Multi-Server Approach for High-Throughput Molecular Descriptors Calculation based on Multi-Linear Algebraic Maps

2014 ◽  
Vol 34 (1) ◽  
pp. 60-69 ◽  
Author(s):  
César R. García-Jacas ◽  
Longendri Aguilera-Mendoza ◽  
Reisel González-Pérez ◽  
Yovani Marrero-Ponce ◽  
Liesner Acevedo-Martínez ◽  
...  
2014 ◽  
Vol 35 (18) ◽  
pp. 1395-1409 ◽  
Author(s):  
César R. García-Jacas ◽  
Yovani Marrero-Ponce ◽  
Liesner Acevedo-Martínez ◽  
Stephen J. Barigye ◽  
José R. Valdés-Martiní ◽  
...  

2020 ◽  
Author(s):  
Xinzhe Zhu ◽  
Chi-Hung Ho ◽  
Xiaonan Wang

<p><a></a><a>The production process of many active pharmaceutical ingredients such as sitagliptin could cause severe environmental problems due to the use of toxic chemical materials and production infrastructure, energy consumption and wastes treatment. The environmental impacts of sitagliptin production process were estimated with life cycle assessment (LCA) method, which suggested that the use of chemical materials provided the major environmental impacts. Both methods of Eco-indicator 99 and ReCiPe endpoints confirmed that chemical feedstock accounted 83% and 70% of life-cycle impact, respectively. Among all the chemical materials used in the sitagliptin production process, </a><a>trifluoroacetic anhydride </a>was identified as the largest influential factor in most impact categories according to the results of ReCiPe midpoints method. Therefore, high-throughput screening was performed to seek for green chemical substitutes to replace the target chemical (i.e. trifluoroacetic anhydride) by the following three steps. Firstly, thirty most similar chemicals were obtained from two million candidate alternatives in PubChem database based on their molecular descriptors. Thereafter, deep learning neural network models were developed to predict life-cycle impact according to the chemicals in Ecoinvent v3.5 database with known LCA values and corresponding molecular descriptors. Finally, 1,2-ethanediyl ester was proved to be one of the potential greener substitutes after the LCA data of these similar chemicals were predicted using the well-trained machine learning models. The case study demonstrated the applicability of the novel framework to screen green chemical substitutes and optimize the pharmaceutical manufacturing process.</p>


2020 ◽  
Author(s):  
Xinzhe Zhu ◽  
Chi-Hung Ho ◽  
Xiaonan Wang

<p><a></a><a>The production process of many active pharmaceutical ingredients such as sitagliptin could cause severe environmental problems due to the use of toxic chemical materials and production infrastructure, energy consumption and wastes treatment. The environmental impacts of sitagliptin production process were estimated with life cycle assessment (LCA) method, which suggested that the use of chemical materials provided the major environmental impacts. Both methods of Eco-indicator 99 and ReCiPe endpoints confirmed that chemical feedstock accounted 83% and 70% of life-cycle impact, respectively. Among all the chemical materials used in the sitagliptin production process, </a><a>trifluoroacetic anhydride </a>was identified as the largest influential factor in most impact categories according to the results of ReCiPe midpoints method. Therefore, high-throughput screening was performed to seek for green chemical substitutes to replace the target chemical (i.e. trifluoroacetic anhydride) by the following three steps. Firstly, thirty most similar chemicals were obtained from two million candidate alternatives in PubChem database based on their molecular descriptors. Thereafter, deep learning neural network models were developed to predict life-cycle impact according to the chemicals in Ecoinvent v3.5 database with known LCA values and corresponding molecular descriptors. Finally, 1,2-ethanediyl ester was proved to be one of the potential greener substitutes after the LCA data of these similar chemicals were predicted using the well-trained machine learning models. The case study demonstrated the applicability of the novel framework to screen green chemical substitutes and optimize the pharmaceutical manufacturing process.</p>


2013 ◽  
Vol 19 (5) ◽  
pp. 727-737 ◽  
Author(s):  
Mari Hansson ◽  
John Pemberton ◽  
Ola Engkvist ◽  
Isabella Feierberg ◽  
Lars Brive ◽  
...  

High-throughput screening (HTS) is widely used in the pharmaceutical industry to identify novel chemical starting points for drug discovery projects. The current study focuses on the relationship between molecular hit rate in recent in-house HTS and four common molecular descriptors: lipophilicity (ClogP), size (heavy atom count, HEV), fraction of sp3-hybridized carbons (Fsp3), and fraction of molecular framework ( fMF). The molecular hit rate is defined as the fraction of times the molecule has been assigned as active in the HTS campaigns where it has been screened. Beta-binomial statistical models were built to model the molecular hit rate as a function of these descriptors. The advantage of the beta-binomial statistical models is that the correlation between the descriptors is taken into account. Higher degree polynomial terms of the descriptors were also added into the beta-binomial statistic model to improve the model quality. The relative influence of different molecular descriptors on molecular hit rate has been estimated, taking into account that the descriptors are correlated to each other through applying beta-binomial statistical modeling. The results show that ClogP has the largest influence on the molecular hit rate, followed by Fsp3 and HEV. fMF has only a minor influence besides its correlation with the other molecular descriptors.


2007 ◽  
Vol 177 (4S) ◽  
pp. 52-53
Author(s):  
Stefano Ongarello ◽  
Eberhard Steiner ◽  
Regina Achleitner ◽  
Isabel Feuerstein ◽  
Birgit Stenzel ◽  
...  

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