EP 3970151 A1 20220323 - BASE CALLING USING CONVOLUTIONS
Title (en)
BASE CALLING USING CONVOLUTIONS
Title (de)
BASE-CALLING UNTER VERWENDUNG VON FALTUNGEN
Title (fr)
APPEL DE BASE AU MOYEN DE CONVOLUTIONS
Publication
Application
Priority
- US 201962849091 P 20190516
- US 201962849132 P 20190516
- US 201962849133 P 20190516
- US 202016874599 A 20200514
- US 202016874633 A 20200514
- US 2020033281 W 20200515
Abstract (en)
[origin: CA3104851A1] We propose a neural network-based base caller that detects and accounts for stationary, kinetic, and mechanistic properties of the sequencing process, mapping what is observed at each sequence cycle in the assay data to the underlying sequence of nucleotides. The neural network-based base caller combines the tasks of feature engineering, dimension reduction, discretization, and kinetic modelling into a single end-to-end learning framework. In particular, the neural network-based base caller uses a combination of 3D convolutions, ID convolutions, and pointwise convolutions to detect and account for assay biases such as phasing and prephasing effect, spatial crosstalk, emission overlap, and fading.
IPC 8 full level
G16B 30/00 (2019.01); G06T 7/00 (2017.01)
CPC (source: EP)
G01N 21/6428 (2013.01); G01N 21/6454 (2013.01); G06F 18/24133 (2023.01); G06V 10/82 (2022.01); G16B 30/00 (2019.02); G16B 40/10 (2019.02); C12Q 1/6869 (2013.01); G06N 3/045 (2023.01); G06N 3/048 (2023.01); G06N 3/082 (2013.01); G06N 3/084 (2013.01); G06N 3/088 (2013.01); G06N 5/022 (2013.01); G06N 5/048 (2013.01)
Designated contracting state (EPC)
AL AT BE BG CH CY CZ DE DK EE ES FI FR GB GR HR HU IE IS IT LI LT LU LV MC MK MT NL NO PL PT RO RS SE SI SK SM TR
Designated extension state (EPC)
BA ME
DOCDB simple family (publication)
AU 2020273459 A1 20210107; AU 2020276115 A1 20210107; CA 3104851 A1 20201119; CA 3104854 A1 20201119; CN 112313750 A 20210202; CN 112313750 B 20231117; CN 112368567 A 20210212; CN 112368567 B 20240416; CN 117935916 A 20240426; EP 3969884 A1 20220323; EP 3969884 B1 20240417; EP 3969884 C0 20240417; EP 3970151 A1 20220323
DOCDB simple family (application)
AU 2020273459 A 20200515; AU 2020276115 A 20200515; CA 3104851 A 20200515; CA 3104854 A 20200515; CN 202080003513 A 20200515; CN 202080003540 A 20200515; CN 202311510081 A 20200515; EP 20730877 A 20200515; EP 20733084 A 20200515