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Items: 1 to 20 of 1120

1.

Integrative analysis of DNA methylation and gene expression identify a six epigenetic driver signature for predicting prognosis in hepatocellular carcinoma.

Li GX, Ding ZY, Wang YW, Liu TT, Chen WX, Wu JJ, Xu WQ, Zhu P, Zhang BX.

J Cell Physiol. 2018 Dec 7. doi: 10.1002/jcp.27882. [Epub ahead of print]

PMID:
30536816
2.

Analysis of Malignant Melanoma Cell Lines Exposed to Hypoxia Reveals the Importance of PFKFB4 Overexpression for Disease Progression.

Trojan SE, Piwowar M, Ostrowska B, Laidler P, Kocemba-Pilarczyk KA.

Anticancer Res. 2018 Dec;38(12):6745-6752. doi: 10.21873/anticanres.13044.

PMID:
30504385
3.

Detection of rare disease variants in extended pedigrees using RVS.

Sherman T, Fu J, Scharpf RB, Bureau A, Ruczinski I.

Bioinformatics. 2018 Nov 30. doi: 10.1093/bioinformatics/bty976. [Epub ahead of print]

PMID:
30500888
4.

MetNet: Metabolite network prediction from high-resolution mass spectrometry data in R aids metabolite annotation.

Naake T, Fernie AR.

Anal Chem. 2018 Nov 30. doi: 10.1021/acs.analchem.8b04096. [Epub ahead of print]

PMID:
30500168
5.

Orchestrating a community-developed computational workshop and accompanying training materials.

Davis S, Ramos M, Shepherd L, Turaga N, Geistlinger L, Morgan MT, Haibe-Kains B, Waldron L.

F1000Res. 2018 Oct 17;7:1656. doi: 10.12688/f1000research.16516.1. eCollection 2018.

6.

Hierarchical Clustering of DNA k-mer Counts in RNAseq Fastq Files Identifies Sample Heterogeneities.

Kaisers W, Schwender H, Schaal H.

Int J Mol Sci. 2018 Nov 21;19(11). pii: E3687. doi: 10.3390/ijms19113687.

7.

Transcriptome profiling reveals PDZ binding kinase as a novel biomarker in peritumoral brain zone of glioblastoma.

Kruthika BS, Jain R, Arivazhagan A, Bharath RD, Yasha TC, Kondaiah P, Santosh V.

J Neurooncol. 2018 Nov 20. doi: 10.1007/s11060-018-03051-5. [Epub ahead of print]

PMID:
30460633
8.

MSstatsQC 2.0: R/Bioconductor package for statistical quality control of mass spectrometry-based proteomic experiments.

Dogu E, Mohammad Taheri S, Olivella R, Marty F, Lienert I, Reiter L, Sabidó E, Vitek O.

J Proteome Res. 2018 Nov 19. doi: 10.1021/acs.jproteome.8b00732. [Epub ahead of print]

PMID:
30450913
9.

Cytofast: A workflow for visual and quantitative analysis of flow and mass cytometry data to discover immune signatures and correlations.

Beyrend G, Stam K, Höllt T, Ossendorp F, Arens R.

Comput Struct Biotechnol J. 2018 Oct 24;16:435-442. doi: 10.1016/j.csbj.2018.10.004. eCollection 2018.

10.

Using RAMPAGE to Identify and Annotate Promoters in Insect Genomes.

Raborn RT, Brendel VP.

Methods Mol Biol. 2019;1858:99-116. doi: 10.1007/978-1-4939-8775-7_9.

PMID:
30414114
11.

Single sample scoring of molecular phenotypes.

Foroutan M, Bhuva DD, Lyu R, Horan K, Cursons J, Davis MJ.

BMC Bioinformatics. 2018 Nov 6;19(1):404. doi: 10.1186/s12859-018-2435-4.

12.

Heavy-tailed prior distributions for sequence count data: removing the noise and preserving large differences.

Zhu A, Ibrahim JG, Love MI.

Bioinformatics. 2018 Nov 3. doi: 10.1093/bioinformatics/bty895. [Epub ahead of print]

PMID:
30395178
13.

gwasurvivr : an R package for genome wide survival analysis.

Rizvi AA, Karaesmen E, Morgan M, Preus L, Wang J, Sovic M, Hahn T, Sucheston-Campbell LE.

Bioinformatics. 2018 Nov 5. doi: 10.1093/bioinformatics/bty920. [Epub ahead of print]

PMID:
30395168
14.

XINA: A Workflow for the Integration of Multiplexed Proteomics Kinetics Data with Network Analysis.

Lee LH, Halu A, Morgan S, Iwata H, Aikawa M, Singh SA.

J Proteome Res. 2018 Oct 29. doi: 10.1021/acs.jproteome.8b00615. [Epub ahead of print]

PMID:
30370770
15.

Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification.

Love MI, Soneson C, Patro R.

Version 3. F1000Res. 2018 Jun 27 [revised 2018 Jan 1];7:952. doi: 10.12688/f1000research.15398.3. eCollection 2018.

16.

ELMER v.2: An R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles.

Silva TC, Coetzee SG, Gull N, Yao L, Hazelett DJ, Noushmehr H, Lin DC, Berman BP.

Bioinformatics. 2018 Oct 26. doi: 10.1093/bioinformatics/bty902. [Epub ahead of print]

PMID:
30364927
17.

pJRES Binning Algorithm (JBA): a new method to facilitate the recovery of metabolic information from pJRES 1H NMR spectra.

Rodriguez-Martinez A, Ayala R, Posma JM, Harvey N, Jiménez B, Sonomura K, Sato TA, Matsuda F, Zalloua P, Gauguier D, Nicholson JK, Dumas ME.

Bioinformatics. 2018 Oct 23. doi: 10.1093/bioinformatics/bty837. [Epub ahead of print]

PMID:
30351417
18.

Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree.

Yu G, Lam TT, Zhu H, Guan Y.

Mol Biol Evol. 2018 Dec 1;35(12):3041-3043. doi: 10.1093/molbev/msy194.

PMID:
30351396
19.

Differential methylation analysis of reduced representation bisulfite sequencing experiments using edgeR.

Chen Y, Pal B, Visvader JE, Smyth GK.

Version 2. F1000Res. 2017 Nov 28 [revised 2018 Jan 1];6:2055. doi: 10.12688/f1000research.13196.2. eCollection 2017.

20.

TissueEnrich: Tissue-specific gene enrichment analysis.

Jain A, Tuteja G.

Bioinformatics. 2018 Oct 22. doi: 10.1093/bioinformatics/bty890. [Epub ahead of print]

PMID:
30346488

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