公开(公告)号：US20210209100A1

公开(公告)日：2021-07-08

申请号：US17037037

申请日：2020-09-29

Applicant: Samsung Electronics Co., Ltd.

Inventor： Rajasekhara Reddy DUVVURU MUNI ,  Tadi Venkata SIVA KUMAR ,  Taeyong KIM

IPC: G06F16/2458 ,  G06F7/08 ,  G06N20/00 ,  G06F16/2457 ,  G06N7/02 ,  G06N3/12

Abstract: Systems and methods for building a comprehensive genome scale metabolic model. The method includes determining that at least one of a hypothetical profile annotation and an uncharacterized profile annotation is available in a profile annotation associated with a protein. Further, the method includes performing a machine learning procedure on at least one of the hypothetical profile annotation and the uncharacterized hypothetical profile annotation after a fuzzy string matching and ranking procedure. Further, the method includes obtaining all the possible protein annotations based on a fuzzy string matching procedure. Further, the method includes performing a rank procedure on at least one of the hypothetical profile annotation and the uncharacterized profile alternative annotation. Further, the method includes identifying all possible metabolic reactions for the protein annotation obtained by the fuzzy string matching procedure. Further, the method includes ranking the protein annotation based on the metabolic reactions.

公开(公告)号：US20210210166A1

公开(公告)日：2021-07-08

申请号：US17143780

申请日：2021-01-07

Applicant: Samsung Electronics Co., Ltd.

Inventor： Rajasekhara Reddy DUVVURU MUNI ,  Tadi Venkata SIVA KUMAR ,  Taeyong KIM ,  Garima AGARWAL ,  Priyadarshini Panemangalore PAI

IPC: G16B30/10 ,  G16B40/00

Abstract: Embodiments herein disclose a method for identifying co-evolving sites and and at least one substituent amino acid residue. The method includes obtaining a current state of a protein and an ancestral state of the protein. Further, the method includes determining at least one amino acid substitution along with at least one co-evolving site associated with the protein based on the current state of the protein and the ancestral state of the protein. Further, the method includes assessing the at least one amino acid substitution as a function of a nucleotide substitution in the protein. Further, the method includes assessing at least one co-evolving site substitution based on the at least one assessed amino acid substitution. Further, the method includes identifying the co-evolving sites and at least one substituent amino acid residue.

公开(公告)号：US20180012129A1

公开(公告)日：2018-01-11

申请号：US15639724

申请日：2017-06-30

Applicant: Samsung Electronics Co., Ltd

Inventor： Anirban BHADURI ,  Tadi Venkata SIVA KUMAR ,  Taeyong KIM

IPC: G06N5/02

CPC classification number: G06N5/022 ,  G06N5/04 ,  G16B5/00 ,  G16C20/10

Abstract: Provided are a method and device for assessing a feasibility of one or more biochemical reactions in an organism. The method includes receiving an input representing the organism and input representing one or more biochemical reactions that are to be assessed; computing a reaction feasibility score for each of the one or more input biochemical reactions a knowledgebase; and selecting the biochemical reaction that is likely to occur in the organism.

公开(公告)号：US20200043567A1

公开(公告)日：2020-02-06

申请号：US16528217

申请日：2019-07-31

Applicant: Samsung Electronics Co., Ltd.

Inventor： Tadi Venkata SIVA KUMAR ,  Rajasekhara Reddy DUVVURU MUNI ,  Taeyong Kim

IPC: G16B5/00 ,  G06N20/00 ,  G16B40/00 ,  G16C20/10 ,  G16C20/30 ,  G16C20/70

Abstract: An apparatus and methods for assessing an ability of an organism(s) to metabolize toxic compounds, in a computing environment. Embodiments herein relates to the field of metabolic engineering in biochemical pathways and more particularly to an apparatus and methods for assessing an ability of an organism, a strain of the organism or strain of a different organism(s), to metabolize toxic compounds. The method includes receiving an input corresponding to at least one of a metabolite/compound data, at least one reaction data and at least one pathway data. The received input may be assessed to identify toxic compound(s). Further, reactions and pathway(s) may be determined in the identified toxic compound(s). Furthermore, the identified reactions and pathway(s) may be classified as potential toxic generating route(s) or toxic degrading route(s). The assessment can be used for performing comparative assessment of different strains of an organism/different organisms to achieve reaction diversity.

公开(公告)号：US20190325986A1

公开(公告)日：2019-10-24

申请号：US16391581

申请日：2019-04-23

Applicant: Samsung Electronics Co., Ltd.

Inventor： Garima AGARWAL ,  Tadi Venkata SIVA KUMAR ,  Rajasekhara Reddy DUVVURU MUNI ,  Taeyong KIM

IPC: G16B15/30 ,  G16B15/20 ,  G16B35/20 ,  G16B40/20 ,  G16B45/00 ,  G16C60/00 ,  G16C20/50 ,  G16C20/64 ,  G16C20/70

Abstract: A method of predicting an amino acid substitution includes: receiving input of information regarding a structure of an enzyme along with the site of the enzyme in proximity to a bound ligand; identifying a functional atom of a wild type (WT) amino acid at the site of interest and a functional atom of the ligand; confirming properties of the functional atom of the WT amino acid and the functional atom of the ligand; detecting whether an interaction exists between the functional atom of the WT amino acid and the functional atom of the ligand; selecting alternative amino acids according to a result of the detecting of the interaction; determining a score for each of the selected alternative amino acids, respectively; ranking the selected alternative amino acids, based on the scores; and predicting substitutions of alternative amino acids having high rankings from among the selected alternative amino acids.