Emre Karakoc, Ph.D. - Publications

Affiliations: 
Genome Sciences University of Washington, Seattle, Seattle, WA 

26 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Lin YL, Pavlidis P, Karakoc E, Ajay J, Gokcumen O. The evolution and functional impact of human deletion variants shared with archaic hominin genomes. Molecular Biology and Evolution. 32: 1008-19. PMID 25556237 DOI: 10.1093/Molbev/Msu405  0.76
2014 Dao P, Numanagi? I, Lin YY, Hach F, Karakoc E, Donmez N, Collins C, Eichler EE, Sahinalp SC. ORMAN: optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms. Bioinformatics (Oxford, England). 30: 644-51. PMID 24130305 DOI: 10.1093/Bioinformatics/Btt591  0.76
2013 Krumm N, O'Roak BJ, Karakoc E, Mohajeri K, Nelson B, Vives L, Jacquemont S, Munson J, Bernier R, Eichler EE. Transmission disequilibrium of small CNVs in simplex autism. American Journal of Human Genetics. 93: 595-606. PMID 24035194 DOI: 10.1016/J.Ajhg.2013.07.024  0.76
2013 Korvatska O, Strand NS, Berndt JD, Strovas T, Chen DH, Leverenz JB, Kiianitsa K, Mata IF, Karakoc E, Greenup JL, Bonkowski E, Chuang J, Moon RT, Eichler EE, Nickerson DA, et al. Altered splicing of ATP6AP2 causes X-linked parkinsonism with spasticity (XPDS). Human Molecular Genetics. 22: 3259-68. PMID 23595882 DOI: 10.1093/Hmg/Ddt180  0.76
2012 Prüfer K, Munch K, Hellmann I, Akagi K, Miller JR, Walenz B, Koren S, Sutton G, Kodira C, Winer R, Knight JR, Mullikin JC, Meader SJ, Ponting CP, Lunter G, et al. The bonobo genome compared with the chimpanzee and human genomes. Nature. 486: 527-31. PMID 22722832 DOI: 10.1038/Nature11128  0.76
2012 O'Roak BJ, Vives L, Girirajan S, Karakoc E, Krumm N, Coe BP, Levy R, Ko A, Lee C, Smith JD, Turner EH, Stanaway IB, Vernot B, Malig M, Baker C, et al. Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations. Nature. 485: 246-50. PMID 22495309 DOI: 10.1038/Nature10989  0.76
2012 Scally A, Dutheil JY, Hillier LW, Jordan GE, Goodhead I, Herrero J, Hobolth A, Lappalainen T, Mailund T, Marques-Bonet T, McCarthy S, Montgomery SH, Schwalie PC, Tang YA, Ward MC, ... ... Karakoc E, et al. Insights into hominid evolution from the gorilla genome sequence. Nature. 483: 169-75. PMID 22398555 DOI: 10.1038/Nature10842  0.76
2012 Karakoc E, Alkan C, O'Roak BJ, Dennis MY, Vives L, Mark K, Rieder MJ, Nickerson DA, Eichler EE. Detection of structural variants and indels within exome data. Nature Methods. 9: 176-8. PMID 22179552 DOI: 10.1038/Nmeth.1810  0.76
2012 O'Roak BJ, Deriziotis P, Lee C, Vives L, Schwartz JJ, Girirajan S, Karakoc E, MacKenzie AP, Ng SB, Baker C, Rieder MJ, Nickerson DA, Bernier R, Fisher SE, Shendure J, et al. Corrigendum: Exome sequencing in sporadic autism spectrum disorders identifies severe de novo mutations (Nature Genetics (2011) 43, (585-589)) Nature Genetics. 44: 471. DOI: 10.1038/Ng0412-471  0.76
2011 O'Roak BJ, Deriziotis P, Lee C, Vives L, Schwartz JJ, Girirajan S, Karakoc E, Mackenzie AP, Ng SB, Baker C, Rieder MJ, Nickerson DA, Bernier R, Fisher SE, Shendure J, et al. Exome sequencing in sporadic autism spectrum disorders identifies severe de novo mutations. Nature Genetics. 43: 585-9. PMID 21572417 DOI: 10.1038/Ng.835  0.76
2011 Alipanahi B, Gao X, Karakoc E, Li SC, Balbach F, Feng G, Donaldson L, Li M. Error tolerant NMR backbone resonance assignment and automated structure generation. Journal of Bioinformatics and Computational Biology. 9: 15-41. PMID 21328705 DOI: 10.1142/S0219720011005276  0.76
2010 Disel U, Paydas S, Yavuz S, Karakoc E. Severe pulmonary toxicity associated with fludarabine and possible contribution of rituximab. Chemotherapy. 56: 89-93. PMID 20357439 DOI: 10.1159/000305255  0.76
2009 Satar S, Kayraldiz A, Rencuzogullari E, Karakoc E, Sebe A, Avci A, Yesilagac H, Topaktas M. The genotoxicity and cytotoxicity among patients diagnosed with organophosphate poisoning. Bratislavské LekáRske Listy. 110: 476-9. PMID 19750985  0.76
2009 Satar S, Seydaoglu G, Akpinar A, Sebe A, Karakoc E, Gumusay U, Yilmaz M, Gokel Y. Trends in acute adult poisoning in a ten-year period in Turkey: factors affecting the hazardous outcome. Bratislavské LekáRske Listy. 110: 404-11. PMID 19711826  0.76
2009 Alipanahi B, Gao X, Karakoc E, Donaldson L, Li M. PICKY: a novel SVD-based NMR spectra peak picking method. Bioinformatics (Oxford, England). 25: i268-75. PMID 19477998 DOI: 10.1093/Bioinformatics/Btp225  0.76
2009 Salari R, Aksay C, Karakoc E, Unrau PJ, Hajirasouliha I, Sahinalp SC. smyRNA: a novel Ab initio ncRNA gene finder. Plos One. 4: e5433. PMID 19415115 DOI: 10.1371/Journal.Pone.0005433  0.76
2008 Satar D, Satar S, Mete UO, Suchard JR, Topal M, Karakoc E, Kaya M. Ultrastructural changes in rat thyroid tissue after acute organophosphate poisoning and effects of antidotal therapy with atropine and pralidoxime: A single-blind, ex vivo study. Current Therapeutic Research, Clinical and Experimental. 69: 334-42. PMID 24692810 DOI: 10.1016/j.curtheres.2008.07.001  0.76
2008 Parsak CK, Seydaoglu G, Sakman G, Acarturk TO, Karakoc E, Hanta I, Alparslan AH, Satar S. Abdominal compartment syndrome: current problems and new strategies. World Journal of Surgery. 32: 13-9. PMID 18026790 DOI: 10.1007/s00268-007-9286-x  0.76
2008 Parsak CK, Acarturk TO, Karakoc E. The relationship between increased intra-abdominal pressure and morbid obesity World Journal of Surgery. 32: 2328. DOI: 10.1007/s00268-008-9682-x  0.76
2007 Karakoc E, Sahinalp SC, Cherkasov A. Comparative QSAR analysis of bacterial, fungal, plant and human metabolites. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 133-44. PMID 17990487  0.76
2007 Aksay C, Salari R, Karakoc E, Alkan C, Sahinalp SC. taveRNA: a web suite for RNA algorithms and applications. Nucleic Acids Research. 35: W325-9. PMID 17488837 DOI: 10.1093/Nar/Gkm303  0.76
2006 Karakoc E, Sahinalp SC, Cherkasov A. Comparative QSAR- and fragments distribution analysis of drugs, druglikes, metabolic substances, and antimicrobial compounds. Journal of Chemical Information and Modeling. 46: 2167-82. PMID 16995747 DOI: 10.1021/Ci0601517  0.76
2006 Karakoc E, Cherkasov A, Sahinalp SC. Distance based algorithms for small biomolecule classification and structural similarity search. Bioinformatics (Oxford, England). 22: e243-51. PMID 16873478 DOI: 10.1093/Bioinformatics/Btl259  0.76
2006 Alkan C, Karakoç E, Nadeau JH, Sahinalp SC, Zhang K. RNA-RNA interaction prediction and antisense RNA target search. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 13: 267-82. PMID 16597239 DOI: 10.1089/Cmb.2006.13.267  0.76
2006 Alkan C, Karakoc E, Cenk Sahinalp S, Unrau P, Alexander Ebhardt H, Zhang K, Buhler J. RNA secondary structure prediction via energy density minimization Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3909: 130-142. DOI: 10.1007/11732990_12  0.76
2005 Gurkan E, Baslamisli F, Guvenc B, Kilic NB, Unsal C, Karakoc E. Thrombotic thrombocytopenic purpura in southern Turkey: a single-center experience of 29 cases. Clinical and Laboratory Haematology. 27: 121-5. PMID 15784127 DOI: 10.1111/j.1365-2257.2005.00668.x  0.76
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