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Items: 33

1.

Decoding the 5' nucleotide bias of PIWI-interacting RNAs.

Stein CB, Genzor P, Mitra S, Elchert AR, Ipsaro JJ, Benner L, Sobti S, Su Y, Hammell M, Joshua-Tor L, Haase AD.

Nat Commun. 2019 Feb 19;10(1):828. doi: 10.1038/s41467-019-08803-z.

2.

Single-Cell Applications of Next-Generation Sequencing.

Anaparthy N, Ho YJ, Martelotto L, Hammell M, Hicks J.

Cold Spring Harb Perspect Med. 2019 Jan 7. pii: a026898. doi: 10.1101/cshperspect.a026898. [Epub ahead of print]

PMID:
30617056
3.

Chromatin-mediated translational control is essential for neural cell fate specification.

Hwang DW, Jaganathan A, Shrestha P, Jin Y, El-Amine N, Wang SH, Hammell M, Mills AA.

Life Sci Alliance. 2018 Aug 23;1(4):e201700016. doi: 10.26508/lsa.201700016. eCollection 2018 Aug.

4.

Ten things you should know about transposable elements.

Bourque G, Burns KH, Gehring M, Gorbunova V, Seluanov A, Hammell M, Imbeault M, Izsvák Z, Levin HL, Macfarlan TS, Mager DL, Feschotte C.

Genome Biol. 2018 Nov 19;19(1):199. doi: 10.1186/s13059-018-1577-z. Review.

5.

TEsmall Identifies Small RNAs Associated With Targeted Inhibitor Resistance in Melanoma.

O'Neill K, Liao WW, Patel A, Hammell MG.

Front Genet. 2018 Oct 5;9:461. doi: 10.3389/fgene.2018.00461. eCollection 2018.

6.

Single-cell RNA-seq analysis identifies markers of resistance to targeted BRAF inhibitors in melanoma cell populations.

Ho YJ, Anaparthy N, Molik D, Mathew G, Aicher T, Patel A, Hicks J, Hammell MG.

Genome Res. 2018 Sep;28(9):1353-1363. doi: 10.1101/gr.234062.117. Epub 2018 Jul 30.

7.

Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism.

Conlon EG, Fagegaltier D, Agius P, Davis-Porada J, Gregory J, Hubbard I, Kang K, Kim D; New York Genome Center ALS Consortium, Phatnani H, Kwan J, Sareen D, Broach JR, Simmons Z, Arcila-Londono X, Lee EB, Van Deerlin VM, Shneider NA, Fraenkel E, Ostrow LW, Baas F, Zaitlen N, Berry JD, Malaspina A, Fratta P, Cox GA, Thompson LM, Finkbeiner S, Dardiotis E, Miller TM, Chandran S, Pal S, Hornstein E, MacGowan DJ, Heiman-Patterson T, Hammell MG, Patsopoulos NA, Dubnau J, Nath A, Phatnani H, Shneider NA, Manley JL.

Elife. 2018 Jul 13;7. pii: e37754. doi: 10.7554/eLife.37754.

8.

Analysis of RNA-Seq Data Using TEtranscripts.

Jin Y, Hammell M.

Methods Mol Biol. 2018;1751:153-167. doi: 10.1007/978-1-4939-7710-9_11.

PMID:
29508296
9.

Suppression of protein tyrosine phosphatase N23 predisposes to breast tumorigenesis via activation of FYN kinase.

Zhang S, Fan G, Hao Y, Hammell M, Wilkinson JE, Tonks NK.

Genes Dev. 2017 Oct 1;31(19):1939-1957. doi: 10.1101/gad.304261.117. Epub 2017 Oct 24.

10.

Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALS.

Krug L, Chatterjee N, Borges-Monroy R, Hearn S, Liao WW, Morrill K, Prazak L, Rozhkov N, Theodorou D, Hammell M, Dubnau J.

PLoS Genet. 2017 Mar 16;13(3):e1006635. doi: 10.1371/journal.pgen.1006635. eCollection 2017 Mar.

11.

NRF2 Promotes Tumor Maintenance by Modulating mRNA Translation in Pancreatic Cancer.

Chio IIC, Jafarnejad SM, Ponz-Sarvise M, Park Y, Rivera K, Palm W, Wilson J, Sangar V, Hao Y, Öhlund D, Wright K, Filippini D, Lee EJ, Da Silva B, Schoepfer C, Wilkinson JE, Buscaglia JM, DeNicola GM, Tiriac H, Hammell M, Crawford HC, Schmidt EE, Thompson CB, Pappin DJ, Sonenberg N, Tuveson DA.

Cell. 2016 Aug 11;166(4):963-976. doi: 10.1016/j.cell.2016.06.056. Epub 2016 Jul 28.

12.

SETD1A modulates cell cycle progression through a miRNA network that regulates p53 target genes.

Tajima K, Yae T, Javaid S, Tam O, Comaills V, Morris R, Wittner BS, Liu M, Engstrom A, Takahashi F, Black JC, Ramaswamy S, Shioda T, Hammell M, Haber DA, Whetstine JR, Maheswaran S.

Nat Commun. 2015 Sep 23;6:8257. doi: 10.1038/ncomms9257.

13.

Novel DICER-LIKE1 siRNAs Bypass the Requirement for DICER-LIKE4 in Maize Development.

Petsch K, Manzotti PS, Tam OH, Meeley R, Hammell M, Consonni G, Timmermans MC.

Plant Cell. 2015 Aug;27(8):2163-77. doi: 10.1105/tpc.15.00194. Epub 2015 Jul 24.

14.

TEtranscripts: a package for including transposable elements in differential expression analysis of RNA-seq datasets.

Jin Y, Tam OH, Paniagua E, Hammell M.

Bioinformatics. 2015 Nov 15;31(22):3593-9. doi: 10.1093/bioinformatics/btv422. Epub 2015 Jul 23.

15.

RNF17 blocks promiscuous activity of PIWI proteins in mouse testes.

Wasik KA, Tam OH, Knott SR, Falciatori I, Hammell M, Vagin VV, Hannon GJ.

Genes Dev. 2015 Jul 1;29(13):1403-15. doi: 10.1101/gad.265215.115. Epub 2015 Jun 26.

16.

Robust Distal Tip Cell Pathfinding in the Face of Temperature Stress Is Ensured by Two Conserved microRNAS in Caenorhabditis elegans.

Burke SL, Hammell M, Ambros V.

Genetics. 2015 Aug;200(4):1201-18. doi: 10.1534/genetics.115.179184. Epub 2015 Jun 15.

17.

piRNA-directed cleavage of meiotic transcripts regulates spermatogenesis.

Goh WS, Falciatori I, Tam OH, Burgess R, Meikar O, Kotaja N, Hammell M, Hannon GJ.

Genes Dev. 2015 May 15;29(10):1032-44. doi: 10.1101/gad.260455.115.

18.

TGF-β/Smad signaling through DOCK4 facilitates lung adenocarcinoma metastasis.

Yu JR, Tai Y, Jin Y, Hammell MC, Wilkinson JE, Roe JS, Vakoc CR, Van Aelst L.

Genes Dev. 2015 Feb 1;29(3):250-61. doi: 10.1101/gad.248963.114.

19.

Organoid models of human and mouse ductal pancreatic cancer.

Boj SF, Hwang CI, Baker LA, Chio II, Engle DD, Corbo V, Jager M, Ponz-Sarvise M, Tiriac H, Spector MS, Gracanin A, Oni T, Yu KH, van Boxtel R, Huch M, Rivera KD, Wilson JP, Feigin ME, Öhlund D, Handly-Santana A, Ardito-Abraham CM, Ludwig M, Elyada E, Alagesan B, Biffi G, Yordanov GN, Delcuze B, Creighton B, Wright K, Park Y, Morsink FH, Molenaar IQ, Borel Rinkes IH, Cuppen E, Hao Y, Jin Y, Nijman IJ, Iacobuzio-Donahue C, Leach SD, Pappin DJ, Hammell M, Klimstra DS, Basturk O, Hruban RH, Offerhaus GJ, Vries RG, Clevers H, Tuveson DA.

Cell. 2015 Jan 15;160(1-2):324-38. doi: 10.1016/j.cell.2014.12.021. Epub 2014 Dec 31.

20.

Genome-wide analysis of leafbladeless1-regulated and phased small RNAs underscores the importance of the TAS3 ta-siRNA pathway to maize development.

Dotto MC, Petsch KA, Aukerman MJ, Beatty M, Hammell M, Timmermans MC.

PLoS Genet. 2014 Dec 11;10(12):e1004826. doi: 10.1371/journal.pgen.1004826. eCollection 2014 Dec.

21.

G-protein-coupled receptor GPR161 is overexpressed in breast cancer and is a promoter of cell proliferation and invasion.

Feigin ME, Xue B, Hammell MC, Muthuswamy SK.

Proc Natl Acad Sci U S A. 2014 Mar 18;111(11):4191-6. doi: 10.1073/pnas.1320239111. Epub 2014 Mar 5.

22.

An atlas of chromatoid body components.

Meikar O, Vagin VV, Chalmel F, Sõstar K, Lardenois A, Hammell M, Jin Y, Da Ros M, Wasik KA, Toppari J, Hannon GJ, Kotaja N.

RNA. 2014 Apr;20(4):483-95. doi: 10.1261/rna.043729.113. Epub 2014 Feb 19.

23.

Multiple roles for Piwi in silencing Drosophila transposons.

Rozhkov NV, Hammell M, Hannon GJ.

Genes Dev. 2013 Feb 15;27(4):400-12. doi: 10.1101/gad.209767.112. Epub 2013 Feb 7.

24.

Chd5 requires PHD-mediated histone 3 binding for tumor suppression.

Paul S, Kuo A, Schalch T, Vogel H, Joshua-Tor L, McCombie WR, Gozani O, Hammell M, Mills AA.

Cell Rep. 2013 Jan 31;3(1):92-102. doi: 10.1016/j.celrep.2012.12.009. Epub 2013 Jan 10.

25.

Transposable elements in TDP-43-mediated neurodegenerative disorders.

Li W, Jin Y, Prazak L, Hammell M, Dubnau J.

PLoS One. 2012;7(9):e44099. doi: 10.1371/journal.pone.0044099. Epub 2012 Sep 5.

26.

Effect of life history on microRNA expression during C. elegans development.

Karp X, Hammell M, Ow MC, Ambros V.

RNA. 2011 Apr;17(4):639-51. doi: 10.1261/rna.2310111. Epub 2011 Feb 22.

27.

Computational methods to identify miRNA targets.

Hammell M.

Semin Cell Dev Biol. 2010 Sep;21(7):738-44. doi: 10.1016/j.semcdb.2010.01.004. Epub 2010 Jan 15. Review.

28.

Immunopurification of Ago1 miRNPs selects for a distinct class of microRNA targets.

Hong X, Hammell M, Ambros V, Cohen SM.

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):15085-90. doi: 10.1073/pnas.0908149106. Epub 2009 Aug 18.

29.

Systematic analysis of dynamic miRNA-target interactions during C. elegans development.

Zhang L, Hammell M, Kudlow BA, Ambros V, Han M.

Development. 2009 Sep;136(18):3043-55. doi: 10.1242/dev.039008. Epub 2009 Aug 12.

30.

mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts.

Hammell M, Long D, Zhang L, Lee A, Carmack CS, Han M, Ding Y, Ambros V.

Nat Methods. 2008 Sep;5(9):813-9. doi: 10.1038/nmeth.1247.

31.

A C. elegans genome-scale microRNA network contains composite feedback motifs with high flux capacity.

Martinez NJ, Ow MC, Barrasa MI, Hammell M, Sequerra R, Doucette-Stamm L, Roth FP, Ambros VR, Walhout AJ.

Genes Dev. 2008 Sep 15;22(18):2535-49. doi: 10.1101/gad.1678608.

32.

The chemistry of the isomeric cytidylic acids; enzymic hydrolysis to cytidine.

LORING HS, HAMMELL ML, LEVY LW, BORTNER HW.

J Biol Chem. 1952 May;196(2):821-8. No abstract available.

33.

Preparation and properties of the isomeric cytidylic acids derived from yeast ribonucleic acid.

LORING HS, BORTNER HW, LEVY LW, HAMMELL ML.

J Biol Chem. 1952 May;196(2):807-19. No abstract available.

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