# -*- coding: utf-8 -*-
"""
[Reference]
[1] Steinway et al.
Combinatorial interventions inhibit TGFβ-driven epithelial-to-mesenchymal
transition and support hybrid cellular phenotypes.
Npj Systems Biology and Applications (2015) 1(1), 15014.
[2] Steinway, S. N. et al.
Network modeling of TGFβ signaling in hepatocellular carcinoma
epithelial-to-mesenchymal transition reveals joint sonic hedgehog
and Wnt pathway activation.
Cancer Research (2014) 74(21), 5963–77.
[Information]
The topology of network is curated from reference [1].
"""
import os
import pandas as pd
import sfa
import sfa.base
[docs]def create_data():
return SteinwayData()
[docs]class SteinwayData(sfa.base.Data):
def __init__(self):
self._abbr = "steinway_2015"
self._name = "Steinway et al. Npj Syst Biol Appl (2015) 1(1), 15014"
inputs = {}
inputs['TGFβ'] = 1.0
dpath = os.path.dirname(__file__)
fpath_network = os.path.join(dpath, 'network.sif')
A, n2i, dg = sfa.read_sif(fpath_network, as_nx=True)
self._A = A
self._n2i = n2i
self._i2n = {idx: name for name, idx in n2i.items()}
self._dg = dg
self._inputs = inputs
# The following members are not defined due to the lack of data.
self._df_conds = None
self._df_exp = None
self._df_ptb = None
self._has_link_perturb = False
self._names_ptb = None
self._iadj_to_idf = None
# end of def __init__
# end of def class