First insights into the giant panda (Ailuropoda melanoleuca) blood transcriptome: a resource for novel gene loci and immunogenetics

Molecular Phylogeny and SNP Variation of Polar Bears (Ursus maritimus), Brown Bears (U. arctos), and Black Bears (U. americanus) Derived from Genome Sequences

(2014) Matthew A. Cronin et al.   JOURNAL OF HEREDITY

Large-Scale Genetic Survey Provides Insights into the Captive Management and Reintroduction of Giant Pandas

(2014) Lei Shan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Giant Pandas Are Not an Evolutionary cul-de-sac: Evidence from Multidisciplinary Research

(2014) F. Wei et al.   MOLECULAR BIOLOGY AND EVOLUTION

Identification of Transcriptome-Derived Microsatellite Markers and Their Association with the Growth Performance of the Mud Crab (Scylla paramamosain)

(2014) Hongyu Ma et al.   PLoS One

Identification of a Role for the PI3K/AKT/mTOR Signaling Pathway in Innate Immune Cells

(2014) Songbo Xie et al.   PLoS One

The emerging biofuel crop Camelina sativa retains a highly undifferentiated hexaploid genome structure

(2014) Sateesh Kagale et al.   Nature Communications

Developing conversed microsatellite markers and their implications in evolutionary analysis of the Bemisia tabaci complex

(2014) Hua-Ling Wang et al.   Scientific Reports

Low MHC variation in the polar bear: implications in the face of Arctic warming?

(2013) D. S. Weber et al.   ANIMAL CONSERVATION

Patterns of genetic differentiation at MHC class I genes and microsatellites identify conservation units in the giant panda

(2013) Ying Zhu et al.   BMC EVOLUTIONARY BIOLOGY

Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes

(2013) Walter L Eckalbar et al.   BMC GENOMICS

The peripheral blood transcriptome reflects variations in immunity traits in swine: towards the identification of biomarkers

(2013) Núria Mach et al.   BMC GENOMICS

Review: Alternative Splicing (AS) of Genes As An Approach for Generating Protein Complexity

(2013) Bishakha Roy et al.   CURRENT GENOMICS

Genomic Resources Notes accepted 1 August 2013-30 September 2013

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Immune modulation by multifaceted cationic host defense (antimicrobial) peptides

(2013) Ashley L Hilchie et al.   Nature Chemical Biology

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Patterns of Adaptive and Neutral Diversity Identify the Xiaoxiangling Mountains as a Refuge for the Giant Panda

(2013) Yi-Yan Chen et al.   PLoS One

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Augmenting transcriptome assembly by combiningde novoand genome-guided tools

(2013) Prachi Jain et al.   PeerJ

De novo reconstruction of the Toxoplasma gondii transcriptome improves on the current genome annotation and reveals alternatively spliced transcripts and putative long non-coding RNAs

(2012) Musa A Hassan et al.   BMC GENOMICS

De novo assembly and characterization of bark transcriptome using Illumina sequencing and development of EST-SSR markers in rubber tree (Hevea brasiliensis Muell. Arg.)

(2012) Dejun Li et al.   BMC GENOMICS

Development and Application of Microsatellites in Candidate Genes Related to Wood Properties in the Chinese White Poplar (Populus tomentosa Carr.)

(2012) Q. Du et al.   DNA RESEARCH

Whole blood transcriptome correlates with treatment response in nasopharyngeal carcinoma

(2012) Adel M Zaatar et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

MSDB: A User-Friendly Program for Reporting Distribution and Building Databases of Microsatellites from Genome Sequences

(2012) Lianming Du et al.   JOURNAL OF HEREDITY

Black and white and read all over: the past, present and future of giant panda genetics

(2012) Fuwen Wei et al.   MOLECULAR ECOLOGY

Whole-genome sequencing of giant pandas provides insights into demographic history and local adaptation

(2012) Shancen Zhao et al.   NATURE GENETICS

Rfam 11.0: 10 years of RNA families

(2012) Sarah W. Burge et al.   NUCLEIC ACIDS RESEARCH

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data

(2012) Ravi K. Patel et al.   PLoS One

Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change

(2012) W. Miller et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional annotation from the genome sequence of the giant panda

(2012) Tong Huo et al.   Protein & Cell

Identification and correction of systematic error in high-throughput sequence data

(2011) Frazer Meacham et al.   BMC BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Application of SNPs for population genetics of nonmodel organisms: new opportunities and challenges

(2011) S. J. HELYAR et al.   Molecular Ecology Resources

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Transcriptome Profiling of Whole Blood Cells Identifies PLEK2 and C1QB in Human Melanoma

(2011) Yuchun Luo et al.   PLoS One

Molecular Cloning and Copy Number Variation of a Ferritin Subunit (Fth1) and Its Association with Growth in Freshwater Pearl Mussel Hyriopsis cumingii

(2011) Zhiyi Bai et al.   PLoS One

Thymosin β4: structure, function, and biological properties supporting current and future clinical applications

(2010) David Crockford et al.   Annals of the New York Academy of Sciences

Assessing the human immune system through blood transcriptomics

(2010) Damien Chaussabel et al.   BMC BIOLOGY

Genomic analysis of expressed sequence tags in American black bear Ursus americanus

(2010) Sen Zhao et al.   BMC GENOMICS

Expansion of the eukaryotic proteome by alternative splicing

(2010) Timothy W. Nilsen et al.   NATURE

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The sequence and de novo assembly of the giant panda genome

(2009) Ruiqiang Li et al.   NATURE

Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing

(2009) M. Yassour et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterizing natural variation using next-generation sequencing technologies

(2009) Yoav Gilad et al.   TRENDS IN GENETICS

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Molecular characterization of major histocompatibility complex class I genes from the giant panda (Ailuropoda melanoleuca)

(2008) Hui-Juan Pan et al.   IMMUNOGENETICS

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

(2008) Brian J Haas et al.   GENOME BIOLOGY