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Published at November 27

GeneQuery: A General QA-based Framework for Spatial Gene Expression Predictions from Histology Images

cs.CV

Released Date: November 27, 2024

Authors: Ying Xiong¹, Linjing Liu², Yufei Cui³, Shangyu Wu⁴, Xue Liu¹, Antoni B. Chan⁴, Chun Jason Xue¹

Aff.: ¹MBZUAI; ²CUHK; ³McGill University; ⁴CityU

Arxiv: http://arxiv.org/abs/2411.18391v1

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Datasets		STNet [7]	HistoGene [8]	BLEEP [9]	GeneQuery_gene	GeneQuery_spot
GSE	HEG	0.126 $\pm$ 0.005	0.072 $\pm$ 0.018	0.175 $\pm$ 0.016	0.243 $\pm$ 0.028	0.256 $\pm$ 0.039
	HVG	0.091 $\pm$ 0.007	0.071 $\pm$ 0.011	0.173 $\pm$ 0.011	0.230 $\pm$ 0.028	0.238 $\pm$ 0.037
	ALL	0.031 $\pm$ 0.009	0.003 $\pm$ 0.001	0.014 $\pm$ 0.003	0.054 $\pm$ 0.008	0.051 $\pm$ 0.015
HER2+	HEG	0.298 $\pm$ 0.032	0.063 $\pm$ 0.016	0.298 $\pm$ 0.090	0.315 $\pm$ 0.030	0.317 $\pm$ 0.074
	HVG	0.302 $\pm$ 0.026	0.064 $\pm$ 0.012	0.322 $\pm$ 0.100	0.318 $\pm$ 0.025	0.315 $\pm$ 0.079
	ALL	0.136 $\pm$ 0.011	0.016 $\pm$ 0.008	0.120 $\pm$ 0.051	0.159 $\pm$ 0.027	0.174 $\pm$ 0.049
HBD	HEG	0.189 $\pm$ 0.019	0.053 $\pm$ 0.012	0.191 $\pm$ 0.037	0.200 $\pm$ 0.009	0.149 $\pm$ 0.029
	HVG	0.209 $\pm$ 0.017	0.051 $\pm$ 0.012	0.208 $\pm$ 0.050	0.212 $\pm$ 0.010	0.152 $\pm$ 0.032
	ALL	0.073 $\pm$ 0.011	0.015 $\pm$ 0.004	0.068 $\pm$ 0.014	0.061 $\pm$ 0.007	0.068 $\pm$ 0.021