DataBase-vertebrate
DupScan is a database for visualizing and predicting vertebrate synteny and genome duplication. It provides specialized functions to analyse the computation-consuming WGD events by visualizing macro-synteny/micro-synteny, chromosome structures, gene/gene family evolution pattern, Ka/Ks/4DTV distributions.
Tool-Hi-C
LPAD is an algorithm used to identify TAD structures from Hi-C contact matrices. It employs a random-restart random walk algorithm to construct an undirected graph. Subsequently, a linear method is employed to partition the global, large-scale network graph into smaller subgraphs. An improved label propagation algorithm is then used to identify community structures within the graph, classifying them as TADs, TAD boundaries, TAD gaps.
Tool-Browser
HiBrowser is an interactive and dynamic browser specifically designed for the visualization of synchronized Hi-C data. It offers a range of advanced features, including multi-omics synchronized navigation, multi-mode heatmap overlay, synchronized navigation across multiple samples aligned to different reference genomes, interactive 3D simulation models, and precise searching of long-range cis-regulatory elements.
DataBase-Neoantigens
NeoPeptide is a catalog of epitopes derived from neoantigens, arising from somatic mutations, captured from the literatures and immunological resources. NeoPeptide could help researchers identify neoantigens in different cancers and search for appropriate cancer vaccine candidates.
DataBase-CPMCP
CPMCP is a traditional Chinese medicine(TCM)-related database. It demonstrates the prescription information of Chinese patent medicines(CPMs) and ancient Chinese medicine prescriptions(CMPs). The database reports their comprehensive and standardized information such as the components, indications, and contraindications. CPMCP is committed to promoting the modernization of TCM and making greater contributions to modern medicine(MM).
Tool-MACFC
MACFC introduces multi-variable Area Under the receiver operating characteristic Curve (AUC) to globally evaluate the complementarity among features by employing Area Above the receiver operating characteristic Curve (AAC).Furthermore, MACFC proposes an AAC-based feature selection algorithm, named Multi-variable AUC-based Combined Features Complementarity, to screen discriminative complementary feature combinations.
Tool-Fungus
PFGI firstly deals with the approaches of the identification and annotation of fungal genomes based on short and long reads sequenced by using multiple platforms to overcome the lack of sufficient approaches for the identification and functional annotation.
Tool-Bacteria
PBGI is an automated bioinformatics pipeline for customized bioinformatics analysis using both short-reads and long-reads sequencing data produced by multiple platforms that can improve the situation that applying microbiological genomic information.