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Items: 37

1.

S100A4 Is a Biomarker and Regulator of Glioma Stem Cells That Is Critical for Mesenchymal Transition in Glioblastoma.

Chow KH, Park HJ, George J, Yamamoto K, Gallup AD, Graber JH, Chen Y, Jiang W, Steindler DA, Neilson EG, Kim BYS, Yun K.

Cancer Res. 2017 Oct 1;77(19):5360-5373. doi: 10.1158/0008-5472.CAN-17-1294. Epub 2017 Aug 14.

PMID:
28807938
2.

Promiscuous DNA-binding of a mutant zinc finger protein corrupts the transcriptome and diminishes cell viability.

Gillinder KR, Ilsley MD, NĂ©bor D, Sachidanandam R, Lajoie M, Magor GW, Tallack MR, Bailey T, Landsberg MJ, Mackay JP, Parker MW, Miles LA, Graber JH, Peters LL, Bieker JJ, Perkins AC.

Nucleic Acids Res. 2017 Feb 17;45(3):1130-1143. doi: 10.1093/nar/gkw1014.

3.

Temporal dynamics of the developing lung transcriptome in three common inbred strains of laboratory mice reveals multiple stages of postnatal alveolar development.

Beauchemin KJ, Wells JM, Kho AT, Philip VM, Kamir D, Kohane IS, Graber JH, Bult CJ.

PeerJ. 2016 Aug 9;4:e2318. doi: 10.7717/peerj.2318. eCollection 2016.

4.

TauCstF-64 Mediates Correct mRNA Polyadenylation and Splicing of Activator and Repressor Isoforms of the Cyclic AMP-Responsive Element Modulator (CREM) in Mouse Testis.

Grozdanov PN, Amatullah A, Graber JH, MacDonald CC.

Biol Reprod. 2016 Feb;94(2):34. doi: 10.1095/biolreprod.115.134684. Epub 2015 Dec 23.

5.

RNA-Seq alignment to individualized genomes improves transcript abundance estimates in multiparent populations.

Munger SC, Raghupathy N, Choi K, Simons AK, Gatti DM, Hinerfeld DA, Svenson KL, Keller MP, Attie AD, Hibbs MA, Graber JH, Chesler EJ, Churchill GA.

Genetics. 2014 Sep;198(1):59-73. doi: 10.1534/genetics.114.165886.

6.

DNA damage induces targeted, genome-wide variation of poly(A) sites in budding yeast.

Graber JH, Nazeer FI, Yeh PC, Kuehner JN, Borikar S, Hoskinson D, Moore CL.

Genome Res. 2013 Oct;23(10):1690-703. doi: 10.1101/gr.144964.112. Epub 2013 Jun 20.

7.

Signals for pre-mRNA cleavage and polyadenylation.

Tian B, Graber JH.

Wiley Interdiscip Rev RNA. 2012 May-Jun;3(3):385-96. doi: 10.1002/wrna.116. Epub 2011 Oct 19. Review.

8.

Patterns of recombination activity on mouse chromosome 11 revealed by high resolution mapping.

Billings T, Sargent EE, Szatkiewicz JP, Leahy N, Kwak IY, Bektassova N, Walker M, Hassold T, Graber JH, Broman KW, Petkov PM.

PLoS One. 2010 Dec 8;5(12):e15340. doi: 10.1371/journal.pone.0015340.

9.

Gene-specific RNA polymerase II phosphorylation and the CTD code.

Kim H, Erickson B, Luo W, Seward D, Graber JH, Pollock DD, Megee PC, Bentley DL.

Nat Struct Mol Biol. 2010 Oct;17(10):1279-86. doi: 10.1038/nsmb.1913. Epub 2010 Sep 12.

10.

Interrogating the transcriptome of oocytes and preimplantation embryos.

Peaston AE, Graber JH, Knowles BB, de Vries WN.

Methods Enzymol. 2010;477:481-510. doi: 10.1016/S0076-6879(10)77024-5.

PMID:
20699156
11.

CGDSNPdb: a database resource for error-checked and imputed mouse SNPs.

Hutchins LN, Ding Y, Szatkiewicz JP, Von Smith R, Yang H, de Villena FP, Churchill GA, Graber JH.

Database (Oxford). 2010 Jul 6;2010:baq008. doi: 10.1093/database/baq008.

12.

Global changes in processing of mRNA 3' untranslated regions characterize clinically distinct cancer subtypes.

Singh P, Alley TL, Wright SM, Kamdar S, Schott W, Wilpan RY, Mills KD, Graber JH.

Cancer Res. 2009 Dec 15;69(24):9422-30. doi: 10.1158/0008-5472.CAN-09-2236.

13.

Probe-level analysis of expression microarrays characterizes isoform-specific degradation during mouse oocyte maturation.

Salisbury J, Hutchison KW, Wigglesworth K, Eppig JJ, Graber JH.

PLoS One. 2009 Oct 16;4(10):e7479. doi: 10.1371/journal.pone.0007479.

14.

A customized and versatile high-density genotyping array for the mouse.

Yang H, Ding Y, Hutchins LN, Szatkiewicz J, Bell TA, Paigen BJ, Graber JH, de Villena FP, Churchill GA.

Nat Methods. 2009 Sep;6(9):663-6. doi: 10.1038/nmeth.1359. Epub 2009 Aug 9.

15.

Reprogramming and differentiation in mammals: motifs and mechanisms.

de Vries WN, Evsikov AV, Brogan LJ, Anderson CP, Graber JH, Knowles BB, Solter D.

Cold Spring Harb Symp Quant Biol. 2008;73:33-8. doi: 10.1101/sqb.2008.73.016. Epub 2008 Nov 6. Review.

16.

Pooling and PCR as a method to combat low frequency gene targeting in mouse embryonic stem cells.

Brown AC, Lerner CP, Graber JH, Shaffer DJ, Roopenian DC.

Cytotechnology. 2006 Jun;51(2):81-8. doi: 10.1007/s10616-006-9021-8. Epub 2006 Nov 2.

17.

Position-dependent motif characterization using non-negative matrix factorization.

Hutchins LN, Murphy SM, Singh P, Graber JH.

Bioinformatics. 2008 Dec 1;24(23):2684-90. doi: 10.1093/bioinformatics/btn526. Epub 2008 Oct 13.

18.

The recombinational anatomy of a mouse chromosome.

Paigen K, Szatkiewicz JP, Sawyer K, Leahy N, Parvanov ED, Ng SH, Graber JH, Broman KW, Petkov PM.

PLoS Genet. 2008 Jul 11;4(7):e1000119. doi: 10.1371/journal.pgen.1000119.

19.

C. elegans sequences that control trans-splicing and operon pre-mRNA processing.

Graber JH, Salisbury J, Hutchins LN, Blumenthal T.

RNA. 2007 Sep;13(9):1409-26. Epub 2007 Jul 13.

20.

Evidence of a large-scale functional organization of Mammalian chromosomes.

Petkov PM, Graber JH, Churchill GA, DiPetrillo K, King BL, Paigen K.

PLoS Biol. 2007 May;5(5):e127; author reply e128. No abstract available.

21.

Systematic variation in mRNA 3'-processing signals during mouse spermatogenesis.

Liu D, Brockman JM, Dass B, Hutchins LN, Singh P, McCarrey JR, MacDonald CC, Graber JH.

Nucleic Acids Res. 2007;35(1):234-46. Epub 2006 Dec 8.

22.

Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo.

Evsikov AV, Graber JH, Brockman JM, Hampl A, Holbrook AE, Singh P, Eppig JJ, Solter D, Knowles BB.

Genes Dev. 2006 Oct 1;20(19):2713-27.

23.

Patterns and mechanisms of genome organization in the mouse.

Graber JH, Churchill GA, Dipetrillo KJ, King BL, Petkov PM, Paigen K.

J Exp Zool A Comp Exp Biol. 2006 Sep 1;305(9):683-8. Review.

PMID:
16902958
24.
25.
26.

Evidence of a large-scale functional organization of mammalian chromosomes.

Petkov PM, Graber JH, Churchill GA, DiPetrillo K, King BL, Paigen K.

PLoS Genet. 2005 Sep;1(3):e33.

27.

PACdb: PolyA Cleavage Site and 3'-UTR Database.

Brockman JM, Singh P, Liu D, Quinlan S, Salisbury J, Graber JH.

Bioinformatics. 2005 Sep 15;21(18):3691-3. Epub 2005 Jul 19.

PMID:
16030070
28.

Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos.

Peaston AE, Evsikov AV, Graber JH, de Vries WN, Holbrook AE, Solter D, Knowles BB.

Dev Cell. 2004 Oct;7(4):597-606.

29.
30.

On the normalization of RNA equilibrium free energy to the length of the sequence.

Pervouchine DD, Graber JH, Kasif S.

Nucleic Acids Res. 2003 May 1;31(9):e49.

31.

A ubiquitous and conserved signal for RNA localization in chordates.

Betley JN, Frith MC, Graber JH, Choo S, Deshler JO.

Curr Biol. 2002 Oct 15;12(20):1756-61.

32.

Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites.

Graber JH, McAllister GD, Smith TF.

Nucleic Acids Res. 2002 Apr 15;30(8):1851-8.

33.

In silico detection of control signals: mRNA 3'-end-processing sequences in diverse species.

Graber JH, Cantor CR, Mohr SC, Smith TF.

Proc Natl Acad Sci U S A. 1999 Nov 23;96(24):14055-60.

34.

PCR based targeted genomic and cDNA differential display.

Broude NE, Storm N, Malpel S, Graber JH, Lukyanov S, Sverdlov E, Smith CL.

Genet Anal. 1999 Apr;15(2):51-63.

PMID:
10191986
35.

Differential sequencing with mass spectrometry.

Graber JH, Smith CL, Cantor CR.

Genet Anal. 1999 Feb;14(5-6):215-9. Review.

PMID:
10084117
36.

Genomic detection of new yeast pre-mRNA 3'-end-processing signals.

Graber JH, Cantor CR, Mohr SC, Smith TF.

Nucleic Acids Res. 1999 Feb 1;27(3):888-94.

37.

Advances in DNA diagnostics.

Graber JH, O'Donnell MJ, Smith CL, Cantor CR.

Curr Opin Biotechnol. 1998 Feb;9(1):14-8. Review.

PMID:
9537747

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