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Table 6 A comparison of the reconstruction accuracy spread of the different methods on the synthetic dataset

From: A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact data

SV

Noise Level 50

 

3DMax

MOGEN

ShRec3D

MCMC5C

 set0

0.9708

0.9755

0.7928

0.0481

 set1

0.9552

0.9648

0.8188

0.0779

 set2

0.8405

0.8625

0.7175

0.1477

 set3

0.6505

0.6406

0.5722

0.1201

 set4

0.5302

0.5135

0.502

0.1916

 set5

0.5211

0.4945

0.4938

0.1614

 set6

0.5303

0.5211

0.4767

0.1938

SV

Noise Level 100

 

3DMax

MOGEN

ShRec3D

MCMC5C

 set0

0.9753

0.9835

0.9239

0.3514

 set1

0.963

0.968

0.9133

0.2642

 set2

0.8578

0.8527

0.8072

0.3792

 set3

0.6555

0.6039

0.6338

0.2068

 set4

0.5703

0.4991

0.532

0.2456

 set5

0.5342

0.4728

0.5183

0.1299

 set6

0.5535

0.47

0.5026

0.1578

SV

Noise Level 150

 

3DMax

MOGEN

ShRec3D

MCMC5C

 set0

0.976

0.9734

0.876

0.1933

 set1

0.959

0.96

0.8613

0.2275

 set2

0.8612

0.8485

0.7572

0.1016

 set3

0.6821

0.6362

0.6546

0.0791

 set4

0.5713

0.4915

0.5475

0.1146

 set5

0.5285

0.4835

0.5268

0.0858

 set6

0.5601

0.4318

0.5009

0.1106

SV

Noise Level 200

 

3DMax

MOGEN

ShRec3D

MCMC5C

 set0

0.9771

0.9655

0.8499

0.0481

 set1

0.9627

0.9533

0.8481

0.0779

 set2

0.8634

0.8514

0.7743

0.1477

 set3

0.6724

0.6606

0.6726

0.1201

 set4

0.5679

0.5131

0.5559

0.1916

 set5

0.5435

0.4886

0.5292

0.1614

 set6

0.5487

0.4554

0.4992

0.1938

  1. The reconstruction accuracy for 3DMax, MOGEN, ShRec3D, and MCMC5C at different levels of noise and structural variability. The dataset has resolution 150 bp/nm and TAD like feature architecture. Noise Level 50: comparison of dSCC value at Noise Level 50, Noise Level 100: comparison of dSCC value at Noise Level 100, Noise Level 150: comparison of dSCC value at Noise Level 150, Noise Level 200: comparison of dSCC value at Noise Level 200. The table values denote the distance Spearman correlation coefficient (dSCC) score in the range [−1,1] and the SV denotes the structural variability level. Set 0-6 denotes seven different levels of structural variability in the increasing order. A higher dSCC value means the better accuracy
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BMC Genomics

ISSN: 1471-2164

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