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Transcriptomics Section edited by Peter-Bram t' Hoen

This section covers novel approaches to the conduct and analysis of transcriptomic and related high-throughput genomic data.

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1.

Research article   Open Access

The shaping and functional consequences of the dosage effect landscape in multiple myeloma

Mehmet K Samur, Parantu K Shah, Xujun Wang, Stéphane Minvielle, Florence Magrangeas, Hervé Avet-Loiseau, Nikhil C Munshi, Cheng Li BMC Genomics 2013, 14:672 (2 October 2013)

Abstract | Provisional PDF

2.

Methodology article   Open Access

Comparison of RNA- or LNA-hybrid oligonucleotides in template-switching reactions for high-speed sequencing library preparation

Matthias Harbers, Sachi Kato, Michiel de Hoon, Yoshihide Hayashizaki, Piero Carninici, Charles Plessy BMC Genomics 2013, 14:665 (30 September 2013)

Abstract | Provisional PDF

3.

Methodology article   Open Access

Computational prediction of associations between long non-coding RNAs and proteins

Qiongshi Lu, Sijin Ren, Ming Lu, Yong Zhang, Dahai Zhu, Xuegong Zhang, Tingting Li BMC Genomics 2013, 14:651 (24 September 2013)

Abstract | Provisional PDF | PubMed

4.

Research article   Open Access

Alignment-free supervised classification of metagenomes by recursive SVM

Hongfei Cui, Xuegong Zhang BMC Genomics 2013, 14:641 (22 September 2013)

Abstract | Full text | PDF | PubMed

5.

Research article   Open Access

Transcriptome profiling of Gossypium barbadense inoculated with Verticillium dahliae provides a resource for cotton improvement

Yan Zhang, Xing Wang, Ze Ding, Qing Ma, Gui Zhang, Shu Zhang, Zhi Li, Li Wu, Gui Zhang, Zhi Ma BMC Genomics 2013, 14:637 (22 September 2013)

Abstract | Full text | PDF | PubMed

6.

Research article   Open Access

Genome-wide analysis of small RNAs reveals eight fiber elongation-related and 257 novel microRNAs in elongating cotton fiber cells

Wei Xue, Zhengming Wang, Mingjian Du, Yidi Liu, Jin-Yuan Liu BMC Genomics 2013, 14:629 (17 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

7.

Research article   Open Access

Stem cells isolated from adipose tissue of obese patients show changes in their transcriptomic profile that indicate loss in stemcellness and increased commitment to an adipocyte-like phenotype

Blanca Oñate, Gemma Vilahur, Sandra Camino-López, Alberto Díez-Caballero, Carlos Ballesta-López, Juan Ybarra, Fabrizio Moscatiello, Javier Herrero, Lina Badimon BMC Genomics 2013, 14:625 (16 September 2013)

Abstract | Full text | PDF | PubMed

8.

Research article   Open Access Highly Accessed

Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy

Ting Ni, Yanqin Yang, Dina Hafez, Wenjing Yang, Kurtis Kiesewetter, Yoshi Wakabayashi, Uwe Ohler, Weiqun Peng, Jun Zhu BMC Genomics 2013, 14:615 (11 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

9.

Research article   Open Access Highly Accessed

Transcriptomic characterization of cold acclimation in larval zebrafish

Yong Long, Guili Song, Junjun Yan, Xiaozhen He, Qing Li, Zongbin Cui BMC Genomics 2013, 14:612 (11 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

10.

Methodology article   Open Access Highly Accessed

L_RNA_scaffolder: scaffolding genomes with transcripts

Wei Xue, Jiong-Tang Li, Ya-Ping Zhu, Guang-Yuan Hou, Xiang-Fei Kong, You-Yi Kuang, Xiao-Wen Sun BMC Genomics 2013, 14:604 (8 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

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