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Results: 8

1.

Cytoplasmic intron retention, function, splicing, and the sentinel RNA hypothesis.

Buckley PT, Khaladkar M, Kim J, Eberwine J.

Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):223-30. doi: 10.1002/wrna.1203. Epub 2013 Nov 4.

PMID:
24190870
[PubMed - in process]
2.

Subcellular RNA sequencing reveals broad presence of cytoplasmic intron-sequence retaining transcripts in mouse and rat neurons.

Khaladkar M, Buckley PT, Lee MT, Francis C, Eghbal MM, Chuong T, Suresh S, Kuhn B, Eberwine J, Kim J.

PLoS One. 2013 Oct 3;8(10):e76194. doi: 10.1371/journal.pone.0076194. eCollection 2013.

PMID:
24098440
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Functional divergence of gene duplicates - a domain-centric view.

Khaladkar M, Hannenhalli S.

BMC Evol Biol. 2012 Jul 27;12:126. doi: 10.1186/1471-2148-12-126.

PMID:
22839301
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A method for discovering common patterns from two RNA secondary structures and its application to structural repeat detection.

Hua L, Wang JT, Ji X, Malhotra A, Khaladkar M, Shapiro BA, Zhang K.

J Bioinform Comput Biol. 2012 Aug;10(4):1250001. doi: 10.1142/S0219720012500011. Epub 2012 Jun 22.

PMID:
22809414
[PubMed - indexed for MEDLINE]
5.

Epigenomic and RNA structural correlates of polyadenylation.

Khaladkar M, Smyda M, Hannenhalli S.

RNA Biol. 2011 May-Jun;8(3):529-37. Epub 2011 May 1.

PMID:
21508683
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Detecting conserved secondary structures in RNA molecules using constrained structural alignment.

Khaladkar M, Patel V, Bellofatto V, Wilusz J, Wang JT.

Comput Biol Chem. 2008 Aug;32(4):264-72. doi: 10.1016/j.compbiolchem.2008.03.013. Epub 2008 Apr 8.

PMID:
18472302
[PubMed - indexed for MEDLINE]
7.

Mining small RNA structure elements in untranslated regions of human and mouse mRNAs using structure-based alignment.

Khaladkar M, Liu J, Wen D, Wang JT, Tian B.

BMC Genomics. 2008 Apr 25;9:189. doi: 10.1186/1471-2164-9-189.

PMID:
18439287
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

RADAR: a web server for RNA data analysis and research.

Khaladkar M, Bellofatto V, Wang JT, Tian B, Shapiro BA.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W300-4. Epub 2007 May 21.

PMID:
17517784
[PubMed - indexed for MEDLINE]
Free PMC Article

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