公开(公告)号：US20240249797A1

公开(公告)日：2024-07-25

申请号：US18424587

申请日：2024-01-26

Applicant: Ultima Genomics, Inc.

Inventor： Yoav ETZIONI ,  Edward PERELMAN ,  Asaf HALLE

IPC: G16B30/00 ,  C12Q1/6874 ,  G16B40/20

CPC classification number: G16B30/00 ,  C12Q1/6874 ,  G16B40/20

Abstract: Methods for updating a system comprising a sequencer are described herein. In some exemplary methods, the system is updated through generating sequencing data for a plurality of nucleic acid molecule colonies, selecting sequencing data for a subset of the nucleic acid molecule colonies, calling preliminary sequences for the subset of the nucleic acid colonies, mapping the called preliminary sequences to a known reference sequence, and updating the pre-trained sequencer-specific machine-learning model. Also described herein are systems for carrying out such methods and computer readable memory for storing such methods.

公开(公告)号：US20240274237A1

公开(公告)日：2024-08-15

申请号：US18410051

申请日：2024-01-11

Applicant: ULTIMA GENOMICS, INC.

Inventor： Yoav ETZIONI ,  Omer BARAD ,  Florian OBERSTRASS ,  Edward PERELMAN ,  Mark GESHEL

IPC: G16B30/00 ,  G16B45/00

CPC classification number: G16B30/00 ,  C12Q1/6876 ,  G16B45/00 ,  C12Q1/6869 ,  G16B35/00

Abstract: Provided herein are methods, systems, and compositions for generating and selecting barcode sequences. A method for selecting barcode sequences may comprise generating a set of sequence data for the barcode sequences and filtering the data using one or more criteria or filters to provide a filtered set of barcode sequences. The resultant filtered set of barcode sequences may satisfy one or more selection criteria and may be sufficiently diverse from one another.

公开(公告)号：US20240153583A1

公开(公告)日：2024-05-09

申请号：US18417825

申请日：2024-01-19

Applicant: Ultima Genomics, Inc.

Inventor： Yoav ETZIONI ,  Edward PERELMAN

IPC: G16B30/00 ,  G16B40/30

CPC classification number: G16B30/00 ,  G16B40/30

Abstract: Described herein are methods and systems for improving nucleic acid sequencing read quality. An exemplary method comprises receiving, at one or more processors, sequencing data comprising a plurality of sequencing reads; filtering the sequencing data, using the one or more processors, to remove sequencing reads for which an absence of an incorporated nucleotide was detected at three or more consecutive sequencing flow steps, thereby generating filtered sequencing data; determining, using the one or more processors, for each sequencing flow step of each sequencing read, a read quality metric based on one or more homopolymer probability values other than a highest homopolymer probability value; and trimming the terminus of one or more sequencing reads in the sequencing data based on the read quality metrics for a respective sequencing read, thereby generating trimmed sequencing data.