Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 19

1.

miCloud: A Plug-n-Play, Extensible, On-Premises Bioinformatics Cloud for Seamless Execution of Complex Next-Generation Sequencing Data Analysis Pipelines.

Kim B, Ali T, Dong C, Lijeron C, Mazumder R, Wultsch C, Krampis K.

J Comput Biol. 2019 Jan 17. doi: 10.1089/cmb.2018.0218. [Epub ahead of print]

PMID:
30653336
2.

Enabling precision medicine via standard communication of HTS provenance, analysis, and results.

Alterovitz G, Dean D, Goble C, Crusoe MR, Soiland-Reyes S, Bell A, Hayes A, Suresh A, Purkayastha A, King CH, Taylor D, Johanson E, Thompson EE, Donaldson E, Morizono H, Tsang H, Vora JK, Goecks J, Yao J, Almeida JS, Keeney J, Addepalli K, Krampis K, Smith KM, Guo L, Walderhaug M, Schito M, Ezewudo M, Guimera N, Walsh P, Kahsay R, Gottipati S, Rodwell TC, Bloom T, Lai Y, Simonyan V, Mazumder R.

PLoS Biol. 2018 Dec 31;16(12):e3000099. doi: 10.1371/journal.pbio.3000099. eCollection 2018 Dec.

3.

Genotyping and Quantifying Lyme Pathogen Strains by Deep Sequencing of the Outer Surface Protein C (ospC) Locus.

Di L, Wan Z, Akther S, Ying C, Larracuente A, Li L, Di C, Nunez R, Cucura DM, Goddard NL, Krampis K, Qiu WG.

J Clin Microbiol. 2018 Oct 25;56(11). pii: e00940-18. doi: 10.1128/JCM.00940-18. Print 2018 Nov.

PMID:
30158192
4.

RSEQREP: RNA-Seq Reports, an open-source cloud-enabled framework for reproducible RNA-Seq data processing, analysis, and result reporting.

Jensen TL, Frasketi M, Conway K, Villarroel L, Hill H, Krampis K, Goll JB.

Version 2. F1000Res. 2017 Dec 21 [revised 2018 Jan 1];6:2162. doi: 10.12688/f1000research.13049.2. eCollection 2017.

5.

Comparing Microbiome Sampling Methods in a Wild Mammal: Fecal and Intestinal Samples Record Different Signals of Host Ecology, Evolution.

Ingala MR, Simmons NB, Wultsch C, Krampis K, Speer KA, Perkins SL.

Front Microbiol. 2018 May 1;9:803. doi: 10.3389/fmicb.2018.00803. eCollection 2018.

6.

Bio-Docklets: virtualization containers for single-step execution of NGS pipelines.

Kim B, Ali T, Lijeron C, Afgan E, Krampis K.

Gigascience. 2017 Aug 1;6(8):1-7. doi: 10.1093/gigascience/gix048.

7.

Fibronectin and androgen receptor expression data in prostate cancer obtained from a RNA-sequencing bioinformatics analysis.

Das DK, Ali T, Krampis K, Ogunwobi OO.

Data Brief. 2017 Feb 3;11:131-135. doi: 10.1016/j.dib.2017.01.016. eCollection 2017 Apr.

8.

miR-1207-3p regulates the androgen receptor in prostate cancer via FNDC1/fibronectin.

Das DK, Naidoo M, Ilboudo A, Park JY, Ali T, Krampis K, Robinson BD, Osborne JR, Ogunwobi OO.

Exp Cell Res. 2016 Nov 1;348(2):190-200. doi: 10.1016/j.yexcr.2016.09.021. Epub 2016 Sep 29.

9.

Visual Omics Explorer (VOE): a cross-platform portal for interactive data visualization.

Kim B, Ali T, Hosmer S, Krampis K.

Bioinformatics. 2016 Jul 1;32(13):2050-2. doi: 10.1093/bioinformatics/btw119. Epub 2016 Mar 7.

10.

In Vitro Mutational and Bioinformatics Analysis of the M71 Odorant Receptor and Its Superfamily.

Bubnell J, Jamet S, Tomoiaga D, D'Hulst C, Krampis K, Feinstein P.

PLoS One. 2015 Oct 29;10(10):e0141712. doi: 10.1371/journal.pone.0141712. eCollection 2015.

11.

Genetic variants in root architecture-related genes in a Glycine soja accession, a potential resource to improve cultivated soybean.

Prince SJ, Song L, Qiu D, Maldonado Dos Santos JV, Chai C, Joshi T, Patil G, Valliyodan B, Vuong TD, Murphy M, Krampis K, Tucker DM, Biyashev R, Dorrance AE, Maroof MA, Xu D, Shannon JG, Nguyen HT.

BMC Genomics. 2015 Feb 25;16:132. doi: 10.1186/s12864-015-1334-6.

12.

Araport: the Arabidopsis information portal.

Krishnakumar V, Hanlon MR, Contrino S, Ferlanti ES, Karamycheva S, Kim M, Rosen BD, Cheng CY, Moreira W, Mock SA, Stubbs J, Sullivan JM, Krampis K, Miller JR, Micklem G, Vaughn M, Town CD.

Nucleic Acids Res. 2015 Jan;43(Database issue):D1003-9. doi: 10.1093/nar/gku1200. Epub 2014 Nov 20.

13.

Census-based rapid and accurate metagenome taxonomic profiling.

Shamsaddini A, Pan Y, Johnson WE, Krampis K, Shcheglovitova M, Simonyan V, Zanne A, Mazumder R.

BMC Genomics. 2014 Oct 21;15:918. doi: 10.1186/1471-2164-15-918.

14.

Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data.

Cole C, Krampis K, Karagiannis K, Almeida JS, Faison WJ, Motwani M, Wan Q, Golikov A, Pan Y, Simonyan V, Mazumder R.

BMC Bioinformatics. 2014 Jan 27;15:28. doi: 10.1186/1471-2105-15-28.

15.

Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community.

Krampis K, Booth T, Chapman B, Tiwari B, Bicak M, Field D, Nelson KE.

BMC Bioinformatics. 2012 Mar 19;13:42. doi: 10.1186/1471-2105-13-42.

16.

Infection and genotype remodel the entire soybean transcriptome.

Zhou L, Mideros SX, Bao L, Hanlon R, Arredondo FD, Tripathy S, Krampis K, Jerauld A, Evans C, St Martin SK, Maroof MA, Hoeschele I, Dorrance AE, Tyler BM.

BMC Genomics. 2009 Jan 26;10:49. doi: 10.1186/1471-2164-10-49.

17.
18.

Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis.

Tyler BM, Tripathy S, Zhang X, Dehal P, Jiang RH, Aerts A, Arredondo FD, Baxter L, Bensasson D, Beynon JL, Chapman J, Damasceno CM, Dorrance AE, Dou D, Dickerman AW, Dubchak IL, Garbelotto M, Gijzen M, Gordon SG, Govers F, Grunwald NJ, Huang W, Ivors KL, Jones RW, Kamoun S, Krampis K, Lamour KH, Lee MK, McDonald WH, Medina M, Meijer HJ, Nordberg EK, Maclean DJ, Ospina-Giraldo MD, Morris PF, Phuntumart V, Putnam NH, Rash S, Rose JK, Sakihama Y, Salamov AA, Savidor A, Scheuring CF, Smith BM, Sobral BW, Terry A, Torto-Alalibo TA, Win J, Xu Z, Zhang H, Grigoriev IV, Rokhsar DS, Boore JL.

Science. 2006 Sep 1;313(5791):1261-6.

19.

Tight regulation of expression of two Arabidopsis cytosolic Hsp90 genes during embryo development.

Prasinos C, Krampis K, Samakovli D, Hatzopoulos P.

J Exp Bot. 2005 Feb;56(412):633-44. Epub 2004 Dec 6.

PMID:
15582930

Supplemental Content

Loading ...
Support Center