.

Cell. 2010 Dec 10;143(6):991-1004. doi: 10.1016/j.cell.2010.11.021.

16.

Epistatic relationships reveal the functional organization of yeast transcription factors.

Zheng J, Benschop JJ, Shales M, Kemmeren P, Greenblatt J, Cagney G, Holstege F, Li H, Krogan NJ.

Mol Syst Biol. 2010 Oct 5;6:420. doi: 10.1038/msb.2010.77.

17.

A consensus of core protein complex compositions for Saccharomyces cerevisiae.

Benschop JJ, Brabers N, van Leenen D, Bakker LV, van Deutekom HW, van Berkum NL, Apweiler E, Lijnzaad P, Holstege FC, Kemmeren P.

Mol Cell. 2010 Jun 25;38(6):916-28. doi: 10.1016/j.molcel.2010.06.002.

18.

Chip-Based Enrichment and NanoLC-MS/MS Analysis of Phosphopeptides from Whole Lysates.

Mohammed S, Kraiczek K, Pinkse MW, Lemeer S, Benschop JJ, Heck AJ.

J Proteome Res. 2008 Apr;7(4):1565-71. doi: 10.1021/pr700635a. Epub 2008 Feb 29.

PMID:
18307298
19.

Quantitative phosphoproteomics of early elicitor signaling in Arabidopsis.

Benschop JJ, Mohammed S, O'Flaherty M, Heck AJ, Slijper M, Menke FL.

Mol Cell Proteomics. 2007 Jul;6(7):1198-214. Epub 2007 Feb 21.

20.

Abscisic acid antagonizes ethylene-induced hyponastic growth in Arabidopsis.

Benschop JJ, Millenaar FF, Smeets ME, van Zanten M, Voesenek LA, Peeters AJ.

Plant Physiol. 2007 Feb;143(2):1013-23. Epub 2006 Dec 8.

21.

Long-term submergence-induced elongation in Rumex palustris requires abscisic acid-dependent biosynthesis of gibberellin1.

Benschop JJ, Bou J, Peeters AJ, Wagemaker N, Gühl K, Ward D, Hedden P, Moritz T, Voesenek LA.

Plant Physiol. 2006 Aug;141(4):1644-52. Epub 2006 Jun 9.

22.

Contrasting interactions between ethylene and abscisic acid in Rumex species differing in submergence tolerance.

Benschop JJ, Jackson MB, Gühl K, Vreeburg RA, Croker SJ, Peeters AJ, Voesenek LA.

Plant J. 2005 Dec;44(5):756-68.

23.

Characterisation of CO(2) and HCO(3) (-) uptake in the cyanobacterium Synechocystis sp. PCC6803.

Benschop JJ, Badger MR, Dean Price G.

Photosynth Res. 2003;77(2-3):117-26.

PMID:
16228370
24.

Ethylene regulates fast apoplastic acidification and expansin A transcription during submergence-induced petiole elongation in Rumex palustris.

Vreeburg RA, Benschop JJ, Peeters AJ, Colmer TD, Ammerlaan AH, Staal M, Elzenga TM, Staals RH, Darley CP, McQueen-Mason SJ, Voesenek LA.

Plant J. 2005 Aug;43(4):597-610.

25.

The roles of ethylene, auxin, abscisic acid, and gibberellin in the hyponastic growth of submerged Rumex palustris petioles.

Cox MC, Benschop JJ, Vreeburg RA, Wagemaker CA, Moritz T, Peeters AJ, Voesenek LA.

Plant Physiol. 2004 Oct;136(2):2948-60; discussion 3001. Epub 2004 Oct 1.

26.

Interactions between plant hormones regulate submergence-induced shoot elongation in the flooding-tolerant dicot Rumex palustris.

Voesenek LA, Benschop JJ, Bou J, Cox MC, Groeneveld HW, Millenaar FF, Vreeburg RA, Peeters AJ.

Ann Bot. 2003 Jan;91 Spec No:205-11. Review.

27.

Submergence research using Rumex palustris as a model; looking back and going forward.

Peeters AJ, Cox MC, Benschop JJ, Vreeburg RA, Bou J, Voesenek LA.

J Exp Bot. 2002 Mar;53(368):391-8. Review.

PMID:
11847236
28.

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