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Items: 27

1.

Preferential Identification of Agonistic OX40 Antibodies by Using Cell Lysate to Pan Natively Paired, Humanized Mouse-Derived Yeast Surface Display Libraries.

Medina-Cucurella AV, Mizrahi RA, Asensio MA, Edgar RC, Leong J, Leong R, Lim YW, Nelson A, Niedecken AR, Simons JF, Spindler MJ, Stadtmiller K, Wayham N, Adler AS, Johnson DS.

Antibodies (Basel). 2019 Feb 19;8(1). pii: E17. doi: 10.3390/antib8010017.

2.

Antibody repertoire analysis of mouse immunization protocols using microfluidics and molecular genomics.

Asensio MA, Lim YW, Wayham N, Stadtmiller K, Edgar RC, Leong J, Leong R, Mizrahi RA, Adams MS, Simons JF, Spindler MJ, Johnson DS, Adler AS.

MAbs. 2019 Jul;11(5):870-883. doi: 10.1080/19420862.2019.1583995. Epub 2019 Mar 21.

3.

An integrated semiconductor device enabling non-optical genome sequencing.

Rothberg JM, Hinz W, Rearick TM, Schultz J, Mileski W, Davey M, Leamon JH, Johnson K, Milgrew MJ, Edwards M, Hoon J, Simons JF, Marran D, Myers JW, Davidson JF, Branting A, Nobile JR, Puc BP, Light D, Clark TA, Huber M, Branciforte JT, Stoner IB, Cawley SE, Lyons M, Fu Y, Homer N, Sedova M, Miao X, Reed B, Sabina J, Feierstein E, Schorn M, Alanjary M, Dimalanta E, Dressman D, Kasinskas R, Sokolsky T, Fidanza JA, Namsaraev E, McKernan KJ, Williams A, Roth GT, Bustillo J.

Nature. 2011 Jul 20;475(7356):348-52. doi: 10.1038/nature10242.

PMID:
21776081
4.

Low-abundance drug-resistant viral variants in chronically HIV-infected, antiretroviral treatment-naive patients significantly impact treatment outcomes.

Simen BB, Simons JF, Hullsiek KH, Novak RM, Macarthur RD, Baxter JD, Huang C, Lubeski C, Turenchalk GS, Braverman MS, Desany B, Rothberg JM, Egholm M, Kozal MJ; Terry Beirn Community Programs for Clinical Research on AIDS.

J Infect Dis. 2009 Mar 1;199(5):693-701. doi: 10.1086/596736.

PMID:
19210162
5.

A new arenavirus in a cluster of fatal transplant-associated diseases.

Palacios G, Druce J, Du L, Tran T, Birch C, Briese T, Conlan S, Quan PL, Hui J, Marshall J, Simons JF, Egholm M, Paddock CD, Shieh WJ, Goldsmith CS, Zaki SR, Catton M, Lipkin WI.

N Engl J Med. 2008 Mar 6;358(10):991-8. doi: 10.1056/NEJMoa073785. Epub 2008 Feb 6. Erratum in: N Engl J Med. 2008 Mar 13;358(11):1204.

6.

Wasp gene expression supports an evolutionary link between maternal behavior and eusociality.

Toth AL, Varala K, Newman TC, Miguez FE, Hutchison SK, Willoughby DA, Simons JF, Egholm M, Hunt JH, Hudson ME, Robinson GE.

Science. 2007 Oct 19;318(5849):441-4. Epub 2007 Sep 27.

7.

Paired-end mapping reveals extensive structural variation in the human genome.

Korbel JO, Urban AE, Affourtit JP, Godwin B, Grubert F, Simons JF, Kim PM, Palejev D, Carriero NJ, Du L, Taillon BE, Chen Z, Tanzer A, Saunders AC, Chi J, Yang F, Carter NP, Hurles ME, Weissman SM, Harkins TT, Gerstein MB, Egholm M, Snyder M.

Science. 2007 Oct 19;318(5849):420-6. Epub 2007 Sep 27.

8.

A metagenomic survey of microbes in honey bee colony collapse disorder.

Cox-Foster DL, Conlan S, Holmes EC, Palacios G, Evans JD, Moran NA, Quan PL, Briese T, Hornig M, Geiser DM, Martinson V, vanEngelsdorp D, Kalkstein AL, Drysdale A, Hui J, Zhai J, Cui L, Hutchison SK, Simons JF, Egholm M, Pettis JS, Lipkin WI.

Science. 2007 Oct 12;318(5848):283-7. Epub 2007 Sep 6.

9.

Analysis of one million base pairs of Neanderthal DNA.

Green RE, Krause J, Ptak SE, Briggs AW, Ronan MT, Simons JF, Du L, Egholm M, Rothberg JM, Paunovic M, Pääbo S.

Nature. 2006 Nov 16;444(7117):330-6.

PMID:
17108958
10.

Patterns of nucleotide misincorporations during enzymatic amplification and direct large-scale sequencing of ancient DNA.

Stiller M, Green RE, Ronan M, Simons JF, Du L, He W, Egholm M, Rothberg JM, Keates SG, Ovodov ND, Antipina EE, Baryshnikov GF, Kuzmin YV, Vasilevski AA, Wuenschell GE, Termini J, Hofreiter M, Jaenicke-Després V, Pääbo S.

Proc Natl Acad Sci U S A. 2006 Sep 12;103(37):13578-84. Epub 2006 Aug 25. Erratum in: Proc Natl Acad Sci U S A. 2006 Oct 3;103(40):14977.

11.

Sensitive mutation detection in heterogeneous cancer specimens by massively parallel picoliter reactor sequencing.

Thomas RK, Nickerson E, Simons JF, Jänne PA, Tengs T, Yuza Y, Garraway LA, LaFramboise T, Lee JC, Shah K, O'Neill K, Sasaki H, Lindeman N, Wong KK, Borras AM, Gutmann EJ, Dragnev KH, DeBiasi R, Chen TH, Glatt KA, Greulich H, Desany B, Lubeski CK, Brockman W, Alvarez P, Hutchison SK, Leamon JH, Ronan MT, Turenchalk GS, Egholm M, Sellers WR, Rothberg JM, Meyerson M.

Nat Med. 2006 Jul;12(7):852-5. Epub 2006 Jun 25. Erratum in: Nat Med. 2006 Oct;12(10):1220.

PMID:
16799556
12.

Genome sequencing in microfabricated high-density picolitre reactors.

Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM.

Nature. 2005 Sep 15;437(7057):376-80. Epub 2005 Jul 31. Erratum in: Nature. 2006 May 4;441(7089):120. Ho, Chun He [corrected to Ho, Chun Heen].

13.

"One plate/three-reporter" assay format for the detection and validation of yeast two-hybrid interactions.

Evans DR, Swirsding KA, Taillon BE, Simons JF.

Biotechniques. 2004 Nov;37(5):840-3.

14.

The Melanoma Vascular Mimicry Phenotype Defined in Gene Expression and Microsome Sequencing Analysis.

Ju J, Rastelli L, Malyanker UM, Simons JF, Huang C, Herrmann J, Macdougall JR, Taillon BE.

Cancer Genomics Proteomics. 2004 Sep-Dec;1(5-6):355-362. Epub 2004 Sep 1.

16.

Open systems: panoramic views of gene expression.

Green CD, Simons JF, Taillon BE, Lewin DA.

J Immunol Methods. 2001 Apr;250(1-2):67-79. Review.

PMID:
11251222
17.

Gene expression analysis by transcript profiling coupled to a gene database query.

Shimkets RA, Lowe DG, Tai JT, Sehl P, Jin H, Yang R, Predki PF, Rothberg BE, Murtha MT, Roth ME, Shenoy SG, Windemuth A, Simpson JW, Simons JF, Daley MP, Gold SA, McKenna MP, Hillan K, Went GT, Rothberg JM.

Nat Biotechnol. 1999 Aug;17(8):798-803.

PMID:
10429247
19.
21.

BiP/Kar2p serves as a molecular chaperone during carboxypeptidase Y folding in yeast.

Simons JF, Ferro-Novick S, Rose MD, Helenius A.

J Cell Biol. 1995 Jul;130(1):41-9.

22.

Calnexin, calreticulin, and Bip/Kar2p in protein folding.

Hebert DN, Simons JF, Peterson JR, Helenius A.

Cold Spring Harb Symp Quant Biol. 1995;60:405-15. Review. No abstract available.

PMID:
8824414
23.
24.

Nucleotide sequence and coding strategy of the Uukuniemi virus L RNA segment.

Elliott RM, Dunn E, Simons JF, Pettersson RF.

J Gen Virol. 1992 Jul;73 ( Pt 7):1745-52.

PMID:
1629699
25.

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