Pipeline to detect the positional and directional relationship between transposable elements and adjacent genes in host genome

Author:

Meguerditchian Caroline,Ergun Ayse,Decroocq Veronique,Lefebvre Marie,Bui Quynh-Trang

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Peer Community In

Reference17 articles.

1. Transposable elements contribute to dynamic genome content in maize;['Anderson, Sarah N.', 'Stitzer, Michelle C.', 'Brohammer, Alex B.', 'Zhou, Peng', 'Noshay, Jaclyn M.', "O'Connor, Christine H.", 'Hirsch, Cory D.', 'Ross‐Ibarra, Jeffrey', 'Hirsch, Candice N.', 'Springer, Nathan M.'];The Plant Journal,2019

2. LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq;['Babaian, Artem', 'Thompson, I Richard', 'Lever, Jake', 'Gagnier, Liane', 'Karimi, Mohammad M', 'Mager, Dixie L'];Bioinformatics,2019

3. A transposable element annotation pipeline and expression analysis reveal potentially active elements in the microalga Tisochrysis lutea;['Berthelier, Jérémy', 'Casse, Nathalie', 'Daccord, Nicolas', 'Jamilloux, Véronique', 'Saint-Jean, Bruno', 'Carrier, Grégory'];BMC Genomics,2018

4. LTR Retrotransposons as Controlling Elements of Genome Response to Stress?;['Bui, Quynh Trang', 'Grandbastien, Marie-Angèle'];Plant Transposable Elements,2012

5. GREAM: A Web Server to Short-List Potentially Important Genomic Repeat Elements Based on Over-/Under-Representation in Specific Chromosomal Locations, Such as the Gene Neighborhoods, within or across 17 Mammalian Species;['Chandrashekar, Darshan Shimoga', 'Dey, Poulami', 'Acharya, Kshitish K.'];PLOS ONE,2015

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