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Items: 1 to 50 of 53

1.

Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment.

Liu H, Zhang CH, Ammanamanchi N, Suresh S, Lewarchik C, Rao K, Uys GM, Han L, Abrial M, Yimlamai D, Ganapathy B, Guillermier C, Chen N, Khaladkar M, Spaethling J, Eberwine JH, Kim J, Walsh S, Choudhury S, Little K, Francis K, Sharma M, Viegas M, Bais A, Kostka D, Ding J, Bar-Joseph Z, Wu Y, Yechoor V, Moulik M, Johnson J, Weinberg J, Reyes-Múgica M, Steinhauser ML, Kühn B.

Sci Transl Med. 2019 Oct 9;11(513). pii: eaaw6419. doi: 10.1126/scitranslmed.aaw6419.

PMID:
31597755
2.

Large-scale inference of competing endogenous RNA networks with sparse partial correlation.

List M, Dehghani Amirabad A, Kostka D, Schulz MH.

Bioinformatics. 2019 Jul 15;35(14):i596-i604. doi: 10.1093/bioinformatics/btz314.

3.

scds: Computational Annotation of Doublets in Single-Cell RNA Sequencing Data.

Bais AS, Kostka D.

Bioinformatics. 2019 Sep 10. pii: btz698. doi: 10.1093/bioinformatics/btz698. [Epub ahead of print]

PMID:
31501871
4.

Genome-wide enhancer annotations differ significantly in genomic distribution, evolution, and function.

Benton ML, Talipineni SC, Kostka D, Capra JA.

BMC Genomics. 2019 Jun 20;20(1):511. doi: 10.1186/s12864-019-5779-x.

5.

Von Hippel-Lindau Acts as a Metabolic Switch Controlling Nephron Progenitor Differentiation.

Cargill K, Hemker SL, Clugston A, Murali A, Mukherjee E, Liu J, Bushnell D, Bodnar AJ, Saifudeen Z, Ho J, Bates CM, Kostka D, Goetzman ES, Sims-Lucas S.

J Am Soc Nephrol. 2019 Jul;30(7):1192-1205. doi: 10.1681/ASN.2018111170. Epub 2019 May 29.

PMID:
31142573
6.

Loss of miR-17~92 results in dysregulation of Cftr in nephron progenitors.

Phua YL, Chen KH, Hemker SL, Marrone AK, Bodnar AJ, Liu X, Clugston A, Kostka D, Butterworth MB, Ho J.

Am J Physiol Renal Physiol. 2019 May 1;316(5):F993-F1005. doi: 10.1152/ajprenal.00450.2018. Epub 2019 Mar 6.

PMID:
30838872
7.

Small non-coding RNA expression in mouse nephrogenic mesenchymal progenitors.

Phua YL, Clugston A, Chen KH, Kostka D, Ho J.

Sci Data. 2018 Nov 13;5:180218. doi: 10.1038/sdata.2018.218.

8.

Random forest based similarity learning for single cell RNA sequencing data.

Pouyan MB, Kostka D.

Bioinformatics. 2018 Jul 1;34(13):i79-i88. doi: 10.1093/bioinformatics/bty260.

9.

Developmental Loci Harbor Clusters of Accelerated Regions That Evolved Independently in Ape Lineages.

Kostka D, Holloway AK, Pollard KS.

Mol Biol Evol. 2018 Aug 1;35(8):2034-2045. doi: 10.1093/molbev/msy109.

10.

The complex genetics of hypoplastic left heart syndrome.

Liu X, Yagi H, Saeed S, Bais AS, Gabriel GC, Chen Z, Peterson KA, Li Y, Schwartz MC, Reynolds WT, Saydmohammed M, Gibbs B, Wu Y, Devine W, Chatterjee B, Klena NT, Kostka D, de Mesy Bentley KL, Ganapathiraju MK, Dexheimer P, Leatherbury L, Khalifa O, Bhagat A, Zahid M, Pu W, Watkins S, Grossfeld P, Murray SA, Porter GA Jr, Tsang M, Martin LJ, Benson DW, Aronow BJ, Lo CW.

Nat Genet. 2017 Jul;49(7):1152-1159. doi: 10.1038/ng.3870. Epub 2017 May 22.

11.

Correction: DAF-16 and TCER-1 Facilitate Adaptation to Germline Loss by Restoring Lipid Homeostasis and Repressing Reproductive Physiology in C. elegans.

Amrit FR, Steenkiste EM, Ratnappan R, Chen SW, McClendon TB, Kostka D, Yanowitz J, Olsen CP, Ghazi A.

PLoS Genet. 2016 Oct 7;12(10):e1006381. doi: 10.1371/journal.pgen.1006381. eCollection 2016 Oct.

12.

DAF-16 and TCER-1 Facilitate Adaptation to Germline Loss by Restoring Lipid Homeostasis and Repressing Reproductive Physiology in C. elegans.

Amrit FR, Steenkiste EM, Ratnappan R, Chen SW, McClendon TB, Kostka D, Yanowitz J, Olsen CP, Ghazi A.

PLoS Genet. 2016 Feb 10;12(2):e1005788. doi: 10.1371/journal.pgen.1005788. eCollection 2016 Feb. Erratum in: PLoS Genet. 2016 Oct 7;12 (10 ):e1006381.

13.
14.

Gibbon genome and the fast karyotype evolution of small apes.

Carbone L, Harris RA, Gnerre S, Veeramah KR, Lorente-Galdos B, Huddleston J, Meyer TJ, Herrero J, Roos C, Aken B, Anaclerio F, Archidiacono N, Baker C, Barrell D, Batzer MA, Beal K, Blancher A, Bohrson CL, Brameier M, Campbell MS, Capozzi O, Casola C, Chiatante G, Cree A, Damert A, de Jong PJ, Dumas L, Fernandez-Callejo M, Flicek P, Fuchs NV, Gut I, Gut M, Hahn MW, Hernandez-Rodriguez J, Hillier LW, Hubley R, Ianc B, Izsvák Z, Jablonski NG, Johnstone LM, Karimpour-Fard A, Konkel MK, Kostka D, Lazar NH, Lee SL, Lewis LR, Liu Y, Locke DP, Mallick S, Mendez FL, Muffato M, Nazareth LV, Nevonen KA, O'Bleness M, Ochis C, Odom DT, Pollard KS, Quilez J, Reich D, Rocchi M, Schumann GG, Searle S, Sikela JM, Skollar G, Smit A, Sonmez K, ten Hallers B, Terhune E, Thomas GW, Ullmer B, Ventura M, Walker JA, Wall JD, Walter L, Ward MC, Wheelan SJ, Whelan CW, White S, Wilhelm LJ, Woerner AE, Yandell M, Zhu B, Hammer MF, Marques-Bonet T, Eichler EE, Fulton L, Fronick C, Muzny DM, Warren WC, Worley KC, Rogers J, Wilson RK, Gibbs RA.

Nature. 2014 Sep 11;513(7517):195-201. doi: 10.1038/nature13679.

15.

Modeling DNA methylation dynamics with approaches from phylogenetics.

Capra JA, Kostka D.

Bioinformatics. 2014 Sep 1;30(17):i408-14. doi: 10.1093/bioinformatics/btu445.

16.

Integrating diverse datasets improves developmental enhancer prediction.

Erwin GD, Oksenberg N, Truty RM, Kostka D, Murphy KK, Ahituv N, Pollard KS, Capra JA.

PLoS Comput Biol. 2014 Jun 26;10(6):e1003677. doi: 10.1371/journal.pcbi.1003677. eCollection 2014 Jun.

17.

MicroRNA-17~92 is required for nephrogenesis and renal function.

Marrone AK, Stolz DB, Bastacky SI, Kostka D, Bodnar AJ, Ho J.

J Am Soc Nephrol. 2014 Jul;25(7):1440-52. doi: 10.1681/ASN.2013040390. Epub 2014 Feb 7.

18.

A model-based analysis of GC-biased gene conversion in the human and chimpanzee genomes.

Capra JA, Hubisz MJ, Kostka D, Pollard KS, Siepel A.

PLoS Genet. 2013;9(8):e1003684. doi: 10.1371/journal.pgen.1003684. Epub 2013 Aug 15.

19.

The role of GC-biased gene conversion in shaping the fastest evolving regions of the human genome.

Kostka D, Hubisz MJ, Siepel A, Pollard KS.

Mol Biol Evol. 2012 Mar;29(3):1047-57. doi: 10.1093/molbev/msr279. Epub 2011 Nov 10.

20.

A high-resolution map of human evolutionary constraint using 29 mammals.

Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward LD, Lowe CB, Holloway AK, Clamp M, Gnerre S, Alföldi J, Beal K, Chang J, Clawson H, Cuff J, Di Palma F, Fitzgerald S, Flicek P, Guttman M, Hubisz MJ, Jaffe DB, Jungreis I, Kent WJ, Kostka D, Lara M, Martins AL, Massingham T, Moltke I, Raney BJ, Rasmussen MD, Robinson J, Stark A, Vilella AJ, Wen J, Xie X, Zody MC; Broad Institute Sequencing Platform and Whole Genome Assembly Team, Baldwin J, Bloom T, Chin CW, Heiman D, Nicol R, Nusbaum C, Young S, Wilkinson J, Worley KC, Kovar CL, Muzny DM, Gibbs RA; Baylor College of Medicine Human Genome Sequencing Center Sequencing Team, Cree A, Dihn HH, Fowler G, Jhangiani S, Joshi V, Lee S, Lewis LR, Nazareth LV, Okwuonu G, Santibanez J, Warren WC, Mardis ER, Weinstock GM, Wilson RK; Genome Institute at Washington University, Delehaunty K, Dooling D, Fronik C, Fulton L, Fulton B, Graves T, Minx P, Sodergren E, Birney E, Margulies EH, Herrero J, Green ED, Haussler D, Siepel A, Goldman N, Pollard KS, Pedersen JS, Lander ES, Kellis M.

Nature. 2011 Oct 12;478(7370):476-82. doi: 10.1038/nature10530.

21.

Noncoding sequences near duplicated genes evolve rapidly.

Kostka D, Hahn MW, Pollard KS.

Genome Biol Evol. 2010;2:518-33. doi: 10.1093/gbe/evq037. Epub 2010 Jun 29.

22.

The importance of being cis: evolution of orthologous fish and mammalian enhancer activity.

Ritter DI, Li Q, Kostka D, Pollard KS, Guo S, Chuang JH.

Mol Biol Evol. 2010 Oct;27(10):2322-32. doi: 10.1093/molbev/msq128. Epub 2010 May 21.

23.

Regulatory networks define phenotypic classes of human stem cell lines.

Müller FJ, Laurent LC, Kostka D, Ulitsky I, Williams R, Lu C, Park IH, Rao MS, Shamir R, Schwartz PH, Schmidt NO, Loring JF.

Nature. 2008 Sep 18;455(7211):401-5. doi: 10.1038/nature07213. Epub 2008 Aug 24.

24.

Analyzing gene perturbation screens with nested effects models in R and bioconductor.

Fröhlich H, Beissbarth T, Tresch A, Kostka D, Jacob J, Spang R, Markowetz F.

Bioinformatics. 2008 Nov 1;24(21):2549-50. doi: 10.1093/bioinformatics/btn446. Epub 2008 Aug 21.

25.

Computational diagnostics with gene expression profiles.

Lottaz C, Kostka D, Markowetz F, Spang R.

Methods Mol Biol. 2008;453:281-96. doi: 10.1007/978-1-60327-429-6_15.

PMID:
18712310
26.

Detecting hierarchical structure in molecular characteristics of disease using transitive approximations of directed graphs.

Jacob J, Jentsch M, Kostka D, Bentink S, Spang R.

Bioinformatics. 2008 Apr 1;24(7):995-1001. doi: 10.1093/bioinformatics/btn056. Epub 2008 Feb 19.

PMID:
18285370
27.

Microarray based diagnosis profits from better documentation of gene expression signatures.

Kostka D, Spang R.

PLoS Comput Biol. 2008 Feb;4(2):e22. doi: 10.1371/journal.pcbi.0040022.

28.

A physical model for tiling array analysis.

Chung HR, Kostka D, Vingron M.

Bioinformatics. 2007 Jul 1;23(13):i80-6.

PMID:
17646349
29.

Nested effects models for high-dimensional phenotyping screens.

Markowetz F, Kostka D, Troyanskaya OG, Spang R.

Bioinformatics. 2007 Jul 1;23(13):i305-12.

PMID:
17646311
30.

Expression of late cell cycle genes and an increased proliferative capacity characterize very early relapse of childhood acute lymphoblastic leukemia.

Kirschner-Schwabe R, Lottaz C, Tödling J, Rhein P, Karawajew L, Eckert C, von Stackelberg A, Ungethüm U, Kostka D, Kulozik AE, Ludwig WD, Henze G, Spang R, Hagemeier C, Seeger K.

Clin Cancer Res. 2006 Aug 1;12(15):4553-61.

31.

Finding disease specific alterations in the co-expression of genes.

Kostka D, Spang R.

Bioinformatics. 2004 Aug 4;20 Suppl 1:i194-9.

PMID:
15262799
32.

In vitro LH release from the hypothalamus-pars tuberalis; effects of gonadotropin-releasing hormone (GnRH), beta-endorphin and biogenic amines.

Emanuele NV, Wallock L, Baker G, Kostka D, Kirsteins L, Lawrence AM.

Endocr Res. 1987;13(3):251-66.

PMID:
2962855
33.

Hypothalamic luteinizing hormone increases dramatically following intracerebroventricular injection of colchicine.

Emanuele NV, Kostka D, Wallock L, Kirsteins L, Lawrence AM.

Neuroendocrinology. 1985 Dec;41(6):526-8.

PMID:
4080092
34.

[Spondylo-polyepiphyseal dystrophy].

Niepel G, Horváth G, Kostka D, Vitulová V, Votava L.

Bratisl Lek Listy. 1971;55(2):254-8. Slovak. No abstract available.

PMID:
5101368
35.

[Dysostosis epiphysaria peripherica].

Niepel G, Kostka D.

Fysiatr Revmatol Vestn. 1969 Apr;47(2):69-72. Slovak. No abstract available.

PMID:
5813752
36.

[Esophageal dysperistalsis in progressive scleroderma, progressive polyarthritis and other collagenoses].

Niepel G, Kostka D, Manca S.

Bratisl Lek Listy. 1966 Oct 31;46(8):498-503. Slovak. No abstract available.

PMID:
5981239
37.

[The incidence of cervical vertebrae and shoulder joint lesions in patients with spondylitis ankylopoetica].

Horváth G, Kostka D, Skodácek P.

Z Rheumaforsch. 1966 Aug;25(7):258-64. German. No abstract available.

PMID:
6011666
38.

[Nearthrosis apicoarcualis with a vacuum phenomenon].

Niepel G, Kostka D.

Cesk Radiol. 1966 Jun;20(4):282-4. Slovak. No abstract available.

PMID:
5947628
39.

[Analysis of the involvement of the cervical spine and the humeral joints in patients with Bechterew's disease].

Horváth G, Kostka D, Skodácek P.

Fysiatr Revmatol Vestn. 1966 Mar;44(2):72-7. Slovak. No abstract available.

PMID:
5948949
40.

[Baastrup's nearthrosis with vaccum phenomenon].

Niepel G, Kostka D.

Fysiatr Revmatol Vestn. 1965 Aug;43(4):223-6. Slovak. No abstract available.

PMID:
5891158
41.

[THE VACUUM PHENOMENON IN APICAL-ARCH NEARTHROSIS].

KOSTKA D, NIEPEL G.

Fortschr Geb Rontgenstr Nuklearmed. 1965 Jun;102:720-1. German. No abstract available.

PMID:
14308964
42.

[FOREIGN BODY IN THE GALLBLADDER].

KOSTKA D, KOCHAN J.

Cesk Rentgenol. 1965 Mar;19:142-4. Czech. No abstract available.

PMID:
14334091
43.

[THE PREVALENCE OF THE VACUUM PHENOMENON AND ITS PATHOGNOMONIC IMPORTANCE IN OCHRONOTIC DISKOPATHY].

KOSTKA D, SITAJ S, NIEPEL G.

Fortschr Geb Rontgenstr Nuklearmed. 1965 Jan;102:62-8. German. No abstract available.

PMID:
14271250
44.

[APROPOS OF THE INCIDENCE OF PROGRESSIVE ARTHRITIS. (EPIDEMIOLOGICAL STUDY)].

SITAJ S, NIEPEL G, SEBO M, KOSTKA D, TRNAVSKY K, SIPOS J.

Bratisl Lek Listy. 1964;2:16-24. Czech. No abstract available.

PMID:
14167437
45.

[Roentgenological aspect in evaluating the therapeutic effect in rheumatoid arthritis].

NIEPEL G, KOSTKA D.

Z Gesamte Inn Med. 1963 Apr 15;18:360-3. German. No abstract available.

PMID:
13938547
46.

[The pathogenesis of pseudo-Charcot joint after intra-articular instillation of hydrocortisone in rheumatoid arthritis].

NIEPEL G, KOSTKA D.

Fortschr Geb Rontgenstr Nuklearmed. 1963 Apr;98:505-7. German. No abstract available.

PMID:
13938546
47.

[Ankylosing diseases of the spine].

SITAJ S, NIEPEL G, KOSTKA D.

Bratisl Lek Listy. 1963 Jan 31;43:91-103. Czech. No abstract available.

PMID:
13977767
48.

[ROENTGENOLOGICAL SYMPTOMATOLOGY OF BECHTEREW'S DISEASE].

KOSTKA D, NIEPEL G.

Lek Obz. 1963;12:593-601. Review. Czech. No abstract available.

PMID:
14107278
49.

[Roentgenological aspects of the treatment in progressive arthritis].

NIEPEL G, KOSTKA D, HUDAKOVA G.

Bratisl Lek Listy. 1962 Nov 15;42:529-35. Czech. No abstract available.

PMID:
13938545
50.

[Statistical evaluation of changes in the roentgen picture of the wrist in polyarthritis].

KOSTKA D, NIEPEL G.

Radiol Diagn (Berl). 1962;3:201-5. German. No abstract available.

PMID:
14458725

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