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Table 1 High enrichment for alternative splicing pre- and post-DBS on and off stimulation

From: Deep brain stimulation modulates nonsense-mediated RNA decay in Parkinson’s patients leukocytes

Type

Category

Term

Count

%

p-value

PD

SP_PIR_KEYWORDS

cytoplasm

72

2.875

0.000

 

GOTERM_CC_FAT

GO:0043232 ~ intracellular non-membrane-bounded organelle

57

2.205

0.000

 

SP_PIR_KEYWORDS

phosphoprotein

128

4.952

0.000

 

GOTERM_CC_FAT

GO:0005819 ~ spindle

11

0.426

0.000

 

SP_PIR_KEYWORDS

alternative splicing

129

4.990

0.000

 

UP_SEQ_FEATURE

splice variant

129

4.990

0.000

 

GOTERM_CC_FAT

GO:0015630 ~ microtubule cytoskeleton

20

0.774

0.000

 

GOTERM_CC_FAT

GO:0005856 ~ cytoskeleton

35

1.354

0.000

 

GOTERM_CC_FAT

GO:0044430 ~ cytoskeletal part

26

1.006

0.000

 

GOTERM_CC_FAT

GO:0031974 ~ membrane-enclosed lumen

40

1.547

0.001

 

GOTERM_BP_FAT

GO:0033554 ~ cellular response to stress

19

0.735

0.001

 

SP_PIR_KEYWORDS

cytoskeleton

20

0.774

0.001

 

SP_PIR_KEYWORDS

atp-binding

31

1.199

0.002

 

GOTERM_MF_FAT

GO:0004674 ~ protein serine/threonine kinase activity

15

0.580

0.003

 

GOTERM_BP_FAT

GO:0006259 ~ DNA metabolic process

16

0.619

0.003

 

GOTERM_CC_FAT

GO:0070013 ~ intracellular organelle lumen

36

1.393

0.003

 

GOTERM_BP_FAT

GO:0032092 ~ positive regulation of protein binding

3

0.116

0.004

 

GOTERM_CC_FAT

GO:0005815 ~ microtubule organizing center

10

0.387

0.004

 

GOTERM_MF_FAT

GO:0000166 ~ nucleotide binding

46

1.779

0.005

 

GOTERM_CC_FAT

GO: 0005694 ~ chromosome

14

0.542

0.005

 

GOTERM_CC_FAT

GO:0043233 ~ organelle lumen

36

1.393

0.005

 

SP_PIR_KEYWORDS

acetylation

50

1.934

0.005

 

GOTERM_CC_FAT

GO:0070161 ~ anchoring junction

8

0.309

0.006

 

GOTERM_MF_FAT

GO:0005524 ~ ATP binding

33

1.277

0.006

 

SP_PIR_KEYWORDS

nucleotide-binding

35

1.354

0.006

 

GOTERM_CC_FAT

GO:0005813 ~ centrosome

9

0.348

0.007

 

GOTERM_MF_FAT

GO:0032559 ~ adenyl ribonucleotide binding

33

1.277

0.008

 

SP_PIR_KEYWORDS

transferase

30

1.161

0.008

 

GOTERM_BP_FAT

GO:0030099 ~ myeloid cell differentiation

6

2.232

0.008

 

GOTERM_BP_FAT

GO:0009057 ~ macromolecule catabolic process

20

0.774

0.008

 

GOTERM_CC_FAT

GO:0019898 ~ extrinsic to membrane

14

0.542

0.009

 

GOTERM_MF_FAT

GO:0030554 ~ adenyl nucleotide binding

34

1.315

0.009

DBS

UP_SEQ_FEATURE

FEATURE splice variant

115

53.488

0.000

 

SP_PIR_KEYWORDS

phosphoprotein

112

52.093

0.000

 

SP_PIR_KEYWORDS

alternative splicing

114

53.023

0.000

 

UP_SEQ_FEATURE

domain:EH 1

3

1.395

0.002

 

UP_SEQ_FEATURE

domain:EH 2

3

1.395

0.002

 

GOTERM_CC_FAT

GO:0005829 ~ cytosol

25

11.628

0.007

OFF

SP_PIR_KEYWORDS

alternative splicing

63

55.263

0.000

 

UP_SEQ_FEATURE

splice variant

61

53.509

0.001

  1. The functional terms as well as sequence feature and domains detected as the highest enriched in spliced transcripts of leukocyte RNA extracted from blood samples of advanced PD patients’ pre-DBS and post-DBS ON- and following one hour OFF- stimulus (p < 0.01) are shown. Red: the repeatedly appearing term alternative splicing. Given are: the compared state (PD: patients pre-DBS compared with control volunteers, DBS: PD patients post-DBS on electrical stimulation as compared with pre-DBS state, OFF: PD patients post-DBS following one hour of electrical stimulation cessation. Category: the type of term, term: the name of the term (and Gene Ontology – GO- ID for GO terms), count: the number of spliced transcripts that are associated with the corresponding term, %: the percent of the spliced transcripts in the term, p-value: statistical significance.
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BMC Genomics

ISSN: 1471-2164

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