Teaching
[ALWAYS UNDER CONSTRUCTION/UPDATE]
University of Cyprus
Undergraduate courses
BIO 003 - Introduction to Bioinformatics (free elective)
BIO 230 - Introduction to Computational Biology
BIO 331 - Computational and Systems Biology [previously: Principles and Methods of Bioinformatics I]
BIO 431 - Principles and Methods of Bioinformatics II
Graduate courses [MSc and PhD Program in Molecular Biology]
BIO 650 - Advanced Topics in Bioinformatics
University of Athens
Graduate courses (MSc in Bioinformatics)
Topics in Microarray Analysis
OTHER
Practical in Bioinformatics for Metagenomics
Daniel Jouvance - UPMC- UCY International School in Marine Biology
Nicosia, 29/10-05/11/2017
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CING course - 15/04/2011
Kicking off with similarity search [… or the tale of a Zinc Finger …]
A zinc finger protein
>test sequence
MFQIPVQNLDNIRKVRKRVKGILVDIGLDSCKELMKDLKSFDPGEKYFYNTSWGDVSPWE PSGKKARYRTKPYLGSLGRYSTKVLTSLKNHLHRYHEDEADQELMIPCPNCPFSSQPRVV GKHFRMFHAPARKVQSYTVNILGETKTSRSDVISFTCLKCNFSNTLYYSMKKHVLVAHFN YLINSYFGLRTEETGEQPKASDPVSVDKILPFDKYYCKKCSAIASSQDALMYHILTSDAH RDLENKLRSVISEHIKRTGFLKQMHIAPKPVTHLALPPNSSAPSIAAPPPCFQLALPQNS QSSGTVQSVTVTPGTSGSLTHSPPTTAQSHVALVSSSLPVCQSSLSLQQSAPPPVFLSHS VALNQPVNTAVLPLTQPVGPVNKSVGTSILPVNQAMCSVNQAVRPGLLPLTKPMGPMNRP VGPAVLPMGPSVNSGVLQATSPGVISVGRAVPSGVLPAGQVTPAGVIPGQTATSGVLPTG QVVQSSTLPVGQTAPSRGLPPGQTVPLRVLPAGQVVPSGLLSSNQTVPSGVVPVNQGVNS GVLQLGQPVTPGVLPVGPPVRPGVLQLSPSVSTSILPMSQPVRAGTSQNTTFFTSGSILR QLIPTGKQVNGIPTYTLAPVSVTLPVPSGGGLAAVGPPPQVPVQFLPSGSGTQMGSSLPS LPSPQVLVSPAPSVFVQATPPLADANQALKQAKQWKTCPVCNELFPSNVYQVHMEVAHKQ SEAQLCQVCNELFPANVYQVHMEVAHKQSESKSSEKLEPEKLAACAPFLKWMREKTVRCL SCKCLVSQEELMHHLLMHGLGCLFCPCTFHDVRGLVEHSRTKHLGKKRLSMDYSNRGFQL DLDANGNLLFPHLDFITILPREKLGEREVYLAILAGIHSKSLVPVYVKVRPQPEVAPKIP NKQKLTCPFCLSTFMTADAYELHLKERHHVMPTVHTMLRSPAFKCIHCCGVYTGNMTLGA IAVHLLRCRSAPKDSSSDLQVQPGFIESSELLMVNGDVIPESTFPVKRKLPEGHLGPEDQ RDGEEPQLTLDADASSGSEKGLGAVPLKRQKSEIRTEGSGPSEDSLQALALDPSKYEGRS YEEKKQFLRDYFHRRPYPSRKEVELLSSLLWVWKIDVASFFGKRRYICMKAIKTHKPSVLLGFDMSELKNVKHRLNFGECESQKL
Try and "BLAST" it against the sequence or structure database ... What is your conclusion??
Use the original UNIPROT entry [follow the link].
Use a tool for generating pairwise sequences alignments (such as blast2seq, HPATM).
Then visit the PROSITE entry for the Zinc finger C2H2 type domain signature [follow the link]. What is your conclusion now??
Secondary Structure Prediction
PROTEUS web server [follow link].