Lysosome and Cytoskeleton Pathways Are Robustly Enriched in the Blood of Septic Patients: A Meta-Analysis of Transcriptomic Data

Table 3

Top 15 upregulated genes in lysosome (a) and cytoskeleton (b) pathways across seven datasets. Genes demonstrated a fold-change of greater than 1.5 and value of less than 0.05 (the −log values are shown in parentheses) are displayed.

(a) Lysosome pathway

Gene Symbol	Gene Name	#1	#2	#3	#4	#5	#6	#7	PubMatrix
SORT1	Sortilin 1	2.16 (13)	4.05 (9.8)	4.48 (10.5)	5.19 (8.4)	4.86 (4.4)	7.82 (2.3)	—	0
CTSD	Cathepsin D	1.86 (10.9)	2.57 (7)	2.36 (6)	2.1 (8)	2.75 (8.8)	—	5.94 (5.9)	3
SLC11A1	Solute carrier family 11 (proton-coupled divalent metal ion transporter), member 1	3.69 (5.6)	2.62 (6.5)	3.98 (8.4)	2.4 (5)	3.31 (5.3)	3.85 (4.7)	—	4
CD63	CD63 molecule	2.02 (5.9)	3.35 (8.4)	3 (10.5)	2.84 (8.7)	2.82 (6.1)	—	—	38
GNS	Glucosamine (N-acetyl)-6-sulfatase	—	3.17 (5.9)	3.91 (8.3)	2.76 (6.3)	1.85 (5.8)	—	2.77 (4.4)	10
GM2A	GM2 ganglioside activator	—	1.85 (4.2)	2.55 (6.5)	2.42 (7.6)	3.11 (5)	6.17 (3.7)	—	0
LAMP2	Lysosomal-associated membrane protein 2	—	—	1.79 (2.2)	1.63 (3.7)	1.56 (6)	2.02 (3.9)	3.66 (2.7)	6
LAPTM4B	Lysosomal protein transmembrane 4 beta	1.76 (7)	—	1.54 (3.4)	1.82 (2)	2.31 (3.3)	2.07 (3.8)	—	0
CTSA	Cathepsin A	1.98 (13.6)	2.13 (5.3)	2.26 (4.8)	1.81 (4.3)	—	—	—	4
GLA	galactosidase, alpha	—	1.63 (5.2)	1.65 (4.3)	1.52 (7.4)	1.68 (6.5)	—	1.59 (2.6)	95
NEU1	sialidase 1 (lysosomal sialidase)	—	1.67 (4.1)	1.65 (3.6)	—	1.87 (9.3)	—	1.93 (2.1)	0
CTSB	cathepsin B	—	2.41 (6.2)	2.05 (4)	—	—	1.84 (5.1)	1.78 (3.3)	2
ATP6AP1	ATPase, H+ transporting, lysosomal accessory protein 1	—	—	1.59 (3.8)	—	1.67 (4.4)	2.12 (4.3)	1.57 (4.1)	0
LAMP1	lysosomal-associated membrane protein 1	—	1.55 (2.1)	1.62 (3.2)	—	—	1.68 (5.3)	—	4
AP3B2	adaptor-related protein complex 3, beta 2 subunit	—	—	1.6 (2.1)	2.32 (4.6)	266.89 (3.8)	—	—	0

(b) Cytoskeleton pathway

Gene Symbol	Gene Name	#1	#2	#3	#4	#5	#6	#7	PubMatrix
ITGAM	integrin, alpha M (complement component 3 receptor 3 subunit)	1.72 (7.98)	2.82 (6.41)	2.88 (9.42)	3.19 (8.44)	3.16 (9.19)	4.36 (6.19)	4.01 (3.99)	356
LIMK2	LIM domain kinase 2	1.69 (3.39)	2.83 (5.24)	4.3 (9.27)	2.08 (4.79)	5.72 (8.34)	11.72 (4.1)	—	0
PDGFC	platelet derived growth factor C	1.9 (9.1)	2.55 (2.75)	2.63 (3.84)	6.04 (5.54)	2.86 (3.22)	7.74 (3.45)	—	0
PIK3CB	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta	—	1.96 (3.54)	2.8 (6.61)	2.57 (6.07)	2.08 (8.43)	3.55 (3.7)	2.99 (3.7)	3
SOS2	son of sevenless homolog 2 (Drosophila)	1.58 (4.52)	2.32 (4.43)	2.66 (5.3)	2.41 (4.77)	2.67 (7.69)	3.57 (3.7)	—	0
GSN	gelsolin	1.87 (10.35)	2.09 (4.28)	1.63 (3.04)	1.59 (2.47)	2.09 (4.99)	2.93 (3.74)	—	2
SSH1	slingshot homolog 1	1.67 (4.24)	2.17 (4.97)	2.12 (4.54)	1.68 (3.17)	1.69 (2.17)	4.85 (2.4)	—	0
FGF13	fibroblast growth factor 13	—	3.6 (3.81)	4.87 (5.35)	6.27 (10.06)	12.36 (4.07)	105.9 (2.54)	—	0
DIAPH2	diaphanous homolog 2	—	1.65 (2.4)	2.23 (6.84)	2.47 (7.12)	2.08 (4.64)	2.71 (2.21)	—	0
PAK2	p21 (CDKN1A)-activated kinase 2	—	1.76 (4.62)	1.82 (5.18)	—	1.88 (9.03)	1.70 (3.78)	1.84 (2.27)	0
CD14	CD14 molecule	1.54 (5.97)	2.51 (4.48)	2.33 (3.18)	—	1.54 (2.56)	1.77 (2)	—	1564
ITGA2B	integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41)	3.09 (9.06)	1.74 (2.6)	—	4.42 (4.9)	—	3.44 (3.84)	—	0
BRAF	B-Raf proto-oncogene, serine/threonine kinase	—	1.94 (3.7)	2.2 (9.68)	2.68 (8.92)	—	1.90 (2.04)	—	2
MYL9	myosin, light chain 9, regulatory	3.39 (10.79)	—	—	3.38 (3.84)	2.25 (2.45)	2.53 (2.01)	—	0
MAPK1	mitogen-activated protein kinase 1	—	2 (7.85)	1.85 (2.74)	1.79 (6.61)	—	1.89 (4.94)	—	137

GEO series #1 to 7 are listed: GSE30119, GSE8121, GSE9692, GSE28750, GSE13015-6106, GSE13015-6947 and GSE21802.
Number of publications associated with search terms “sepsis”, “severe sepsis” or “septic shock” in PubMed by searching the PubMatrix database.