BioSeq-BLM:

a platform for analyzing DNA, RNA, and protein sequences based on biological language models


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The stand-alone package and manual for BioSeq-BLM:

Version-1.0[created on 2021-8-22]:


Quick Start:



The tutorial for BioSeq-BLM webserver:



The datasets used in BioSeq-BLM:

1. Identification DNase I hypersensitive sites

2. Identification of real microRNA precursors

3. Identification of DNA binding proteins

4. Identification of intrinsically disordered regions in proteins

5. RNA-binding protein identification

6. RNA secondary structure prediction


Supporting Information for the physicochemical indices:



References:

1.Chen, W., Zhang, X.T., Brooker, J., Lin, H., Zhang, L.Q. and Chou, K.C. (2015) PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions.Bioinformatics, 31, 119.

2.Friedel, M., Nikolajewa, S., Suhnel, J. and Wilhelm, T. (2009) DiProDB: a database for dinucleotide properties. Nucleic Acids Research, 37, D37-D40.

3.Kawashima, S., Pokarowski, P., Pokarowska, M., Kolinski, A., Katayama, T. and Kanehisa, M. (2008) AAindex: amino acid index database, progress report 2008.Nucleic Acids Research, 36,D202-D205.