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Dabbling In Ancestral Reconstruction

Jazz Weisman. Dabbling In Ancestral Reconstruction. Inspired by: Using ancient protein kinases to unravel a modern cancer drug’s mechanism By C. Wilson, R. V. Agafonov, M. Hoemberger, S. Kutter, A. Zorba, J. Halpin, V. Buosi, R. Otten, D. Waterman, D. L. Theobald, D. Kern.

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Dabbling In Ancestral Reconstruction

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  1. Jazz Weisman Dabbling In Ancestral Reconstruction Inspired by: Using ancient protein kinases to unravel a modern cancer drug’s mechanism By C. Wilson, R. V. Agafonov, M. Hoemberger, S. Kutter, A. Zorba, J. Halpin, V. Buosi, R. Otten, D. Waterman, D. L. Theobald, D. Kern Wilson, C.; Agafonov, R. V.; Hoemberger, M.; Kutter, S.; Zorba, A.; Halpin, J.; Buosi, V.; Otten, R.; Waterman, D.; Theobald, D. L.; et al. Using ancient protein kinases to unravel a modern cancer drug’s mechanism. Science 2015, 347 (6224), 882–886 DOI: 10.1126/science.aaa1823.

  2. How to Display a Tree

  3. Storing A Tree {0:[ 'AAAAAAAAAAAAAAAAAAAA'], 1: [ 'ACAAAAAAAYAAAAAAAAAA', 'AAAAAAAAAAAPAAAAEAAA'], 2: [ 'ACAAAAAAAYAAAAARGAAA', 'DCANAAAAAYAAAAAAAWAA', 'AAAAAAAAAAAPAAADEAAA', 'AAMAWGAAAAAPAAAAEAAA'], 3: [ 'ACAAAACAAYAACAARGAAA', 'ACAAEGAAAYAAAAARGAAA', 'DCANAAAAAYEAAAAAAVKA', 'DCANAAAAAYAAVAAAAWAA', 'AAAAAAAAAAAPAADDEAAA', 'WAAAAAAMAAAPAAADEAAA', 'AAMAWGAANAAPAAAAEAAA', 'AAMAWFAAAAAPAAAAMAAA']} • AAAAAAAAAAAAAAAAAAAA • ACAAAAAAAYAAAAAAAAAA • ACAAAAAAAYAAAAARGAAA • ACAAAACAAYAACAARGAAA • ACAAEGAAAYAAAAARGAAA • DCANAAAAAYAAAAAAAWAA • DCANAAAAAYEAAAAAAVKA • DCANAAAAAYAAVAAAAWAA • AAAAAAAAAAAPAAAAEAAA • DCANAAAAAYAAAAAAAWAA • AAAAAAAAAAAPAADDEAAA • WAAAAAAMAAAPAAADEAAA • AAAAAAAAAAAPAAADEAAA • AAMAWGAANAAPAAAAEAAA • AAMAWFAAAAAPAAAAMAAA

  4. Storing a Tree • class Node(object): • def__init__(self): • self.node=[]# list of children • self.seq = None# sequence • self.prev=None# parent • def nex(self,child): • ## Gets a node by number and returns it • returnself.node[child] • def prev(self): • returnself.prev • ## this function adds a daughter node, sets its parent (prev) and returns the daughter • def add(self): • node1=Node() • self.node.append(node1) • node1.prev=self • return node1

  5. Reconstructing a Tree

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