1. Hierarchical clustering analysis: Genesis Software
2. miRBase Website: http://mirbase.org/
3. microRNA target prediction:
1) TARGETSCAN-VERT: http://www.targetscan.org/vert_61/
2) RNA22-MMU: https://cm.jefferson.edu/rna22/Precomputed/OptionController?species=MusMusculus&type=mRNA&version=MB18E65v2
3) MIRDB: http://mirdb.org/miRDB/index.html
4) MICRORNA.ORG: http://www.microrna.org/microrna/getMirnaForm.do
5) DIANA-MICROT: http://diana.imis.athena-innovation.gr/DianaTools/index.php?r=site/index
6) miRTarBase: http://mirtarbase.mbc.nctu.edu.tw/index.php
4. UCSC genome Browser: http://genome.ucsc.edu/cgi-bin/hgGateway
5. GeneVenn (search overlapped genes): http://genevenn.sourceforge.net/??
6. Dictionary: www.thefreedictionary.com
7. p-value calculation of correlation analysis: http://www.jeremymiles.co.uk/usingstatistics/chapter8/sigofrexcel.html
8. Protein Interaction and Structure: http://string-db.org/cgi/network.pl?taskId=zfvHbwt_gV3r
9. web resource for known and predicted functional associations between protein post-translational modifications (PTMs) within and between proteins：
http://ptmcode.embl.de/help.cgi
10. Protein structure /functional domain Prediction
1) http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi
11. Methylation-related primers design: http://www.urogene.org/methprimer2/
12. COSMIC: Catalogue Of Somatic Mutations In Cancer—check mutation: http://cancer.sanger.ac.uk/cosmic
13. Target Scan—check the microRNA binding sites on genes: http://www.targetscan.org/
14. NIH Human Embryonic Stem Cell Registry: http://grants.nih.gov/stem_cells/registry/current.htm
15. The human Protein Atlas: http://www.proteinatlas.org/
16. Oncomine: https://www.oncomine.org/resource/login.html
17. Ingenuity Pathway Analysis: http://www.ingenuity.com/products/login
18. Human metabolomics database download: http://www.hmdb.ca/downloads
19. Meta cancer: http://www.metacancer-fp7.eu/index.php?id=354
20. Ensembl: http://uswest.ensembl.org/index.html
21. Align multiple nucleotide sequences:
1) http://www.ebi.ac.uk/Tools/msa/mafft/
2) http://www.ebi.ac.uk/Tools/msa/muscle/
22. Align multiple protein sequences: http://www.ebi.ac.uk/Tools/msa/clustalo/
23. Gene Information in mouse: http://www.informatics.jax.org/