Select Publications:

Engineering Structurally Interacting RNA (sxRNA).

Doyle F, Lapsia S, Spadaro S, Wurz ZE, Bhaduri-McIntosh S, Tenenbaum SA.

Sci Rep. 2017 Mar 28;7:45393. doi: 10.1038/srep45393.

Trans-regulation of RNA-binding protein motifs by microRNA.

Doyle F, Tenenbaum SA.

Front Genet. 2014 Apr 15;5:79. doi: 10.3389/fgene.2014.00079. eCollection 2014.

A boost for the emerging field of RNA nanotechnology.

Shukla GC, Haque F, Tor Y, Wilhelmsson LM, Toulme JJ, Isambert H, Guo P, Rossi JJ, Tenenbaum SA, Shapiro BA.

ACS Nano. 2011 May 24;5(5):3405-18. doi: 10.1021/nn200989r.

Advances in RIP-chip analysis : RNA-binding protein immunoprecipitation-microarray profiling.

Baroni TE, Chittur SV, George AD, Tenenbaum SA.

Methods Mol Biol. 2008;419:93-108. doi: 10.1007/978-1-59745-033-1_6.

Ribonomics: identifying mRNA subsets in mRNP complexes using antibodies to RNA-binding
proteins and genomic arrays.

Tenenbaum SA, Lager PJ, Carson CC, Keene JD.

Methods. 2002 Feb;26(2):191-8.

Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.

Tenenbaum SA, Carson CC, Lager PJ, Keene JD.

Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14085-90.

Eukaryotic mRNPs may represent posttranscriptional operons.

Keene JD, Tenenbaum SA.

Mol Cell. 2002 Jun;9(6):1161-7.

Microarray identification of FMRP-associated brain mRNAs and altered mRNA translational profiles
in fragile X syndrome.

Brown V, Jin P, Ceman S, Darnell JC, O'Donnell WT, Tenenbaum SA, Jin X, Feng Y, Wilkinson KD, Keene JD, Darnell RB, Warren ST.

Cell. 2001 Nov 16;107(4):477-87.

Use of antipolymer antibody assay in recipients of silicone breast implants.

Tenenbaum SA, Rice JC, Espinoza LR, Cuellar ML, Plymale DR, Sander DM, Williamson LL, Haislip AM, Gluck OS, Tesser JR.

Lancet. 1997 Feb 15;349(9050):449-54. Erratum in: Lancet 1997 May 24;349(9064):1558.

All Publications:

Engineering Structurally Interacting RNA (sxRNA).

Doyle F, Lapsia S, Spadaro S, Wurz ZE, Bhaduri-McIntosh S, Tenenbaum SA.

Sci Rep. 2017 Mar 28;7:45393. doi: 10.1038/srep45393.

Gene- and genome-based analysis of significant codon patterns in yeast, rat and mice genomes with the CUT Codon UTilization tool.

Doyle F, Leonardi A, Endres L, Tenenbaum SA, Dedon PC, Begley TJ.

Methods. 2016 Sep 1;107:98-109. doi: 10.1016/j.ymeth.2016.05.010. Epub 2016 May 28.

Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network.

Cassar PA, Carpenedo RL, Samavarchi-Tehrani P, Olsen JB, Park CJ, Chang WY, Chen Z, Choey C, Delaney S, Guo H, Guo H, Tanner RM, Perkins TJ, Tenenbaum SA, Emili A, Wrana JL, Gibbings D, Stanford WL.

EMBO. 2015 Oct 16;(10):1334-57. doi: 10.15252/embr.201540974. Epub 2015 Aug 11.

Metastatic bladder cancer cells distinctively sense and respond to physical cues of collagen fibril-mimetic nanotopography.

Iuliano JN, Kutscha PD, Biderman NJ, Subbaram S, Groves TR, Tenenbaum SA, Hempel N.

Exp Biol Med (Maywood). 2015 May;240(5):601-10. doi: 10.1177/1535370214560973. Epub 2014 Dec 2.

Identification of SMG6 cleavage sites and a preferred RNA cleavage motif by global analysis of endogenous NMD targets in human cells.

Schmidt SA, Foley PL, Jeong DH, Rymarquis LA, Doyle F, Tenenbaum SA, Belasco JG, Green PJ.

Nucleic Acids Res. 2015 Jan;43(1):309-23. doi: 10.1093/nar/gku1258. Epub 2014 Nov 27.

Nanomanipulation of single RNA molecules by optical tweezers.

Stephenson W, Wan G, Tenenbaum SA, Li PT.

J Vis Exp. 2014 Aug 20;(90). doi: 10.3791/51542.

Trans-regulation of RNA-binding protein motifs by microRNA.

Doyle F, Tenenbaum SA.

Front Genet. 2014 Apr 15;5:79. doi: 10.3389/fgene.2014.00079. eCollection 2014.

Combining temperature and force to study folding of an RNA hairpin.

Stephenson W, Keller S, Santiago R, Albrecht JE, Asare-Okai PN, Tenenbaum SA, Zuker M, Li PT.

Phys Chem Chem Phys. 2014 Jan 21;16(3):906-17. doi: 10.1039/c3cp52042k. Epub 2013 Nov 25.

Profiling post-transcriptionally networked mRNA subsets using RIP-Chip and RIP-Seq.

Jayaseelan S, Doyle F, Tenenbaum SA.

Methods. 2014 May 1;67(1):13-9. doi: 10.1016/j.ymeth.2013.11.001. Epub 2013 Nov 17.

The essential role of stacking adenines in a two-base-pair RNA kissing complex.

Stephenson W, Asare-Okai PN, Chen AA, Keller S, Santiago R, Tenenbaum SA, Garcia AE, Fabris D, Li PT.

J Am Chem Soc. 2013 Apr 17;135(15):5602-11. doi: 10.1021/ja310820h. Epub 2013 Apr 8.

Neurodevelopmental disorders: Signalling pathways of fragile X syndrome.

Jayaseelan S, Tenenbaum SA.

Nature. 2012 Dec 20;492(7429):359-60. doi: 10.1038/nature11764. Epub 2012 Dec 12. No abstract available.

An integrated encyclopedia of DNA elements in the human genome.

ENCODE Project Consortium, Bernstein BE, Birney E, Dunham I, Green ED, Gunter C, Snyder M.

Nature. 2012 Sep 6;489(7414):57-74. doi: 10.1038/nature11247.

Asymmetric segregation of the double-stranded RNA binding protein Staufen2 during
mammalian neural stem cell divisions promotes lineage progression.

Kusek G, Campbell M, Doyle F, Tenenbaum SA, Kiebler M, Temple S.

Cell Stem Cell. 2012 Oct 5;11(4):505-16. doi: 10.1016/j.stem.2012.06.006. Epub 2012 Aug 16.

An in-depth map of polyadenylation sites in cancer.

Lin Y, Li Z, Ozsolak F, Kim SW, Arango-Argoty G, Liu TT, Tenenbaum SA, Bailey T, Monaghan AP, Milos PM, John B.

Nucleic Acids Res. 2012 Sep 1;40(17):8460-71. Epub 2012 Jun 29.

Transgenic expression of ZBP1 in neurons suppresses cocaine-associated conditioning.

Lapidus KA, Nwokafor C, Scott D, Baroni TE, Tenenbaum SA, Hiroi N, Singer RH, Czaplinski K.

Learn Mem. 2012 Jan 12;19(2):35-42. doi: 10.1101/lm.024471.111. Print 2012 Feb.

A boost for the emerging field of RNA nanotechnology.

Shukla GC, Haque F, Tor Y, Wilhelmsson LM, Toulme JJ, Isambert H, Guo P, Rossi JJ, Tenenbaum SA, Shapiro BA.

ACS Nano. 2011 May 24;5(5):3405-18. doi: 10.1021/nn200989r.

A user's guide to the encyclopedia of DNA elements (ENCODE).

ENCODE Project Consortium.

PLoS Biol. 2011 Apr;9(4):e1001046. doi: 10.1371/journal.pbio.1001046. Epub 2011 Apr 19.

RIP: an mRNA localization technique.

Jayaseelan S, Doyle F, Currenti S, Tenenbaum SA.

Methods Mol Biol. 2011;714:407-22. doi: 10.1007/978-1-61779-005-8_25.

RIP-Chip analysis: RNA-Binding Protein Immunoprecipitation-Microarray (Chip) Profiling.

Jain R, Devine T, George AD, Chittur SV, Baroni TE, Penalva LO, Tenenbaum SA.

Methods Mol Biol. 2011;703:247-63. doi: 10.1007/978-1-59745-248-9_17.

The post-transcriptional operon.

Tenenbaum SA, Christiansen J, Nielsen H.

Methods Mol Biol. 2011;703:237-45. doi: 10.1007/978-1-59745-248-9_16.

Web-based tools for studying RNA structure and function.

George AD, Tenenbaum SA.

Methods Mol Biol. 2011;703:67-86. doi: 10.1007/978-1-59745-248-9_6.

Dutasteride monotherapy in men with serologic relapse following radical therapy for
adenocarcinoma of the prostate: a pilot study.

Perrotti M, Jain R, Abriel LM, Baroni TE, Corbett AB, Tenenbaum SA.

Urol Oncol. 2012 Mar-Apr;30(2):133-8. doi: 10.1016/j.urolonc.2010.01.004. Epub 2010 Aug 25.

RIP-CHIP in drug development.

Jain R, Doyle F, George AD, Kuentzel M, Frank D, Chittur SV, Tenenbaum SA.

Methods Mol Biol. 2010;632:159-71. doi: 10.1007/978-1-60761-663-4_10.

Informatic resources for identifying and annotating structural RNA motifs.

George AD, Tenenbaum SA.

Mol Biotechnol. 2009 Feb;41(2):180-93. doi: 10.1007/s12033-008-9114-z. Epub 2008 Nov 1. Review.

Advances in RIP-chip analysis : RNA-binding protein immunoprecipitation-microarray profiling.

Baroni TE, Chittur SV, George AD, Tenenbaum SA.

Methods Mol Biol. 2008;419:93-108. doi: 10.1007/978-1-59745-033-1_6.

Bioinformatic tools for studying post-transcriptional gene regulation :
  The UAlbany TUTR collection and other informatic resources.

Doyle F, Zaleski C, George AD, Stenson EK, Ricciardi A, Tenenbaum SA.

Methods Mol Biol. 2008;419:39-52. doi: 10.1007/978-1-59745-033-1_3.

Genome-wide analysis identifies interleukin-10 mRNA as target of tristetraprolin.

Stoecklin G, Tenenbaum SA, Mayo T, Chittur SV, George AD, Baroni TE, Blackshear PJ, Anderson P.

J Biol Chem. 2008 Apr 25;283(17):11689-99. doi: 10.1074/jbc.M709657200. Epub 2008 Feb 6.

Ribonomic and short hairpin RNA gene silencing methods to explore functional gene
programs associated with tumor growth arrest.

Baroni TE, Lastro MT, Ranganathan AC, Tenenbaum SA, Conklin DS, Aguirre-Ghiso JA.

Methods Mol Biol. 2007;383:227-44. doi: 10.1007/978-1-59745-335-6_15.

Caspase-mediated cleavage of HuR in the cytoplasm contributes to pp32/PHAP-I regulation of apoptosis.

Mazroui R, Di Marco S, Clair E, von Roretz C, Tenenbaum SA, Keene JD, Saleh M, Gallouzi IE.

J Cell Biol. 2008 Jan 14;180(1):113-27. doi: 10.1083/jcb.200709030. Epub 2008 Jan 7.

MicroRNA modulation of RNA-binding protein regulatory elements.

George AD, Tenenbaum SA.

RNA Biol. 2006 Apr;3(2):57-9. Epub 2006 Apr 1.

Dephosphorylation shows SR proteins the way out.

Tenenbaum SA, Aguirre-Ghiso J.

Mol Cell. 2005 Nov 23;20(4):499-501. Review.

Involvement of human intracisternal A-type retroviral particles in autoimmunity.

Sander DM, Szabo S, Gallaher WR, Deas JE, Thompson JJ, Cao Y, Luo-Zhang H, Liu LG, Colmegna I, Koehler J, Espinoza LR, Alexander SS, Hart DJ, Tom DM, Fermin CD, Jaspan JJ, Kulakosky PC, Tenenbaum SA, Wilson RB, Garry RF.

Microsc Res Tech. 2005 Nov;68(3-4):222-34.

Evidence of HIV exposure and transient seroreactivity in archived HIV-negative severe hemophiliac sera.

Tenenbaum SA, Morris CA, Alexander SS, McFerrin HE, Garry RF, Leissinger CA.

Virol J. 2005 Aug 17;2:65.

NF-kappa B-mediated MyoD decay during muscle wasting requires nitric oxide synthase
mRNA stabilization, HuR protein, and nitric oxide release.

Di Marco S, Mazroui R, Dallaire P, Chittur S, Tenenbaum SA, Radzioch D, Marette A, Gallouzi IE.

Mol Cell Biol. 2005 Aug;25(15):6533-45.

Gene expression analysis of messenger RNP complexes.

Penalva LO, Tenenbaum SA, Keene JD.

Methods Mol Biol. 2004;257:125-34.

Differential phosphorylation and subcellular localization of La RNPs associated with precursor
tRNAs and translation-related mRNAs.

Intine RV, Tenenbaum SA, Sakulich AL, Keene JD, Maraia RJ.

Mol Cell. 2003 Nov;12(5):1301-7.

Genome-wide regulatory analysis using en masse nuclear run-ons and ribonomic profiling with autoimmune sera.

Tenenbaum SA, Carson CC, Atasoy U, Keene JD.

Gene. 2003 Oct 23;317(1-2):79-87.

Eukaryotic mRNPs may represent posttranscriptional operons.

Keene JD, Tenenbaum SA.

Mol Cell. 2002 Jun;9(6):1161-7.

Ribonomics: identifying mRNA subsets in mRNP complexes using antibodies to RNA-binding
proteins and genomic arrays.

Tenenbaum SA, Lager PJ, Carson CC, Keene JD.

Methods. 2002 Feb;26(2):191-8.

A phosphorylated cytoplasmic autoantigen, GW182, associates with a unique population of human
mRNAs within novel cytoplasmic speckles.

Eystathioy T, Chan EK, Tenenbaum SA, Keene JD, Griffith K, Fritzler MJ.

Mol Biol Cell. 2002 Apr;13(4):1338-51.

Microarray identification of FMRP-associated brain mRNAs and altered mRNA translational profiles
in fragile X syndrome.

Brown V, Jin P, Ceman S, Darnell JC, O'Donnell WT, Tenenbaum SA, Jin X, Feng Y, Wilkinson KD, Keene JD, Darnell RB, Warren ST.

Cell. 2001 Nov 16;107(4):477-87.

Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.

Tenenbaum SA, Carson CC, Lager PJ, Keene JD.

Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14085-90.

Use of antipolymer antibody assay in recipients of silicone breast implants.

Tenenbaum SA, Rice JC, Espinoza LR, Cuellar ML, Plymale DR, Sander DM, Williamson LL, Haislip AM, Gluck OS, Tesser JR.

Lancet. 1997 Feb 15;349(9050):449-54. Erratum in: Lancet 1997 May 24;349(9064):1558.

Interaction of erythropoietin RNA binding protein with erythropoietin RNA requires an association
with heat shock protein 70.

Scandurro AB, Rondon IJ, Wilson RB, Tenenbaum SA, Garry RF, Beckman BS.

Kidney Int. 1997 Feb;51(2):579-84.

Activity of granzyme A, a serine protease in the killing granules of cytotoxic T lymphocytes, is
reduced in cells from HIV-infected hemophiliacs.

Chiang CF, Tenenbaum SA, Verret CR, Leissinger CA, Garry RF.

AIDS Res Hum Retroviruses. 1996 Feb 10;12(3):235-9.

Serum antinuclear antibodies in women with silicone breast implants.

Cuellar ML, Scopelitis E, Tenenbaum SA, Garry RF, Silveira LH, Cabrera G, Espinoza LR.

J Rheumatol. 1995 Feb;22(2):236-40.

Sequence similarities between retroviral proteins and components of the spliceosome.

Tenenbaum SA, Voss TG, Garry RF, Gallaher WR.

AIDS Res Hum Retroviruses. 1994 May;10(5):521-2. No abstract available.

Absence of seroconversion of HIV-1 antibody in seroreactive individuals.

Tenenbaum SA, Leissinger CA, Garry RF.

JAMA. 1993 Nov 10;270(18):2178-9. No abstract available.

Sjögren's syndrome and assays for retroviral proteins: reply.

Garry RF, Hart DJ, Tenenbaum SA, Luo-Zhang H, Breeding SA, Alexander SS.

Arthritis Rheum. 1992 Nov;35(11):1405. No abstract available.