Journal Club

Bioinformatics and genomics journal club is a regular meeting for people interested in bioinformatics and genomics to discuss important recent papers. Each time one person gives the presentation and others participate in discussions. The journal club is co-organized by Food and Plant Research Focus Group.

If you are interested in our journal club and want to receive the latest announcements, please contact the coordinator.


 

Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma

Date: Apr 18, 2017 (Tuesday) Time: 12:00nn – 1:00pm Venue: Room 297, Science Centre South Block Speaker: Mr. Michael Zeng, PhD in School of Life Sciences Papers: Zhao et al., Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nature Communications 7:12992 (2016).

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Near-optimal probabilistic RNA-seq quantification

Date: Apr 5, 2017 (Wednesday) Time: 12:00nn – 1:00pm Venue: Rm. 121, Ho Sin-Hang Engineering Building Speaker: Dr. Kevin Yip, Associate Professor in Department of Computer Science and Engineering Papers: Bray et al., Near-optimal probabilistic RNA-seq quantification. Nature Biotechnology 34:525–527 (2016).

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Genomewide landscape of gene–metabolome associations in Escherichia coli

Date: Mar 21, 2017 (Tuesday) Time: 12:00nn – 1:00pm Venue: Room 297, Science Centre South Block Speaker: Mr. Alden Leung, PhD in School of Life Sciences Papers: Fuhrer et al., Genomewide landscape of gene–metabolome associations in Escherichia coli. Mol Sys Biol 13:907 (2017).

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Epigenomic analysis detects aberrant super-enhancer DNA methylation in human cancer

Date: Mar 7, 2017 (Tuesday) Time: 12:00nn – 1:00pm Venue: Rm. 1021, Ho Sin-Hang Engineering Building Speaker: Ms. Qiong Wu, PhD in School of Biomedical Sciences Papers: Heyn et al., Epigenomic analysis detects aberrant super-enhancer DNA methylation in human cancer. Genome Biology 17:11 (2016).

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Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control

Date: Feb 21, 2017 (Tuesday) Time: 12:00nn – 1:00pm Venue: Room 297, Science Centre South Block Speaker: Mr. Leon Shi, PhD in School of Biomedical Sciences Papers: Hnisz et al., Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control. Cell 167.5:p1188-1200 (2016).

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Cooperative Binding of Transcription Factors Orchestrates Reprogramming

Date: Feb 7, 2017 (Tuesday) Time: 12:00nn – 1:00pm Venue: Rm. 1021, Ho Sin-Hang Engineering Building Speaker: Mr. Alex Fu, MPhil. in Department of Computer Science and Engineering Papers: Chronis et al., Cooperative Binding of Transcription Factors Orchestrates Reprogramming. Cell 168.3:442-459.e20 (2017).

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Various large-scaled analyses on structural variations and genetic variations in human genome

Date: Dec 7, 2016 (Wednesday) Time: 12:00nn – 1:00pm Venue: Rm. 1021, Ho Sin-Hang Engineering Building Speaker: Mr. Le Li Papers: [1] Sudmant et al., An integrated map of structural variation in 2,504 human genomes. Nature 526:75–81 (2015). [2] Mallick et al., The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. Nature 538:201–206 (2016). […]

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General rules for functional microRNA targeting

Date: Nov 23, 2016 (Wednesday) Time: 12:00nn – 1:00pm Venue: Room 707, Mong Man Wai Building Speaker: Mr. Jerry Yang Paper: Kim et al., General rules for functional microRNA targeting. Nature Genetics (2016).

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De novo assembly and phasing of a Korean human genome

Date: Nov 9, 2016 (Wednesday) Time: 12:00nn – 1:00pm Venue: Rm. 1021, Ho Sin-Hang Engineering Building Speaker: Mr. Timothy Wang Paper: Seo et al., De novo assembly and phasing of a Korean human genome. Nature 538, 243–247 (2016).

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Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)

Date: Oct 26, 2016 (Wednesday) Time: 12:00nn – 1:00pm Venue: Room 707, Mong Man Wai Building Speaker: Ms. Nana Jin Paper: Lagarde et al., Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq). Nature communications 7:12339 (2016).

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