Riboswitch Calculator

Design Translation-regulating Riboswitch Sensors

Latest version: 1.0

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Articles to Cite

Espah Borujeni, A., Mishler, D. M., Wang, J., Huso, W., & Salis, H. M. (2015). Automated physics-based design of synthetic riboswitches from diverse RNA aptamers. Nucleic acids research, 44(1), 1-13.
API Power Mode Documentation.

#!/usr/bin/python import requests, json, hmac, hashlib, datetime #Create an input parameter dictionary inputs['target_TIR_ON'] = 10 inputs['target_TIR_OFF'] = 200000 inputs['constrainedSequences'] = ['', ''] params['aptamer_sequence'] = '' params['aptamer_structure'] = '' params['CDS'] = '' params['dG_ligand_aptamer'] = params['V_ligand'] = params['V_mRNA'] = params['16S_rRNA'] = 'undefined' params['organism'] = 'undefined' params['algorithm'] = 'RiboswitchCalculator_DesignMode' params['algorithm_version'] = 'v2.2' #Send it to https://api.denovodna.com/ using a HTTPS POST params['publicConsumerToken'] = 'test' params['timestamp'] = datetime.datetime.utcnow().isoformat() message = params[publicConsumerToken'] + params['timestamp'] + 'RiboswitchCalculator_DesignMode' params['signature'] = hmac.new('private key', message, hashlib.sha1).hexdigest() headers = {'Content-type': u'application/json', 'Accept': u'application/json'} r = requests.post('https://api.denovodna.com/RiboswitchCalculator_DesignMode', data=json.dumps(params), headers=headers) output = r.json() #Retrieve the result after the calculation has completed. id = output['JobInfo']['id'] result = sendGet('Result',{'id' : id})