scholarly journals Whole-Genome Annotation with BRAKER

2019 ◽  
pp. 65-95 ◽  
Author(s):  
Katharina J. Hoff ◽  
Alexandre Lomsadze ◽  
Mark Borodovsky ◽  
Mario Stanke
Keyword(s):  
Genome Annotation ◽  
Whole Genome

Whole genome sequencing and genome annotation of Dermacoccus abyssi strain HZAU 226 isolated from spoiled eggs

Genomics ◽  
2020 ◽  
Author(s):  
Xinshuai Zhang ◽  
Yao Ruan ◽  
Wukang Liu ◽  
Qian Chen ◽  
Lihong Gu ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Genome Annotation ◽  
Whole Genome

scholarly journals Semi-supervised segmentation and genome annotation

2020 ◽  
Author(s):  
Rachel C.W. Chan ◽  
Matthew McNeil ◽  
Eric G. Roberts ◽  
Mickaël Mendez ◽  
Maxwell W. Libbrecht ◽  
...  
Keyword(s):  
Supervised Learning ◽  
Prior Knowledge ◽  
Genome Annotation ◽  
Whole Genome ◽  
Transcription Start ◽  
Transcription Start Sites ◽  
Annotation Method ◽  
Supervised Segmentation ◽  
Unseen Data ◽  
Genome Annotations

AbstractSegmentation and genome annotation methods automatically discover joint signal patterns in whole genome datasets. Previously, researchers trained these algorithms in a fully unsupervised way, with no prior knowledge of the functions of particular regions. Adding information provided by expert-created annotations to supervise training could improve the annotations created by these methods. We implemented semi-supervised learning using virtual evidence in the annotation method Segway. Additionally, we defined a positionally tolerant precision and recall metric for scoring genome annotations based on the proximity of each annotation feature to the truth set. We demonstrate semi-supervised Segway’s ability to learn patterns corresponding to provided transcription start sites on a specified supervision label, and subsequently recover other transcription start sites in unseen data on the same supervision label.

scholarly journals Poplar carbohydrate‐active enzymes: whole‐genome annotation and functional analyses based on RNA expression data

2019 ◽  
Vol 99 (4) ◽  
pp. 589-609 ◽  
Author(s):  
Vikash Kumar ◽  
Matthieu Hainaut ◽  
Nicolas Delhomme ◽  
Chanaka Mannapperuma ◽  
Peter Immerzeel ◽  
...  
Keyword(s):  
Genome Annotation ◽  
Rna Expression ◽  
Whole Genome ◽  
Expression Data ◽  
Carbohydrate Active Enzymes ◽  
Functional Analyses

scholarly journals Whole genome sequence and genome annotation of Colletotrichum acutatum , causal agent of anthracnose in pepper plants in South Korea

Genomics Data ◽  
2016 ◽  
Vol 8 ◽  
pp. 45-46 ◽  
Author(s):  
Joon-Hee Han ◽  
Jae-Kyung Chon ◽  
Jong-Hwa Ahn ◽  
Ik-Young Choi ◽  
Yong-Hwan Lee ◽  
...  
Keyword(s):  
South Korea ◽  
Genome Sequence ◽  
Genome Annotation ◽  
Causal Agent ◽  
Whole Genome Sequence ◽  
Colletotrichum Acutatum ◽  
Whole Genome ◽  
Pepper Plants

scholarly journals Whole-genome annotation by using evidence integration in functional-linkage networks

2004 ◽  
Vol 101 (9) ◽  
pp. 2888-2893 ◽  
Author(s):  
U. Karaoz ◽  
T. M. Murali ◽  
S. Letovsky ◽  
Y. Zheng ◽  
C. Ding ◽  
...  
Keyword(s):  
Genome Annotation ◽  
Whole Genome ◽  
Functional Linkage ◽  
Evidence Integration
Sign in / Sign up

Export Citation Format

Share Document