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Items: 19

1.

MiR-27a-3p and miR-124-3p, upregulated in endometrium and serum from women affected by Chronic Endometritis, are new potential molecular markers of endometrial receptivity.

Di Pietro C, Caruso S, Battaglia R, Iraci Sareri M, La Ferlita A, Strino F, Bonaventura G, Di Mauro M, Barcellona ML, Perciavalle V, Purrello M, Cianci A.

Am J Reprod Immunol. 2018 Sep;80(3):e12858. doi: 10.1111/aji.12858. Epub 2018 Apr 16.

PMID:
29663566
2.

Identifying peaks in *-seq data using shape information.

Strino F, Lappe M.

BMC Bioinformatics. 2016 Jun 6;17 Suppl 5:206. doi: 10.1186/s12859-016-1042-5.

3.

Comparative FAIRE-seq analysis reveals distinguishing features of the chromatin structure of ground state- and primed-pluripotent cells.

Murtha M, Strino F, Tokcaer-Keskin Z, Sumru Bayin N, Shalabi D, Xi X, Kluger Y, Dailey L.

Stem Cells. 2015 Feb;33(2):378-91. doi: 10.1002/stem.1871.

4.

FIREWACh: high-throughput functional detection of transcriptional regulatory modules in mammalian cells.

Murtha M, Tokcaer-Keskin Z, Tang Z, Strino F, Chen X, Wang Y, Xi X, Basilico C, Brown S, Bonneau R, Kluger Y, Dailey L.

Nat Methods. 2014 May;11(5):559-65. doi: 10.1038/nmeth.2885. Epub 2014 Mar 23.

5.

Ranking and combining multiple predictors without labeled data.

Parisi F, Strino F, Nadler B, Kluger Y.

Proc Natl Acad Sci U S A. 2014 Jan 28;111(4):1253-8. doi: 10.1073/pnas.1219097111. Epub 2014 Jan 13.

6.

TrAp: a tree approach for fingerprinting subclonal tumor composition.

Strino F, Parisi F, Micsinai M, Kluger Y.

Nucleic Acids Res. 2013 Sep;41(17):e165. doi: 10.1093/nar/gkt641. Epub 2013 Jul 27.

7.

Arpeggio: harmonic compression of ChIP-seq data reveals protein-chromatin interaction signatures.

Stanton KP, Parisi F, Strino F, Rabin N, Asp P, Kluger Y.

Nucleic Acids Res. 2013 Sep;41(16):e161. doi: 10.1093/nar/gkt627. Epub 2013 Jul 19.

8.

SFMBT1 functions with LSD1 to regulate expression of canonical histone genes and chromatin-related factors.

Zhang J, Bonasio R, Strino F, Kluger Y, Holloway JK, Modzelewski AJ, Cohen PE, Reinberg D.

Genes Dev. 2013 Apr 1;27(7):749-66. doi: 10.1101/gad.210963.112.

9.

Integrated analysis of tumor samples sheds light on tumor heterogeneity.

Parisi F, Micsinai M, Strino F, Ariyan S, Narayan D, Bacchiocchi A, Cheng E, Xu F, Li P, Kluger H, Halaban R, Kluger Y.

Yale J Biol Med. 2012 Sep;85(3):347-61. Epub 2012 Sep 25.

10.

Close proximity to Igh is a contributing factor to AID-mediated translocations.

Rocha PP, Micsinai M, Kim JR, Hewitt SL, Souza PP, Trimarchi T, Strino F, Parisi F, Kluger Y, Skok JA.

Mol Cell. 2012 Sep 28;47(6):873-85. doi: 10.1016/j.molcel.2012.06.036. Epub 2012 Aug 2.

11.

IL-7 functionally segregates the pro-B cell stage by regulating transcription of recombination mediators across cell cycle.

Johnson K, Chaumeil J, Micsinai M, Wang JM, Ramsey LB, Baracho GV, Rickert RC, Strino F, Kluger Y, Farrar MA, Skok JA.

J Immunol. 2012 Jun 15;188(12):6084-92. doi: 10.4049/jimmunol.1200368. Epub 2012 May 11.

12.

PCGF homologs, CBX proteins, and RYBP define functionally distinct PRC1 family complexes.

Gao Z, Zhang J, Bonasio R, Strino F, Sawai A, Parisi F, Kluger Y, Reinberg D.

Mol Cell. 2012 Feb 10;45(3):344-56. doi: 10.1016/j.molcel.2012.01.002.

13.

Picking ChIP-seq peak detectors for analyzing chromatin modification experiments.

Micsinai M, Parisi F, Strino F, Asp P, Dynlacht BD, Kluger Y.

Nucleic Acids Res. 2012 May;40(9):e70. doi: 10.1093/nar/gks048. Epub 2012 Feb 3.

14.

VDA, a method of choosing a better algorithm with fewer validations.

Strino F, Parisi F, Kluger Y.

PLoS One. 2011;6(10):e26074. doi: 10.1371/journal.pone.0026074. Epub 2011 Oct 12.

15.

Selenoglycosides in silico: ab initio-derived reparameterization of MM4, conformational analysis using histo-blood group ABH antigens and lectin docking as indication for potential of bioactivity.

Strino F, Lii JH, Koppisetty CA, Nyholm PG, Gabius HJ.

J Comput Aided Mol Des. 2010 Dec;24(12):1009-21. doi: 10.1007/s10822-010-9392-y. Epub 2010 Oct 26.

PMID:
20976527
16.

Computational studies on the interaction of ABO-active saccharides with the norovirus VA387 capsid protein can explain experimental binding data.

Koppisetty CA, Nasir W, Strino F, Rydell GE, Larson G, Nyholm PG.

J Comput Aided Mol Des. 2010 May;24(5):423-31. doi: 10.1007/s10822-010-9353-5. Epub 2010 Apr 21.

PMID:
20407802
17.

Conformational analysis of thioglycoside derivatives of histo-blood group ABH antigens using an ab initio-derived reparameterization of MM4: implications for design of non-hydrolysable mimetics.

Strino F, Lii JH, Gabius HJ, Nyholm PG.

J Comput Aided Mol Des. 2009 Dec;23(12):845-52. doi: 10.1007/s10822-009-9301-4. Epub 2009 Sep 15.

PMID:
19757090
18.

The use of a genetic algorithm search for molecular mechanics (MM3)-based conformational analysis of oligosaccharides.

Nahmany A, Strino F, Rosen J, Kemp GJ, Nyholm PG.

Carbohydr Res. 2005 Apr 11;340(5):1059-64.

PMID:
15780270
19.

Conformation of the exopolysaccharide of Burkholderia cepacia predicted with molecular mechanics (MM3) using genetic algorithm search.

Strino F, Nahmany A, Rosen J, Kemp GJ, Sá-correia I, Nyholm PG.

Carbohydr Res. 2005 Apr 11;340(5):1019-24.

PMID:
15780266

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