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Sequence alignment

Variant Callers for Next-Generation Sequencing Data: A Comparison Study

Xiangtao Liu, Shizhong Han, [ ... ], Bao-Zhu Yang

Tumor Transcriptome Sequencing Reveals Allelic Expression Imbalances Associated with Copy Number Alterations

Brian B. Tuch, Rebecca R. Laborde, [ ... ], David I. Smith

A Comprehensive Phylogenetic Analysis of the Scleractinia (Cnidaria, Anthozoa) Based on Mitochondrial CO1 Sequence Data

Marcelo V. Kitahara, Stephen D. Cairns, [ ... ], David J. Miller

Phylo: A Citizen Science Approach for Improving Multiple Sequence Alignment

Alexander Kawrykow, Gary Roumanis, [ ... ], Jérôme Waldispühl

Compression of FASTQ and SAM Format Sequencing Data

James K. Bonfield, Matthew V. Mahoney

RAxML and FastTree: Comparing Two Methods for Large-Scale Maximum Likelihood Phylogeny Estimation

Kevin Liu, C. Randal Linder, Tandy Warnow

Ago2 Immunoprecipitation Identifies Predicted MicroRNAs in Human Embryonic Stem Cells and Neural Precursors

Loyal A. Goff, Jonathan Davila, [ ... ], Ronald P. Hart

BBMerge – Accurate paired shotgun read merging via overlap

Brian Bushnell, Jonathan Rood, Esther Singer

Pseudogenes as Weaknesses of ACTB (Actb) and GAPDH (Gapdh) Used as Reference Genes in Reverse Transcription and Polymerase Chain Reactions

Yuan Sun, Yan Li, Dianzhong Luo, D. Joshua Liao

Digging the New York City Skyline: Soil Fungal Communities in Green Roofs and City Parks

Krista L. McGuire, Sara G. Payne, [ ... ], Noah Fierer

A system for site-specific integration of transgenes in mammalian cells

Xiuling Chi, Qi Zheng, [ ... ], Ling-Jie Kong

Noninvasive Prenatal Diagnosis of Fetal Trisomy 18 and Trisomy 13 by Maternal Plasma DNA Sequencing

Eric Z. Chen, Rossa W. K. Chiu, [ ... ], Y. M. Dennis Lo

Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology

Antonio M. Ramos, Richard P. M. A. Crooijmans, [ ... ], Martien A. M. Groenen

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