Data-independent acquisition mass spectrometry in severe rheumatic heart disease (RHD) identifies a proteomic signature showing ongoing inflammation and effectively classifying RHD cases

Salie, M. Taariq; Yang, Jing; Ramírez Medina, Carlos R.; Zühlke, Liesl J.; Chishala, Chishala; Ntsekhe, Mpiko; Gitura, Bernard; Ogendo, Stephen; Okello, Emmy; Lwabi, Peter; Musuku, John; Mtaja, Agnes; Hugo-Hamman, Christopher; El-Sayed, Ahmed; Damasceno, Albertino; Mocumbi, Ana; Bode-Thomas, Fidelia; Yilgwan, Christopher; Amusa, Ganiyu A.; Nkereuwem, Esin; Shaboodien, Gasnat; Da Silva, Rachael; Lee, Dave Chi Hoo; Frain, Simon; Geifman, Nophar; Whetton, Anthony D.; Keavney, Bernard; Engel, Mark E.

doi:10.1186/s12014-022-09345-1

Clinical Proteomics

Table 2 List of biomarkers identified from Boruta package with their log2-scaled mean expression in cases, controls, log2 fold change, mean permutation importance (meanImp); and with Odds Ratios (ORs), 95% Confidence Interval (CI), p-values and AUCs from single-marker LR models adjusted for age, sex, BMI, and age*BMI

From: Data-independent acquisition mass spectrometry in severe rheumatic heart disease (RHD) identifies a proteomic signature showing ongoing inflammation and effectively classifying RHD cases

UniProt ID	ProteinName	Mean of log2-scaled expression in cases	Mean of log2-scaled expression in controls	Log2-fold change	meanImp	OR with 95% CI	P value	AUC
Q15848	ADIPOQ	11.21	10.08	1.14	13.67	1.18 [1.13–1.24]	2.00e−12	0.820
P10643	C7	16.72	16.00	0.72	11.76	3.40 [2.41–4.93]	2.14e−11	0.815
O00391	QSOX1	12.49	11.96	0.52	9.95	1.27 [1.12–1.47]	5.58e−04	0.774
P35858	IGFALS	15.40	15.99	− 0.60	9.20	0.34 [0.23–0.48]	2.16e−09	0.799
P20742	PZP	16.64	15.79	0.85	8.95	2.25 [1.73–3.00]	7.98e−09	0.794
P80108	GPLD1	12.63	13.30	− 0.67	8.45	0.40 [0.29–0.54]	2.94e−09	0.799
P23142	FBLN1	13.86	13.31	0.55	7.49	1.96 [1.46–2.68]	1.44e−05	0.792
P25311	AZGP1	16.57	17.07	-0.49	7.00	0.35 [0.24–0.49]	5.30e−09	0.794
P36955	SERPINF1	15.19	15.66	-0.47	6.66	0.33 [0.22–0.49]	6.07e−08	0.785
P06396	GSN	16.92	17.49	− 0.57	6.63	0.39 [0.28–0.54]	2.86e−08	0.787
P00450	CP	20.34	19.91	0.44	6.39	2.34 [1.67–3.35]	1.49e−06	0.781
Q99784	OLFM1	10.93	10.53	0.40	6.06	1.09 [1.05–1.14]	5.16e−05	0.770
P02743	APCS	16.32	16.92	− 0.60	6.04	0.36 [0.26–0.50]	1.19e−09	0.795
P02749	APOH	18.54	18.98	− 0.44	5.94	0.38 [0.26–0.54]	2.28e−07	0.784
P19320	VCAM1	10.77	10.19	0.58	5.95	1.09 [1.05–1.14]	4.17e−05	0.773
P61626	LYZ	12.45	12.00	0.46	5.78	1.09 [1.05–1.15]	1.50e−04	0.771
O75636	FCN3	14.02	14.82	− 0.81	5.60	0.60 [0.47–0.76]	2.65e−05	0.811
P30041	PRDX6	14.82	14.44	0.37	5.44	1.41 [1.14–1.99]	1.93e−02	0.770
P05546	SERPIND1	18.07	18.52	− 0.45	5.31	0.40 [0.29–0.55]	5.20e−08	0.787
P07333	CSF1R	11.08	10.59	0.49	5.26	1.08 [1.03–1.13]	2.99e−03	0.761
P51884	LUM	17.03	16.78	0.25	5.15	1.52 [1.12–2.08]	7.48e−03	0.757
Q06033	ITIH3	15.51	15.16	0.35	5.08	1.73 [1.27–2.39]	6.97e−04	0.768
P07237	P4HB	16.41	15.69	0.72	5.08	1.02 [0.99–1.05]	1.63e−01	0.743
P05090	APOD	17.00	17.48	− 0.48	4.90	0.49 [0.36–0.66]	2.84e−06	0.778
P02766	TTR	17.61	18.21	− 0.60	4.73	0.49 [0.37–0.64]	1.73e−07	0.784
P62701	RPS4X	12.94	13.36	− 0.41	4.61	0.96 [0.90–1.02]	1.53e−01	0.747
P02741	CRP	13.94	12.77	1.17	4.27	1.13 [1.08–1.19]	1.25e−06	0.793
P61769	B2M	12.01	11.53	0.48	4.25	1.06 [1.01–1.11]	1.17e−02	0.761
P11413	G6PD	18.30	17.83	0.47	4.25	1.01 [0.97–1.07]	5.83e−01	0.743
Q9UK55	SERPINA10	12.92	13.13	-0.22	4.13	0.63 [0.42–0.90]	2.60e−02	0.769
P02790	HPX	21.43	21.87	-0.43	4.07	0.31 [0.20–0.45]	1.30e−08	0.793
P29622	SERPINA4	15.16	15.55	− 0.39	4.08	0.44 [0.30–0.62]	4.65e−06	0.771
Q86VB7	CD163	11.00	10.66	0.34	3.97	1.06 [1.02–1.11]	8.43e−03	0.753
O95445	APOM	16.09	16.54	− 0.45	3.92	0.93 [0.85–1.00]	4.80e−02	0.751
P17948	FLT1	13.21	13.51	− 0.30	3.91	0.99 [0.96–1.02]	6.26e−01	0.743
Q9Y6U3	SCIN	15.26	15.83	− 0.57	3.80	0.35 [0.25–0.48]	3.02e−10	0.800
P35442	THBS2	12.24	11.83	0.42	3.63	1.06 [1.02–1.10]	2.83e−03	0.760
O75369	FLNB	18.95	18.23	0.72	3.64	1.03 [1.01–1.06]	2.12e−02	0.756
P02750	LRG1	17.10	16.72	0.39	3.39	1.63 [1.26–2.12]	2.72e−04	0.768
O14791	APOL1	13.31	13.73	− 0.42	3.36	0.46 [0.34–0.62]	4.13e−07	0.788
P06276	BCHE	13.58	14.07	− 0.48	3.35	0.50 [0.36–0.70]	5.44e−05	0.789
P04424	ASL	16.30	15.70	0.60	3.31	0.99 [0.97–1.02]	5.62e−01	0.743
P05186	ALPL	13.55	13.83	− 0.27	3.25	0.94 [0.91–0.98]	1.74e−03	0.757
P02654	APOC1	15.45	15.95	− 0.50	3.26	0.59 [0.46–0.76]	4.60e−05	0.774
O43707	ACTN4	18.53	18.14	0.39	3.24	1.07 [1.03–1.11]	7.18e−04	0.760
P27169	PON1	16.08	16.63	− 0.55	3.22	0.54 [0.40–0.72]	4.19e−05	0.790
P32119	PRDX2	12.60	12.75	− 0.14	3.14	0.95 [0.90–1.00]	3.03e−02	0.750
P19827	ITIH1	18.66	19.01	− 0.34	3.16	0.45 [0.31–0.64]	1.49e−05	0.767
P03952	KLKB1	15.75	16.10	− 0.35	3.07	0.43 [0.30–0.62]	7.24e−06	0.782
O14980	XPO1	15.74	15.31	0.43	3.09	1.05 [1.00–1.11]	6.13e−02	0.753
Q6UX04	CWC27	14.37	14.74	− 0.38	3.04	0.96 [0.94–0.99]	1.44e−02	0.752
P02656	APOC3	15.32	15.93	− 0.61	2.96	0.71 [0.58–0.86]	5.84e−04	0.764
Q9H4G4	GLIPR2	12.70	12.28	0.42	2.93	1.01 [0.97–1.05]	7.13e−01	0.743
P19823	ITIH2	19.26	19.54	− 0.28	2.92	0.54 [0.37–0.76]	4.83e−04	0.760
P22307	SCP2	14.59	14.09	0.50	2.89	1.04 [1.00–1.07]	3.36e−02	0.752
P17936	IGFBP3	13.75	14.11	− 0.36	2.88	0.53 [0.37–0.73]	1.94e−04	0.763

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