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Beni-Suef University Journal of Basic and Applied Sciences

Table 3 Topological parameter analysis using NetworkAnalyzer: All the genes in the network are analysed for the topological parameter (top 20 genes with high CC and least average shortest path length)

From: Exploring key molecular signatures of immune responses and pathways associated with tuberculosis in comorbid diabetes mellitus: a systems biology approach

Genes

Avg shortest path length

Clustering coefficient

CC

Stree

Degree

BC

Neighbourhood connectivity

Radiality

Topological coefficient

STAT1

2.821192

0.216766

0.35446

544,986

64

0.037979

30.35938

0.817881

0.07397104

IL-10

2.826869

0.171044

0.353748

493,032

55

0.033681

28.34545

0.817313

0.06629764

EGF

2.852412

0.207483

0.35058

449,756

49

0.040504

26.14286

0.814759

0.06377551

ITGAM

2.882687

0.224886

0.346899

560,624

73

0.036693

29.83562

0.811731

0.07492944

MAPK14

2.900662

0.07309

0.344749

862,926

43

0.055699

23.09302

0.809934

0.06424581

TLR4

2.904447

0.17139

0.3443

276,442

39

0.020693

28.66667

0.809555

0.07713042

IL-1β

2.92053

0.15641

0.342404

243,614

40

0.018198

24.55

0.807947

0.0637013

JAK2

2.924314

0.172414

0.341961

179,722

30

0.014197

26.7

0.807569

0.07544854

CD44

2.935667

0.263768

0.340638

291,368

46

0.02095

32.3913

0.806433

0.08540373

CD19

2.950804

0.209059

0.338891

265,706

42

0.020744

25.2381

0.80492

0.06997354

FCGR1A

2.982025

0.320513

0.335343

239,952

40

0.012874

32.775

0.801798

0.1021028

SOS1

2.987701

0.124736

0.334706

354,612

44

0.030432

19.04545

0.80123

0.05614578

MYC

2.987701

0.097166

0.334706

611,210

39

0.056718

17.38462

0.80123

0.05597453

LCK

2.989593

0.168175

0.334494

451,424

52

0.027723

25.28846

0.801041

0.0680593

PLCG1

2.991485

0.129173

0.334282

531,098

53

0.037789

24.5283

0.800851

0.06662897

STAT4

2.997162

0.133333

0.333649

271,400

21

0.02555

22.71429

0.800284

0.07681018

MMP9

3.005676

0.287449

0.332704

299,480

39

0.024128

27.51282

0.799432

0.08581731

GNG7

3.047304

0.417798

0.328159

417,720

52

0.017441

29.46154

0.79527

0.11145105

GNG11

3.049196

0.452245

0.327955

380,978

50

0.013659

30.64

0.79508

0.11518797

GNB4

3.049196

0.452245

0.327955

380,978

50

0.013659

30.64

0.79508

0.11518797

  1. The top 20 genes with the least average shortest path length and the highest closeness centrality values are listed. The average shortest path length gives the expected distance between the two connected nodes, and genes with the shortest path length and high closeness centrality are considered as the controlling points of molecular communication. The cluster coefficient value lies in between 0 and 1. The value 0 indicates the node with less than 2 neighbours
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