Songnian Hu

Songnian Hu

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Fine-Tuning of MiR528 Accumulation Modulates Flowering Time in Rice.

Mol Plant 2019 Aug 3;12(8):1103-1113. Epub 2019 May 3.

State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China; Center for Excellence in Molecular Plant Sciences, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.molp.2019.04.009DOI Listing
August 2019

Genomic and transcriptome identification of fluconazole-resistant genes for Trichosporon asahii.

Med Mycol 2019 Aug 22. Epub 2019 Aug 22.

Department of Dermatology, The Seventh Medical Center of PLA General Hospital (PLA Army General Hospital), Beijing 100700, China.

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http://dx.doi.org/10.1093/mmy/myz088DOI Listing
August 2019

Evolview v3: a webserver for visualization, annotation, and management of phylogenetic trees.

Nucleic Acids Res 2019 Jul;47(W1):W270-W275

Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology, 430074 Wuhan, Hubei, China.

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http://dx.doi.org/10.1093/nar/gkz357DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602473PMC
July 2019

Transcriptomic profiling reveals MEP pathway contributing to ginsenoside biosynthesis in Panax ginseng.

BMC Genomics 2019 May 17;20(1):383. Epub 2019 May 17.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, NO.1 Beichen West Road, Chaoyang District, Beijing, 100101, China.

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-019-5718-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6524269PMC
May 2019

The HuangZaoSi Maize Genome Provides Insights into Genomic Variation and Improvement History of Maize.

Mol Plant 2019 03 23;12(3):402-409. Epub 2019 Feb 23.

Maize Research Center, Beijing Academy of Agriculture & Forestry Sciences (BAAFS), Beijing Key Laboratory of Maize DNA Fingerprinting and Molecular Breeding, Shuguang Garden Middle Road No. 9, Beijing 100097, China. Electronic address:

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http://dx.doi.org/10.1016/j.molp.2019.02.009DOI Listing
March 2019

Enhancement of oxidative stress contributes to increased pathogenicity of the invasive pine wood nematode.

Philos Trans R Soc Lond B Biol Sci 2019 Mar;374(1767):20180323

1 State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences , Beijing 100101 , People's Republic of China.

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http://dx.doi.org/10.1098/rstb.2018.0323DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6367158PMC
March 2019

Genome structure and evolution of Antirrhinum majus L.

Nat Plants 2019 02 28;5(2):174-183. Epub 2019 Jan 28.

State Key Laboratory of Plant Cell and Chromosome Engineering and National Center of Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.

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http://www.nature.com/articles/s41477-018-0349-9
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http://dx.doi.org/10.1038/s41477-018-0349-9DOI Listing
February 2019

PacBio full-length cDNA sequencing integrated with RNA-seq reads drastically improves the discovery of splicing transcripts in rice.

Plant J 2019 Jan 3;97(2):296-305. Epub 2018 Dec 3.

Core Genomic Facility, Beijing Institute of Genomics, Chinese Academy of Sciences, 100101, Beijing, China.

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http://doi.wiley.com/10.1111/tpj.14120
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http://dx.doi.org/10.1111/tpj.14120DOI Listing
January 2019

Plant editosome database: a curated database of RNA editosome in plants.

Nucleic Acids Res 2019 Jan;47(D1):D170-D174

BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.

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https://academic.oup.com/nar/advance-article/doi/10.1093/nar
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http://dx.doi.org/10.1093/nar/gky1026DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6324055PMC
January 2019

Rice Genomics: over the Past Two Decades and into the Future.

Genomics Proteomics Bioinformatics 2018 12 13;16(6):397-404. Epub 2019 Feb 13.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2019.01.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6411948PMC
December 2018

Tung Tree (Vernicia fordii, Hemsl.) Genome and Transcriptome Sequencing Reveals Co-Ordinate Up-Regulation of Fatty Acid β-Oxidation and Triacylglycerol Biosynthesis Pathways During Eleostearic Acid Accumulation in Seeds.

Plant Cell Physiol 2018 Oct;59(10):1990-2003

Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, China.

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http://dx.doi.org/10.1093/pcp/pcy117DOI Listing
October 2018

Complete Genomic Analysis of a Kingdom-Crossing Isolate.

Front Microbiol 2018 9;9:2428. Epub 2018 Oct 9.

Department of Respiratory and Critical Care Medicine, Peking University People's Hospital, Beijing, China.

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https://www.frontiersin.org/article/10.3389/fmicb.2018.02428
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http://dx.doi.org/10.3389/fmicb.2018.02428DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6189331PMC
October 2018

RGAAT: A Reference-based Genome Assembly and Annotation Tool for New Genomes and Upgrade of Known Genomes.

Genomics Proteomics Bioinformatics 2018 10 21;16(5):373-381. Epub 2018 Dec 21.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh 11442, Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2018.03.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6364042PMC
October 2018

Identification of a G2-like transcription factor, OsPHL3, functions as a negative regulator of flowering in rice by co-expression and reverse genetic analysis.

BMC Plant Biol 2018 Aug 6;18(1):157. Epub 2018 Aug 6.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, NO.1 Beichen West Road, Chaoyang District, Beijing, 100101, China.

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http://dx.doi.org/10.1186/s12870-018-1382-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6091178PMC
August 2018

Analysis of gut microbiota diversity and auxiliary diagnosis as a biomarker in patients with schizophrenia: A cross-sectional study.

Schizophr Res 2018 07 17;197:470-477. Epub 2018 Jan 17.

National Clinical Research Center for Mental Disorders, Peking University Sixth Hospital, Institute of Mental Health, Key Laboratory of Mental Health, Ministry of Health, Peking University, Beijing, China. Electronic address:

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http://dx.doi.org/10.1016/j.schres.2018.01.002DOI Listing
July 2018

REDO: RNA Editing Detection in Plant Organelles Based on Variant Calling Results.

J Comput Biol 2018 05 11;25(5):509-516. Epub 2018 Apr 11.

1 CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics , Chinese Academy of Sciences, Beijing, China .

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http://dx.doi.org/10.1089/cmb.2017.0214DOI Listing
May 2018

Impact of growth pH and glucose concentrations on the CodY regulatory network in Streptococcus salivarius.

BMC Genomics 2018 May 23;19(1):386. Epub 2018 May 23.

Department of Microbiology and Immunology, College of Medicine, Chang Gung University, Taoyuan, Taiwan.

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http://dx.doi.org/10.1186/s12864-018-4781-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5966866PMC
May 2018

Biomonitoring for traditional herbal medicinal products using DNA metabarcoding and single molecule, real-time sequencing.

Acta Pharm Sin B 2018 May 6;8(3):488-497. Epub 2017 Nov 6.

NHP Research Alliance, Biodiversity Institute of Ontario (BIO), University of Guelph, Guelph N1G 2W1, Ontario, Canada.

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http://dx.doi.org/10.1016/j.apsb.2017.10.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5990340PMC
May 2018

A novel antisense long noncoding RNA, TWISTED LEAF, maintains leaf blade flattening by regulating its associated sense R2R3-MYB gene in rice.

New Phytol 2018 04 7;218(2):774-788. Epub 2018 Feb 7.

State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China.

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http://dx.doi.org/10.1111/nph.15023DOI Listing
April 2018

MVP: a microbe-phage interaction database.

Nucleic Acids Res 2018 01;46(D1):D700-D707

Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology (HUST), 430074 Wuhan, Hubei, China.

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http://dx.doi.org/10.1093/nar/gkx1124DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753265PMC
January 2018

Comparative genome analysis of programmed DNA elimination in nematodes.

Genome Res 2017 12 8;27(12):2001-2014. Epub 2017 Nov 8.

Department of Biochemistry and Molecular Genetics, RNA Bioscience Initiative, University of Colorado School of Medicine, Aurora, Colorado 80045, USA.

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http://dx.doi.org/10.1101/gr.225730.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5741062PMC
December 2017

A meta-analysis of the association of CKM gene rs8111989 polymorphism with sport performance.

Biol Sport 2017 Dec 1;34(4):323-330. Epub 2017 Sep 1.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, NO.1 Beichen West Road, Chaoyang District, Beijing 100101, China.

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http://dx.doi.org/10.5114/biolsport.2017.69819DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5819473PMC
December 2017

: An Online Date Palm Genomic Resource Database.

Front Plant Sci 2017 2;8:1889. Epub 2017 Nov 2.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.

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http://dx.doi.org/10.3389/fpls.2017.01889DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5701633PMC
November 2017

CYP2A6 Polymorphisms Associate with Outcomes of S-1 Plus Oxaliplatin Chemotherapy in Chinese Gastric Cancer Patients.

Genomics Proteomics Bioinformatics 2017 08 12;15(4):255-262. Epub 2017 Aug 12.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2016.11.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5582793PMC
August 2017

ISVASE: identification of sequence variant associated with splicing event using RNA-seq data.

BMC Bioinformatics 2017 Jun 28;18(1):320. Epub 2017 Jun 28.

Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Prince Turki Road, Riyadh, 11442, Saudi Arabia.

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http://dx.doi.org/10.1186/s12859-017-1732-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5490186PMC
June 2017

Complete Sequence and Analysis of Coconut Palm (Cocos nucifera) Mitochondrial Genome.

PLoS One 2016 13;11(10):e0163990. Epub 2016 Oct 13.

Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0163990PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5063475PMC
May 2017

Rice Expression Database (RED): An integrated RNA-Seq-derived gene expression database for rice.

J Genet Genomics 2017 May 4;44(5):235-241. Epub 2017 May 4.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China; Collaborative Innovation Center of Genetics and Development, Fudan University, Shanghai 200438, China. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S16738527173007
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http://dx.doi.org/10.1016/j.jgg.2017.05.003DOI Listing
May 2017

UGT1A1*6, UGT1A7*3 and UGT1A9*1b polymorphisms are predictive markers for severe toxicity in patients with metastatic gastrointestinal cancer treated with irinotecan-based regimens.

Oncol Lett 2016 Nov 14;12(5):4231-4237. Epub 2016 Sep 14.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, P.R. China.

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http://dx.doi.org/10.3892/ol.2016.5130DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5104260PMC
November 2016

Integrated analysis of phenome, genome, and transcriptome of hybrid rice uncovered multiple heterosis-related loci for yield increase.

Proc Natl Acad Sci U S A 2016 10 23;113(41):E6026-E6035. Epub 2016 Sep 23.

State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha 410125, China;

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http://dx.doi.org/10.1073/pnas.1610115113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5068331PMC
October 2016

De novo Transcriptome Analysis Reveals Distinct Defense Mechanisms by Young and Mature Leaves of Hevea brasiliensis (Para Rubber Tree).

Sci Rep 2016 09 13;6:33151. Epub 2016 Sep 13.

Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences, Danzhou 571737, Hainan, China.

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http://dx.doi.org/10.1038/srep33151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5020607PMC
September 2016

Comparative genomics reveals adaptive evolution of Asian tapeworm in switching to a new intermediate host.

Nat Commun 2016 Sep 22;7:12845. Epub 2016 Sep 22.

State Key Laboratory of Veterinary Etiological Biology, Key Laboratory of Veterinary Parasitology of Gansu Province, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, Gansu 730046, China.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5036155PMC
http://dx.doi.org/10.1038/ncomms12845DOI Listing
September 2016

Ascarosides coordinate the dispersal of a plant-parasitic nematode with the metamorphosis of its vector beetle.

Nat Commun 2016 08 1;7:12341. Epub 2016 Aug 1.

State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China.

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http://dx.doi.org/10.1038/ncomms12341DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4974635PMC
August 2016

Complete nucleotide sequence of pH11, an IncHI2 plasmid conferring multi-antibiotic resistance and multi-heavy metal resistance genes in a clinical Klebsiella pneumoniae isolate.

Plasmid 2016 07 19;86:26-31. Epub 2016 Apr 19.

Department of Respiratory & Critical Care Medicine, Peking University People's Hospital, Beijing 100044, China. Electronic address:

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http://dx.doi.org/10.1016/j.plasmid.2016.04.001DOI Listing
July 2016

Evolview v2: an online visualization and management tool for customized and annotated phylogenetic trees.

Nucleic Acids Res 2016 07 30;44(W1):W236-41. Epub 2016 Apr 30.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics (BIG), Chinese Academy of Sciences (CAS), No.7 Beitucheng West Road, Chaoyang District, 100029 Beijing, PR China University of Chinese Academy of Sciences, Beijing 100049, China

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http://dx.doi.org/10.1093/nar/gkw370DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4987921PMC
July 2016

Identification and analysis of mouse non-coding RNA using transcriptome data.

Sci China Life Sci 2016 Jun 5;59(6):589-603. Epub 2016 Mar 5.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, China.

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http://dx.doi.org/10.1007/s11427-015-4929-xDOI Listing
June 2016

DNA motifs determining the accuracy of repeat duplication during CRISPR adaptation in Haloarcula hispanica.

Nucleic Acids Res 2016 05 16;44(9):4266-77. Epub 2016 Apr 16.

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China

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http://dx.doi.org/10.1093/nar/gkw260DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4872114PMC
May 2016

Energy efficiency trade-offs drive nucleotide usage in transcribed regions.

Nat Commun 2016 Apr 21;7:11334. Epub 2016 Apr 21.

Institute for Computer Science and Cluster of Excellence on Plant Sciences, Heinrich Heine University, Düsseldorf 40225, Germany.

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http://dx.doi.org/10.1038/ncomms11334DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4844684PMC
April 2016

Conserved Intramolecular Interactions Maintain Myosin Interacting-Heads Motifs Explaining Tarantula Muscle Super-Relaxed State Structural Basis.

J Mol Biol 2016 Mar 2;428(6):1142-1164. Epub 2016 Feb 2.

Centro de Biología Estructural, Instituto Venezolano de Investigaciones Científicas, Apartado 20632, Caracas 1020A, Venezuela. Electronic address:

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http://dx.doi.org/10.1016/j.jmb.2016.01.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4826325PMC
March 2016

Information Commons for Rice (IC4R).

Nucleic Acids Res 2016 Jan 30;44(D1):D1172-80. Epub 2015 Oct 30.

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http://dx.doi.org/10.1093/nar/gkv1141DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702825PMC
January 2016

Identification and analysis of house-keeping and tissue-specific genes based on RNA-seq data sets across 15 mouse tissues.

Gene 2016 Jan 6;576(1 Pt 3):560-70. Epub 2015 Nov 6.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, No. 1 Beichen West Road, Chaoyang District, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.11.003DOI Listing
January 2016

[Future diagnosis and treatment of colorectal cancer from the view of precision medicine].

Zhonghua Wei Chang Wai Ke Za Zhi 2016 Jan;19(1):7-12

Department of General Surgery, Peking University First Hospital, Beijing 100034, China.

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January 2016

Deep sequencing analysis of microRNA expression in human melanocyte and melanoma cell lines.

Gene 2015 Nov 9;572(1):135-145. Epub 2015 Jul 9.

CAS Key Laboratory of Genome Science and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.07.013DOI Listing
November 2015

Sequence and expression analyses of ethylene response factors highly expressed in latex cells from Hevea brasiliensis.

PLoS One 2014 27;9(6):e99367. Epub 2014 Jun 27.

Unité mixte de recherche Amélioration Génétique et Adaptation des Plantes méditerranéennes et tropicales, Centre International de Recherche Agronomique pour le Développement, Montpellier, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0099367PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4074046PMC
October 2015

RNA-Seq Based De Novo Transcriptome Assembly and Gene Discovery of Cistanche deserticola Fleshy Stem.

PLoS One 2015 4;10(5):e0125722. Epub 2015 May 4.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China; Core Genomic Facility, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0125722PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4418726PMC
October 2015

De novo transcriptome analysis of Medicago falcata reveals novel insights about the mechanisms underlying abiotic stress-responsive pathway.

BMC Genomics 2015 Oct 19;16:818. Epub 2015 Oct 19.

State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.

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http://dx.doi.org/10.1186/s12864-015-2019-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4615886PMC
October 2015

Genome-wide DNA methylome variation in two genetically distinct chicken lines using MethylC-seq.

BMC Genomics 2015 Oct 23;16:851. Epub 2015 Oct 23.

The State Key Laboratory for Agro-biotechnology, China Agricultural University, Beijing, 100193, China.

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http://dx.doi.org/10.1186/s12864-015-2098-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4619007PMC
October 2015

Transcriptome-wide N⁶-methyladenosine profiling of rice callus and leaf reveals the presence of tissue-specific competitors involved in selective mRNA modification.

RNA Biol 2014 ;11(9):1180-8

a CAS Key Laboratory of Genome Sciences and Information ; Beijing Institute of Genomics; Chinese Academy of Sciences ; Beijing , P.R. China.

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http://dx.doi.org/10.4161/rna.36281DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5155352PMC
September 2015

An integrated RNA-Seq and network study reveals a complex regulation process of rice embryo during seed germination.

Biochem Biophys Res Commun 2015 Aug 23;464(1):176-81. Epub 2015 Jun 23.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.bbrc.2015.06.110DOI Listing
August 2015

Comparison and evaluation of two exome capture kits and sequencing platforms for variant calling.

BMC Genomics 2015 Aug 5;16:581. Epub 2015 Aug 5.

Core Genomic Facility and CAS Key Laboratory of Genome Sciences & Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, China.

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http://dx.doi.org/10.1186/s12864-015-1796-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4524363PMC
August 2015

De novo characterization of the spleen transcriptome of the large yellow croaker (Pseudosciaena crocea) and analysis of the immune relevant genes and pathways involved in the antiviral response.

PLoS One 2014 12;9(5):e97471. Epub 2014 May 12.

Key Laboratory of Marine Biogenetics and Resources, Third Institute of Oceanography, State Oceanic Administration, Xiamen, China; Collaborative Innovation Center of Deep Sea Biology, Third Institute of Oceanography, State Oceanic Administration, Xiamen, China.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0097471PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4018400PMC
June 2015

Integrated analysis of gene expression and microRNA regulation in three leukemia-related lymphoblastic cell lines.

Gene 2015 Jun 19;564(1):39-52. Epub 2015 Mar 19.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, No. 1-104 Beichen West Road, Chaoyang, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.03.039DOI Listing
June 2015

Full-length transcriptome sequences and splice variants obtained by a combination of sequencing platforms applied to different root tissues of Salvia miltiorrhiza and tanshinone biosynthesis.

Plant J 2015 Jun 25;82(6):951-61. Epub 2015 May 25.

Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, 100193, China.

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http://dx.doi.org/10.1111/tpj.12865DOI Listing
June 2015

Long non-coding RNAs and their biological roles in plants.

Genomics Proteomics Bioinformatics 2015 Jun 30;13(3):137-47. Epub 2015 Apr 30.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2015.02.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4563214PMC
June 2015

MicroRNA profiles and potential regulatory pattern during the early stage of spermatogenesis in mice.

Sci China Life Sci 2015 May 29;58(5):442-50. Epub 2014 Sep 29.

College of Life Sciences, College of Psychology, Hebei United University, Tangshan, 063000, China.

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http://dx.doi.org/10.1007/s11427-014-4737-8DOI Listing
May 2015

Profiling microRNA expression during multi-staged date palm (Phoenix dactylifera L.) fruit development.

Genomics 2015 Apr 29;105(4):242-51. Epub 2015 Jan 29.

Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Prince Turki Road, Riyadh 11442, Saudi Arabia; CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, No. 1 Beichen West Road, Chaoyang District, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.ygeno.2015.01.004DOI Listing
April 2015

Comparative genomic analysis of aspartic proteases in eight parasitic platyhelminths: insights into functions and evolution.

Gene 2015 Mar 14;559(1):52-61. Epub 2015 Jan 14.

State Key Laboratory of Veterinary Etiological Biology, Key Laboratory of Veterinary Parasitology of Gansu Province, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, Gansu, China. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.01.020DOI Listing
March 2015

Evaluation of the optimal dosage of S-1 in adjuvant SOX chemotherapy for gastric cancer.

Oncol Lett 2015 Mar 22;9(3):1451-1457. Epub 2014 Dec 22.

Chinese Academy of Sciences, Beijing Institute of Genomics, Beijing 100101, P.R. China.

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http://dx.doi.org/10.3892/ol.2014.2821DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4315063PMC
March 2015

Identification of genetic variations associated with epsilon-poly-lysine biosynthesis in Streptomyces albulus ZPM by genome sequencing.

Sci Rep 2015 Mar 17;5:9201. Epub 2015 Mar 17.

1] School of Life Sciences, University of Science &Technology of China, Hefei, Anhui 230027, China [2] CAS Key Laboratory of Innate Immunity and Chronic Disease, School of Life Sciences, University of Science &Technology of China, Hefei, Anhui 230027, China.

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http://dx.doi.org/10.1038/srep09201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4361855PMC
March 2015

Transcriptomic study of the red palm weevil Rhynchophorus ferrugineus embryogenesis.

Insect Sci 2015 Feb 20;22(1):65-82. Epub 2014 Mar 20.

Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology (KACST) and Chinese Academy of Sciences (CAS), Riyadh, Kingdom of Saudi Arabia; CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China; University of Chinese Academy of Sciences, Beijing, China.

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http://dx.doi.org/10.1111/1744-7917.12092DOI Listing
February 2015

Transcriptomic and physiological insights into the robustness of long filamentous cells of Methanosaeta harundinacea, prevalent in upflow anaerobic sludge blanket granules.

Appl Environ Microbiol 2015 Feb 14;81(3):831-9. Epub 2014 Nov 14.

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, People's Republic of China

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http://dx.doi.org/10.1128/AEM.03092-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4292480PMC
February 2015

XELIRI compared with FOLFIRI as a second-line treatment in patients with metastatic colorectal cancer.

Oncol Lett 2014 Oct 10;8(4):1864-1872. Epub 2014 Jul 10.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, P.R. China.

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http://dx.doi.org/10.3892/ol.2014.2335DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4156196PMC
October 2014

A comprehensive transcriptomic analysis of infant and adult mouse ovary.

Genomics Proteomics Bioinformatics 2014 Oct 20;12(5):239-48. Epub 2014 Sep 20.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2014.08.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4411413PMC
October 2014

Whole transcriptome RNA-seq analysis: tumorigenesis and metastasis of melanoma.

Gene 2014 Sep 15;548(2):234-43. Epub 2014 Jul 15.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2014.07.038DOI Listing
September 2014

Transcriptome dynamics during human erythroid differentiation and development.

Genomics 2013 Nov-Dec;102(5-6):431-441. Epub 2013 Oct 8.

Laboratory of Disease Genomics and Individualized Medicine, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.

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http://dx.doi.org/10.1016/j.ygeno.2013.09.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4151266PMC
July 2014

Adolescent mouse takes on an active transcriptomic expression during postnatal cerebral development.

Genomics Proteomics Bioinformatics 2014 Jun 18;12(3):111-9. Epub 2014 Jun 18.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2014.04.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4411375PMC
June 2014

Characterization of miRNomes in acute and chronic myeloid leukemia cell lines.

Genomics Proteomics Bioinformatics 2014 Apr 19;12(2):79-91. Epub 2014 Apr 19.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2014.02.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4411353PMC
April 2014

Ribogenomics: the science and knowledge of RNA.

Genomics Proteomics Bioinformatics 2014 Apr 24;12(2):57-63. Epub 2014 Apr 24.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.gpb.2014.04.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4411354PMC
April 2014

The complete mitochondrial genome of Gossypium hirsutum and evolutionary analysis of higher plant mitochondrial genomes.

PLoS One 2013 5;8(8):e69476. Epub 2013 Aug 5.

Department of Plant Genetics and Breeding, College of Agronomy and Biotechnology, Key Laboratory of Crop Heterosis and Utilization of Ministry of Education, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing, China.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0069476PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734230PMC
March 2014

Transcriptional profiling of biomass degradation-related genes during Trichoderma reesei growth on different carbon sources.

J Biotechnol 2014 Mar 18;173:59-64. Epub 2014 Jan 18.

Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.jbiotec.2014.01.011DOI Listing
March 2014

Transcriptomic analysis reveals key regulators of mammogenesis and the pregnancy-lactation cycle.

Sci China Life Sci 2014 Mar 19;57(3):340-355. Epub 2014 Feb 19.

Beijing Key Laboratory of Genome and Precision Medicine Technologies, CAS Key Laboratory of Genome Sciences and Information, Beijing, China.

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http://dx.doi.org/10.1007/s11427-013-4579-9DOI Listing
March 2014

RiceWiki: a wiki-based database for community curation of rice genes.

Nucleic Acids Res 2014 Jan 16;42(Database issue):D1222-8. Epub 2013 Oct 16.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China, Research Institute of Subtropical Forestry, Chinese Academy of Forestry, Fuyang, Zhejiang 311400, China, School of Computer Science and Technology, Beijing Institute of Technology, Beijing 100081, China and College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China.

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http://dx.doi.org/10.1093/nar/gkt926DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964990PMC
January 2014

Dose-finding study on adjuvant chemotherapy with S-1 plus oxaliplatin for gastric cancer.

Mol Clin Oncol 2014 Jan 23;2(1):93-98. Epub 2013 Sep 23.

Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, P.R. China.

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https://www.spandidos-publications.com/10.3892/mco.2013.191
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http://dx.doi.org/10.3892/mco.2013.191DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3915807PMC
January 2014

Seasonally variable intestinal metagenomes of the red palm weevil (Rhynchophorus ferrugineus).

Environ Microbiol 2013 Nov 9;15(11):3020-9. Epub 2013 Oct 9.

Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology (KACST) and Chinese Academy of Sciences (CAS), Riyadh, Kingdom of Saudi Arabia.

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http://doi.wiley.com/10.1111/1462-2920.12262
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http://dx.doi.org/10.1111/1462-2920.12262DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4253082PMC
November 2013

Dynamic transcriptomes of human myeloid leukemia cells.

Genomics 2013 Oct 24;102(4):250-6. Epub 2013 Jun 24.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, No. 1-7 Beichen West Road, Chaoyang, Beijing 100101, China. Electronic address:

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http://dx.doi.org/10.1016/j.ygeno.2013.06.004DOI Listing
October 2013

Regulation of MIR genes in response to abiotic stress in Hevea brasiliensis.

Int J Mol Sci 2013 Sep 27;14(10):19587-604. Epub 2013 Sep 27.

Centre de Coopération Internationale en Recherche Agronomique Pour le Développement, Unité Mixte de Recherche Amélioration Génétique et Adaptation des Plantes Méditerranéennes et Tropicales, Avenue Agropolis, Montpellier F-34398, France.

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http://dx.doi.org/10.3390/ijms141019587DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3821574PMC
September 2013

Marine sediment bacteria harbor antibiotic resistance genes highly similar to those found in human pathogens.

Microb Ecol 2013 May 1;65(4):975-81. Epub 2013 Feb 1.

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, No.1 West Beichen Road, Chaoyang District, Beijing, 100101, China.

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http://dx.doi.org/10.1007/s00248-013-0187-2DOI Listing
May 2013

Transcriptome profiling of the developing postnatal mouse testis using next-generation sequencing.

Sci China Life Sci 2013 Jan 27;56(1):1-12. Epub 2012 Dec 27.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100029, China.

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http://link.springer.com/10.1007/s11427-012-4411-y
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http://dx.doi.org/10.1007/s11427-012-4411-yDOI Listing
January 2013

An RNA-seq-based gene expression profiling of radiation-induced tumorigenic mammary epithelial cells.

Genomics Proteomics Bioinformatics 2012 Dec 4;10(6):326-35. Epub 2012 Dec 4.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China.

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http://dx.doi.org/10.1016/j.gpb.2012.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054714PMC
December 2012

The genome and transcriptome of a newly described psychrophilic archaeon, Methanolobus psychrophilus R15, reveal its cold adaptive characteristics.

Environ Microbiol Rep 2012 Dec 25;4(6):633-41. Epub 2012 Sep 25.

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, No. 1 West Beichen Road, Beijing, 100101, China.

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http://dx.doi.org/10.1111/j.1758-2229.2012.00389.xDOI Listing
December 2012

Strand-biased gene distribution in bacteria is related to both horizontal gene transfer and strand-biased nucleotide composition.

Genomics Proteomics Bioinformatics 2012 Aug 8;10(4):186-96. Epub 2012 Aug 8.

CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.

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http://dx.doi.org/10.1016/j.gpb.2012.08.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054707PMC
August 2012