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Items: 36

1.

SERPINA1 gene polymorphisms in a population-based ALSPAC cohort.

DeLuca DS, Poluzioroviene E, Taminskiene V, Wrenger S, Utkus A, Valiulis A, Alasevičius T, Henderson J, Bush A, Welte T, Janciauskiene S, Valiulis A.

Pediatr Pulmonol. 2019 Sep;54(9):1474-1478. doi: 10.1002/ppul.24422. Epub 2019 Jul 12.

PMID:
31298815
2.

Serum Levels of Alpha1-antitrypsin and Their Relationship With COPD in the General Spanish Population.

Janciauskiene S, DeLuca DS, Barrecheguren M, Welte T, Miravitlles M; Scientific Committee; Participating sites and coordinators.

Arch Bronconeumol. 2019 May 29. pii: S0300-2896(19)30112-7. doi: 10.1016/j.arbres.2019.03.001. [Epub ahead of print] English, Spanish.

3.

Complications and risk factors in pediatric bronchoscopy in a tertiary pediatric respiratory center.

Carlens J, Fuge J, Price T, DeLuca DS, Price M, Hansen G, Schwerk N.

Pediatr Pulmonol. 2018 May;53(5):619-627. doi: 10.1002/ppul.23957. Epub 2018 Feb 2.

PMID:
29393584
4.

Transcriptomic Characterization of SF3B1 Mutation Reveals Its Pleiotropic Effects in Chronic Lymphocytic Leukemia.

Wang L, Brooks AN, Fan J, Wan Y, Gambe R, Li S, Hergert S, Yin S, Freeman SS, Levin JZ, Fan L, Seiler M, Buonamici S, Smith PG, Chau KF, Cibulskis CL, Zhang W, Rassenti LZ, Ghia EM, Kipps TJ, Fernandes S, Bloch DB, Kotliar D, Landau DA, Shukla SA, Aster JC, Reed R, DeLuca DS, Brown JR, Neuberg D, Getz G, Livak KJ, Meyerson MM, Kharchenko PV, Wu CJ.

Cancer Cell. 2016 Nov 14;30(5):750-763. doi: 10.1016/j.ccell.2016.10.005. Epub 2016 Nov 3.

5.

Filtration and Normalization of Sequencing Read Data in Whole-Metagenome Shotgun Samples.

Chouvarine P, Wiehlmann L, Moran Losada P, DeLuca DS, Tümmler B.

PLoS One. 2016 Oct 19;11(10):e0165015. doi: 10.1371/journal.pone.0165015. eCollection 2016.

6.

A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project.

Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET, Guan P, Korzeniewski GE, Lockhart NC, Rabiner CA, Rao AK, Robinson KL, Roche NV, Sawyer SJ, Segrè AV, Shive CE, Smith AM, Sobin LH, Undale AH, Valentino KM, Vaught J, Young TR, Moore HM; GTEx Consortium.

Biopreserv Biobank. 2015 Oct;13(5):311-9. doi: 10.1089/bio.2015.0032.

7.

Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.

Rivas MA, Pirinen M, Conrad DF, Lek M, Tsang EK, Karczewski KJ, Maller JB, Kukurba KR, DeLuca DS, Fromer M, Ferreira PG, Smith KS, Zhang R, Zhao F, Banks E, Poplin R, Ruderfer DM, Purcell SM, Tukiainen T, Minikel EV, Stenson PD, Cooper DN, Huang KH, Sullivan TJ, Nedzel J; GTEx Consortium; Geuvadis Consortium, Bustamante CD, Li JB, Daly MJ, Guigo R, Donnelly P, Ardlie K, Sammeth M, Dermitzakis ET, McCarthy MI, Montgomery SB, Lappalainen T, MacArthur DG.

Science. 2015 May 8;348(6235):666-9. doi: 10.1126/science.1261877.

8.

Human genomics. The human transcriptome across tissues and individuals.

Melé M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ, Johnson R, Segrè AV, Djebali S, Niarchou A; GTEx Consortium, Wright FA, Lappalainen T, Calvo M, Getz G, Dermitzakis ET, Ardlie KG, Guigó R.

Science. 2015 May 8;348(6235):660-5. doi: 10.1126/science.aaa0355.

9.

Complementary genomic approaches highlight the PI3K/mTOR pathway as a common vulnerability in osteosarcoma.

Perry JA, Kiezun A, Tonzi P, Van Allen EM, Carter SL, Baca SC, Cowley GS, Bhatt AS, Rheinbay E, Pedamallu CS, Helman E, Taylor-Weiner A, McKenna A, DeLuca DS, Lawrence MS, Ambrogio L, Sougnez C, Sivachenko A, Walensky LD, Wagle N, Mora J, de Torres C, Lavarino C, Dos Santos Aguiar S, Yunes JA, Brandalise SR, Mercado-Celis GE, Melendez-Zajgla J, Cárdenas-Cardós R, Velasco-Hidalgo L, Roberts CW, Garraway LA, Rodriguez-Galindo C, Gabriel SB, Lander ES, Golub TR, Orkin SH, Getz G, Janeway KA.

Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):E5564-73. doi: 10.1073/pnas.1419260111. Epub 2014 Dec 15.

10.

Human leukocyte antigen typing using a knowledge base coupled with a high-throughput oligonucleotide probe array analysis.

Zhang GL, Keskin DB, Lin HN, Lin HH, DeLuca DS, Leppanen S, Milford EL, Reinherz EL, Brusic V.

Front Immunol. 2014 Nov 27;5:597. doi: 10.3389/fimmu.2014.00597. eCollection 2014.

11.

SOX2 and p63 colocalize at genetic loci in squamous cell carcinomas.

Watanabe H, Ma Q, Peng S, Adelmant G, Swain D, Song W, Fox C, Francis JM, Pedamallu CS, DeLuca DS, Brooks AN, Wang S, Que J, Rustgi AK, Wong KK, Ligon KL, Liu XS, Marto JA, Meyerson M, Bass AJ.

J Clin Invest. 2014 Apr;124(4):1636-45. doi: 10.1172/JCI71545. Epub 2014 Mar 3.

12.

A pan-cancer analysis of transcriptome changes associated with somatic mutations in U2AF1 reveals commonly altered splicing events.

Brooks AN, Choi PS, de Waal L, Sharifnia T, Imielinski M, Saksena G, Pedamallu CS, Sivachenko A, Rosenberg M, Chmielecki J, Lawrence MS, DeLuca DS, Getz G, Meyerson M.

PLoS One. 2014 Jan 31;9(1):e87361. doi: 10.1371/journal.pone.0087361. eCollection 2014.

13.

Comparative analysis of RNA sequencing methods for degraded or low-input samples.

Adiconis X, Borges-Rivera D, Satija R, DeLuca DS, Busby MA, Berlin AM, Sivachenko A, Thompson DA, Wysoker A, Fennell T, Gnirke A, Pochet N, Regev A, Levin JZ.

Nat Methods. 2013 Jul;10(7):623-9. doi: 10.1038/nmeth.2483. Epub 2013 May 19. Erratum in: Nat Methods. 2014 Feb;11(2):210.

14.

Mutated BCR-ABL generates immunogenic T-cell epitopes in CML patients.

Cai A, Keskin DB, DeLuca DS, Alonso A, Zhang W, Zhang GL, Hammond NN, Nardi V, Stone RM, Neuberg D, Sidney J, Brusic V, Wu CJ.

Clin Cancer Res. 2012 Oct 15;18(20):5761-72. doi: 10.1158/1078-0432.CCR-12-1182. Epub 2012 Aug 21.

15.

RNA-SeQC: RNA-seq metrics for quality control and process optimization.

DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G.

Bioinformatics. 2012 Jun 1;28(11):1530-2. doi: 10.1093/bioinformatics/bts196. Epub 2012 Apr 25.

16.

PB1-F2 Finder: scanning influenza sequences for PB1-F2 encoding RNA segments.

DeLuca DS, Keskin DB, Zhang GL, Reinherz EL, Brusic V.

BMC Bioinformatics. 2011;12 Suppl 13:S6. doi: 10.1186/1471-2105-12-S13-S6. Epub 2011 Nov 30.

17.

SF3B1 and other novel cancer genes in chronic lymphocytic leukemia.

Wang L, Lawrence MS, Wan Y, Stojanov P, Sougnez C, Stevenson K, Werner L, Sivachenko A, DeLuca DS, Zhang L, Zhang W, Vartanov AR, Fernandes SM, Goldstein NR, Folco EG, Cibulskis K, Tesar B, Sievers QL, Shefler E, Gabriel S, Hacohen N, Reed R, Meyerson M, Golub TR, Lander ES, Neuberg D, Brown JR, Getz G, Wu CJ.

N Engl J Med. 2011 Dec 29;365(26):2497-506. doi: 10.1056/NEJMoa1109016. Epub 2011 Dec 12.

18.

Database resources for proteomics-based analysis of cancer.

Zhang GL, DeLuca DS, Brusic V.

Methods Mol Biol. 2011;723:349-64. doi: 10.1007/978-1-61779-043-0_22. Review.

PMID:
21370076
19.

Data processing and analysis for protein microarrays.

DeLuca DS, Marina O, Ray S, Zhang GL, Wu CJ, Brusic V.

Methods Mol Biol. 2011;723:337-47. doi: 10.1007/978-1-61779-043-0_21.

PMID:
21370075
20.

MULTIPRED2: a computational system for large-scale identification of peptides predicted to bind to HLA supertypes and alleles.

Zhang GL, DeLuca DS, Keskin DB, Chitkushev L, Zlateva T, Lund O, Reinherz EL, Brusic V.

J Immunol Methods. 2011 Nov 30;374(1-2):53-61. doi: 10.1016/j.jim.2010.11.009. Epub 2010 Dec 2.

21.

Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis.

Karp DR, Marthandan N, Marsh SG, Ahn C, Arnett FC, Deluca DS, Diehl AD, Dunivin R, Eilbeck K, Feolo M, Guidry PA, Helmberg W, Lewis S, Mayes MD, Mungall C, Natale DA, Peters B, Petersdorf E, Reveille JD, Smith B, Thomson G, Waller MJ, Scheuermann RH.

Hum Mol Genet. 2010 Feb 15;19(4):707-19. doi: 10.1093/hmg/ddp521. Epub 2009 Nov 18.

22.

High-throughput minor histocompatibility antigen prediction.

DeLuca DS, Eiz-Vesper B, Ladas N, Khattab BA, Blasczyk R.

Bioinformatics. 2009 Sep 15;25(18):2411-7. doi: 10.1093/bioinformatics/btp404. Epub 2009 Jul 1.

PMID:
19570803
23.

MaHCO: an ontology of the major histocompatibility complex for immunoinformatic applications and text mining.

DeLuca DS, Beisswanger E, Wermter J, Horn PA, Hahn U, Blasczyk R.

Bioinformatics. 2009 Aug 15;25(16):2064-70. doi: 10.1093/bioinformatics/btp306. Epub 2009 May 7.

PMID:
19429601
24.

An ontology for major histocompatibility complex (MHC) alleles and molecules.

Beisswanger E, DeLuca DS, Blasczyk R, Hahn U.

AMIA Annu Symp Proc. 2007 Oct 11:41-5.

25.

Aberrant intracellular trafficking of a variant B glycosyltransferase.

Seltsam A, Grüger D, Just B, Figueiredo C, Gupta CD, Deluca DS, Blasczyk R.

Transfusion. 2008 Sep;48(9):1898-905. doi: 10.1111/j.1537-2995.2008.01782.x. Epub 2008 May 29.

PMID:
18513251
26.

HistoCheck. Evaluating structural and functional MHC similarities.

DeLuca DS, Blasczyk R.

Methods Mol Biol. 2007;409:395-405.

PMID:
18450018
27.

Implementing the modular MHC model for predicting peptide binding.

DeLuca DS, Blasczyk R.

Methods Mol Biol. 2007;409:261-71. doi: 10.1007/978-1-60327-118-9_18.

PMID:
18450006
28.

The immunoinformatics of cancer immunotherapy.

Deluca DS, Blasczyk R.

Tissue Antigens. 2007 Oct;70(4):265-71. Review.

PMID:
17767547
29.

The nature of recombination in HLA-B*4207.

Eiz-Vesper B, Deluca DS, Blasczyk R, Horn PA.

Tissue Antigens. 2007 Aug;70(2):164-8.

PMID:
17610423
30.

Amino acid 95 causes strong alteration of peptide position Pomega in HLA-B*41 variants.

Bade-Doeding C, DeLuca DS, Seltsam A, Blasczyk R, Eiz-Vesper B.

Immunogenetics. 2007 Apr;59(4):253-9. Epub 2007 Feb 10.

PMID:
17294180
31.

The molecular diversity of Sema7A, the semaphorin that carries the JMH blood group antigens.

Seltsam A, Strigens S, Levene C, Yahalom V, Moulds M, Moulds JJ, Hustinx H, Weisbach V, Figueroa D, Bade-Doeding C, DeLuca DS, Blasczyk R.

Transfusion. 2007 Jan;47(1):133-46.

PMID:
17207242
32.

A modular concept of HLA for comprehensive peptide binding prediction.

DeLuca DS, Khattab B, Blasczyk R.

Immunogenetics. 2007 Jan;59(1):25-35. Epub 2006 Nov 22.

PMID:
17119951
33.

The replacement mutation in HLA-DRB1*1211 affects a likely keystone position.

Horn PA, DeLuca DS, Jindra P, Blasczyk R.

Hum Immunol. 2005 Dec;66(12):1254-7. Epub 2006 Mar 20.

PMID:
16690413
34.

Identification of two new HLA-A variants, HLA-A*2911 and HLA-A*6827.

Alkharsah KR, Dedicoat M, DeLuca DS, Schulz TF, Blasczyk R.

Tissue Antigens. 2006 Feb;67(2):170-2. No abstract available.

PMID:
16441495
35.

An amino acid contributing to pockets A, B, and D of the peptide-binding groove is altered in A*0315.

Horn PA, DeLuca DS, Blasczyk R.

Tissue Antigens. 2005 Dec;66(6):703-4. No abstract available.

PMID:
16305690
36.

Peptide-binding characteristics of the novel allele DRB1*0112 are probably identical to DRB1*0101.

Horn PA, DeLuca DS, Mueller K, Blasczyk R.

Tissue Antigens. 2005 May;65(5):505-6.

PMID:
15853910

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