Comparative Analysis of Protein Expression Concomitant with DNA Methyltransferase 3A Depletion in a Melanoma Cell Line

doi:10.4236/ajac.2011.25064

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American Journal of Anal yt ical Chemistry, 2011, 2, 539-572

doi:10.4236/ajac.2011.25064 Published Online September 2011 (http://www.SciRP.org/journal/ajac)

Comparative Analysis of Protein Expression

Concomitant with DNA Methyltransferase

3A Depletion in a Melanoma Cell Line

Shengnan Tang1,#, Xiaoyan Liu1,#, Tonghua Li1*, Haoyue Wang2, Jiangming Sun1,

Qian Qiao1, Jun Yao3, Jian Fei2

1Department of Chemistry, Tongji University, Shanghai, China

2School of Life Science & Technology, Tongji University, Shanghai, China

3School of Medicine, Fudan University, Shanghai, China

E-mail: *lith@tongji.edu.cn

Received March 17, 2011; revised May 3, 2011; accepted June 1, 2011

Abstract

DNA methyltransferase 3A (Dnmt3a), a de novo methyltransferase, has attracted a great deal of attention for

its important role played in tumorigenesis. We have previously demonstrated that melanoma is unable to

grow in-vivo in conditions of Dnmt3a depletion in a mouse model. In this study, we cultured the Dnmt3a

depletion B16 melanoma (Dnmt3a-D) cell line to conduct a comparative analysis of protein expression

con-comitant with Dnmt3a depletion in a melanoma cell line. After two-dimensional separation, by gel elec-

tro-phoresis and liquid chromatography, combined with mass spectrometry analysis (1DE-LC-MS/MS), the

re-sults demonstrated that 467 proteins were up-regulated and 535 proteins were down-regulated in the

Dnmt3a-D cell line compared to the negative control (NC) cell line. The Genome Ontology (GO) and KEGG

pathway were used to further analyze the altered proteins. KEGG pathway analysis indicated that the MAPK

signaling pathway exhibited a greater alteration in proteins, an interesting finding due to the close rela-

tion-ship with tumorigenesis. The results strongly suggested that Dnmt3a potentially controls the process of

tu-morigenesis through the regulation of the proteins (JNK1, p38α, ERK1, ERK2, and BRAF) involved in

tu-mor-related pathways, such as the MAPK signaling pathway and melanoma pathway.

Keywords: Dnmt3a, Melanoma Cell Line, 1DE-LC-MS/MS; MAPK Signaling Pathway, Melanoma Pathway

1. Introduction

Malignant melanoma, one of the most aggressive of all

skin cancers, exhibits a high skin cancer mortality rate

[1]. Upon metastasis, the disease is incurable in most

affected people as melanoma does not respond to most

systemic treatments and chemotherapy drugs [2].

It is well established that malignant melanoma con-

tains at least 50 genes that exhibit differential expression

as abnormal methylation changes emerge in the promoter

region [3-5], and that DNA methylation patterns are es-

tablished and maintained by the coordinated action of

three DNA methyltransferases (Dnmts). It has been de-

monstrated that Dnmt1 [6,7], Dnmt3a, and Dnmt3b [8]

are over-expressed in many malignant tumors [9]. Dnmt-

3a plays an important role in epigenetic modification that

has attracted a great deal of attention in recent years

[10,11]. It has been reported that epigenetic modification

is induced by hepatitis B virus X protein via interaction

with de novo DNA methyltransferase-Dnmt3a [10]. Ad-

ditionally, Dnmt3a has been found to maintain DNA

methylation and regulate synaptic function in adult fore-

brain neurons [12]. Furthermore, it has been demon-

strated that Dnmt3a-dependent non-promoter DNA me-

thylation facilitates the transcription of neurogenic genes

[13]. Recently, studies of Dnmt3a have focused on its

effect on proliferation and apoptosis of hepatocellular

carcinoma, colorectal cancer and malignant melanoma

[14-16] In a previous study we demonstrated that tumor

growth inhibition was mediated by Dnmt3a depletion

[17].

In this study we describe the proteomic experiment

and comparative analysis of protein expression in the

#These authors contributed equally to this work.

X. Y. LIU ET AL.

540

Dnmt3a depletion B16 melanoma (Dnmt3a-D) cell line.

The mouse B16 melanoma cell line used in our study

exhibited a specific down-regulation of Dnmt3a via sta-

ble transfection using a Dnmt3a-RNAi construct. We

obtained the negative control (NC) cell line through use

of an unrelated, non-target, shRNA expression vector.

Proteins of the NC cell line and Dnmt3a-D cell line were

initially separated by one-dimensional gel electrophore-

sis (1DE), and the two gel tracks were subsequently split

into 20 proteome fractions, respectively, and digested by

trypsin. The peptide fractions were analyzed by capillary

liquid chromatography and high accuracy mass spectro-

metric acquisition on a LTQ-Orbitrap (Thermo Scientific

Germany) in the MS/MS mode using various and com-

plementary fragmentation modes. The results of the

comparative proteomics demonstrated that Dnmt3a de-

pletion affects a large number of proteins. The Genome

Ontology and KEGG pathway were used to group these

altered proteins according to respective cellular compo-

nents, molecular functions, and pathway. The suppres-

sors of skin tumour development JNK1 and p38α [18]

were found to be up-regulated in the MAPK signaling

pathway of the Dnmt3a-D cell line. The oncogene BRAF

was down-regulated in the melanoma pathway of the

Dnmt3a-D cell line. These results strongly suggested that

Dnmt3a depletion potentially inhibits melanoma tumori-

genesis by regulating the proteins involved in tumor-

related pathways.

2. Materials and Methods

2.1. Cell Culture

The B16 cells were purchased from the American Type

Culture Collection (Manassas, VA), cultured in DMEM

supplemented with 10% FBS, and maintained in a hu-

midified incubator at 37˚C and 5% CO2. The sequence of

Dnmt3a shRNA was 5′ gtgcagaaacatcgaggacTTCAAG-

AGAgtcctcgatgtttctg- cac 3′. A non-target shRNA with

the sequence 5′gcaagtctaaccaacgcgt TTCAAGAGAacg-

cgttggtt - agacttgc 3′ was used as negative control (NC).

The process of small hairpin RNA (shRNA) RNAi was

performed as previously described [17]. At this point in

the procedure we chose the B16 cells with Dnmt3a de-

pletion (Dnmt3a-D) for further experiments.

2.2. Protein Extraction and Measurement

After harvesting the cells, the following experimental pro-

cess was conducted (Figure 1). The cells were washed

2-3 times in ice-cold phosphate-buffered saline (PBS),

lysed in 900 μL RIPA lysis buffer (Bi Yun Tian Bio-

technology Research Institute, China) plus 10 μL 100

mM phenylmethanesulfonyl fluoride (PMSF) for ap-

proximately 10 - 20 min. The samples were incubated for

2 s in an ice bath and exposed to an ultrasonic power of

less than 70 W, and then centrifuged for 45 min at

15,000 rpm at 4˚C. The supernatants were then collected

into eppendorf tubes for the next measurement.

The total protein of the cells was measured using the

BCA Protein Assay (Bi Yun Tian Biotechnology Re-

search Institute, China) with bovine serum albumin as a

standard recommended by the manufacturer. The protein

was stored at –80˚C until performance of isoelectro- fo-

cusing (IEF).

2.3. 1-DE and In-Gel Tryptic Digestion

In order to conduct proteomic analysis on proteins expres-

sed at a low level, shotgun proteomics based on 1-DE

separation of total protein was evaluated in addition to

the analysis of peptide mixtures produced by tryptic di-

gestion of proteins in gel fragments by LC-MS/MS.

Equal amounts of NC cell protein and Dnmt3a-D cell

protein (40 μg) were prepared in an identical manner.

Respective samples were separated using small analyti-

cal immobilized pH gradient (IPG) strips (7 cm, 3 - 10

pH gradient; Bio-Rad). The proteins were electro-fo-

cused by initially using a voltage of 8 V/cm for the

stacking gel, and subsequently increasing the voltage to

15 V/cm for the separating gel.

Figure 1. The experimental process of proteomic methods

used in this study.

X. Y. LIU ET AL.

541

Gel lanes were excised from the SDS-PAGE gels us-

ing a razor blade and were divided into 20 slices accord-

ing to the distribution of protein (Figure 2). The proteins

were separated by 12% resolving gel. Each slice was

then further divided into approximately 1 mm3 pieces

and placed into an eppendorf tube. The proteins were

deoxidized, alkylated, dehydrated and digested. The pep-

tide mixtures were extracted with frequent vortexing at

37˚C for 30 min. Samples were evaporated to dryness

and stored at –20˚C until MS analysis.

2.4. LC-MS/MS Analysis

In recent years, the high performance and sensitivity of

the linear quadrupole ion trap-orbitrap (LTQ-Orbitrap)

mass spectrometer has interested researchers due to the

capacity for top-down analysis of complete protein from

tissue, body fluid, and cells [19,20].

The sample was separated using online reverse-phase

nanoscale capillary liquid chromatography, and then

analyzed by electrospray tandem mass spectrometry. The

peptide mixtures loaded and desalted on a C18 trap col-

umn (0.5 mm diameter, 2 mm, MICHROM,USA) using

a Tempo 1D nanoLC system, then separated on a reverse-

phase MagicTM C18 column (100 µm diameter, 15 cm,

MICHROM,USA), using a 120 min linear gradient of

mobile phase A (0.875% ACN/0.125% FA/99% H2O) at

a flow rate of 500 nL/min. The eluent was analyzed on a

Figure 2. SDS-PAGE patterns of NC cell proteins and

Dnmt3a - D cell proteins.

LTQ-orbitrap mass spectrometer (Thermo Electron, Bre-

men, Germany) equipped with a heated Desolvation Ch-

amber Interface set to 200˚C and operated using XCali-

bur software.

The LTQ-orbitrap operated in positive ion mode to

survey full scan mass spectra (from m/z 385 to 2000).

The most intense ten ions were selected for tandem mass

spectrometry and the lock-mass option was used as de-

scribed in previously published reports [21].

2.5. Identification and Analysis of Proteins

SEQUEST (V.28 (rev.12) 1998-2007) was used to iden-

tify proteins based on MS/MS spectra with Bioworks so-

ftware (Rev.3.3.1 SP1, Thermo Scientific). We searched

both forward and reverse sequences against the Swiss-

port Mouse 090303 database in order to estimate the

number of identifications that were false-positive in the

sample.

The parameters for the SEQUEST search were com-

prised of the following criteria: Enzyme, trypsin; Missed

cleavage sites, 2; fragment tolerance, 1.0 Da; peptide to-

lerance, 50.00 ppm; Numerical results, 250; Ion and Ion

Series Calculated, b ion and y ion; Peptide matches, 10;

Report duplicate peptide matches, 10. Oxidation of me-

thionine, methylation of lysine, as well as phosphoryla-

tion of serine, threonine, and tyrosine were specified as

variable modifications.

We inputted the DAT files from SEQUEST to the

Trans-Proteomic Pipeline (TPP) v4.2 JETSTREAM rev

1 (ISB/SPC Proteomics Tools) and searched by allocat-

ing all DAT files in the biological sample. The parame-

ters for peptide identification probability and protein

identification probability were both set at 0.95.

The results were exported and the proteins found to be

altered in the Dnmt3a-D cell line as compared to the NC

cell line were extracted by a program developed in-house.

GO terms of altered proteins for cellular component and

molecular function were searched and checked by

Swiss-Prot (http://expasy.org/sprot/), NCBI (http://www.

ncbi.nlm.nih.gov) and PIR (http://pir.georgetown.edu/

pirwww/index.shtml). The pathways of altered proteins

were established using the KEGG mapper (http://www.

genome.jp/kegg/.html). Demonstration of the role of al-

tered proteins in metabolic channels and signal transduc-

tion pathways was considered significant.

3. Results and Discussion

3.1. Cell Harvest

Growth conditions of the two cell lines were optimized

in our previously reported experiment [17]. Cultured

cells were harvested at a confluence level of 90% (Fig-

X. Y. LIU ET AL.

542

ure 3(a)).

Western blot analysis was employed to test the effi-

ciency and specificity of the Dnmt3a-RNAi. The results

demonstrated that stably transfected B16 Dnmt3a-D cells

exhibited a remarkably low level of Dnmt3a expression.

No change in Dnmt3a expression was observed in the

control NC shRNA transfected cells. The expression of

Dnmt3b was not affected in the NC or Dnmt3a-D cells,

which is in concordance with our findings in our previ-

ous experiment (see Figure 3 (b) in [17]).

3.2. Difference of Protein Expression between

NC and Dnmt3a-D Cell Lines

The NC and Dnmt3a-D cell line proteins identified were

compared to determine their overlap (Figure 3(b)).

There were 2413 proteins in common between the NC

and Dnmt3a-D cell lines, and 467 were unique to the

Dnmt3a-D cell line and were considered to be up-regu-

lated proteins in the Dnmt3a-D cell line (Supplementary

Materials, Table S1). There were 535 proteins unique to

the NC cell line considered to be down-regulated pro-

teins in the Dnmt3a-D cell line (Supplementary Materials,

Table S2). The evidence suggests that Dnmt3a poten-

tially either directly or indirectly regulates the expression

of altered proteins.

3.3. Genome Ontology of Altered Proteins

In order to evaluate the effect of Dnmt3a depletion on

protein expression and to explore the mechanism of

Dnmt3a in tumorigenesis, the altered proteins were the

principal targets for analysis. The genome ontology cel-

lular localization of altered proteins was as follows: 35%

of up-regulated proteins were localized to the cytoplasm,

24% to the nucleus, and 13% to the mitochondrion. The

remainder of the up-regulated proteins were classified as

golgi, plasma membrane, endoplasmic reticulum, cy-

toskeleton, extracellular, ribosome, others, and unclassi-

fied (28%). The cellular localization of down-regulated

proteins was found to be similar to the cellular localiza-

tion of the up-regulated proteins (Figure 4(a), (b)). This

result demonstrated that the altered proteins are primarily

concentrated in the cytoplasm, nucleus, and mitochon-

dria.

Among 467 up-regulated proteins, 161 exhibited an

activity function (Figure 4(c)). Among the 535 down-

regulated proteins, 178 exhibited an activity function

(Figure 4(d)).

There were a large number of altered proteins that ex-

hibited catalytic activity and transferase activity, and

they played important roles in the methylation, acetyla-

tion, glycosylation, and other epigenetic modifications of

(a)

(b)

Figure 3. Cell Harvest and overlap of proteins between two cell lines. (a)The confluence of NC and Dnmt3a-D cell was more

than 90% after two days under microscope. (b)The proteins of NC and Dnmt3a-D cell line identified, and overlap of proteins

between the two cell lines.

X. Y. LIU ET AL.

543

(a) (b)

Figure. 4 Genome Ontology of altered Proteins. (A) Genome ontology cellular localization of up-regulated proteins. (B) Ge-

nome ontology cellular localization of down-regulated proteins. (C) Genome ontology molecular function of up-regulated

proteins. (D) Genome ontology molecular function of down-regulated proteins.

the proteins. Another function that attracted our attention

was phosphotransferase activity, which is essential for

protein phosphorylation. It is well understood that pro-

tein phosphorylation is closely related to a variety of

biological processes, such as DNA damage and repair

[22], transcriptional regulation [23], signal transduction,

and the regulation of apoptosis [24,25].

3.4. Pathway of Altered Proteins

The altered proteins were grouped according to their

respective KEGG pathway (Figure 5). The pathways

were arranged according to the number of altered pro-

teins. The pathways that included less than 10 altered

proteins were not shown. The four pathways with the

largest number of altered proteins were metabolic path-

ways (71 proteins), endocytosis (21 proteins), mitogen

activated protein kinase signaling pathway (MAPK sig-

naling pathway, 19 proteins) and pathways in cancer (17

proteins). Among these four pathways, the MAPK sig-

naling pathway, closely related to the cancer and mela-

noma pathway, and which plays a key role in melanoma

tumorigenesis, attracted our attention. The locations of

altered proteins in the two pathway maps were estab-

lished using the KEGG mapper.

3.4.1. MAPK Signaling Pathway

The altered proteins involved in the MAPK signaling

pathway are listed in Table 1. The locations of the al-

tered proteins involved in the MAPK signaling pathway

are marked by pink boxes (up-regulated proteins) and

yellow boxes (down-regulated proteins) as shown in

Figure 6.

The MAPKs belong to a family of highly conserved

kinases that convert extracellular signals to intracellular

responses. MAPKs are unique to eukaryotes and are im-

portant signal transducing enzymes regulated by a phos-

phorylation cascade. Two upstream protein kinases are

activated in the series that leads to the activation of a

MAP kinase; additional kinases may also be required

X. Y. LIU ET AL.

544

upstream of this three-kinase module. After activation,

MAPKs phosphorylate specific serine and threonine

residues of target substrates, including other protein

kinases and many transcription factors. MAPKs are

switched off by both generic phosphatases and dual-

specificity phosphatases and are further regulated by

scaffold proteins, which are usually specific for each of

the three major mammalian MAPK pathways, including

extracellular signal-regulated kinase (ERK), c-Jun N-

terminal kinase (JNK), and p38 MAPK [18,26,27].

Figure 5. The altered proteins were grouped by KEGG pathway.

Table 1. The altered proteins involved in MAPK signaling pathway.

Location in

Pathway

Gen Bank

Gene

name Synonyms Name of Altered Protein;

↑: Up-regulated protein; ↓: Down-regulated protein

18747 Prkaca Pkaca cAMP-dependent protein kinase catalytic subunit alpha ↑

PKA 18749 Prkacb Pkacb cAMP-dependent protein kinase catalytic subunit beta ↑

26413 Mapk1 Erk2, Mapk, Prkm1Mitogen-activated protein kinase 1/ERK2 ↑

ERK 26417 Mapk3 Erk1, Prkm3 Mitogen-activated protein kinase 3/ERK1 ↑

Ppp3c 19058 Ppp3r1 Cnb Calcineurin subunit B type 1 ↑

CrkII 12929 Crkl Crkol Crk-like protein

↑

HGK 26921 Map4k4 Nik Mitogen-activated protein kinase kinase kinase kinase 4 ↑

JNK 26419 Mapk8 Jnk1, Prkm8 Mitogen-activated protein kinase 8/JNK1 ↑

Cdc42Rac 12540 Cdc42 / Cell division control protein 42 homolog precursor ↑

MKK3 26397 Map2k3 Mkk3, Prkmk3 Dual specificity mitogen-activated protein kinase kinase 3 ↑

P38 26416 Mapk14 Crk1,Csbp1,Csbp2Mitogen-activated protein kinase 14/ p38α↑

PP2CB 19043 Ppm1b Pp2c2, Pppm1b Protein phosphatase 1B ↑

TAB1 66513 Tab1 Map3k7ip1 TGF-beta-activated kinase 1 and MAP3K7-binding protein 1 ↑

Rap1 109905 Rap1a Krev-1 Ras-related protein Rap-1A precursor ↓

RafB 109880 Braf B-raf Serine/threonine-protein kinase B-raf ↓

cPLA2 18783 Pla2g4a Cpla2, Pla2g4 Cytosolic phospholipase A2 ↓

CASP 12367 Casp3 Cpp32 Caspase-3 precursor

↓

ECSIT 26940 Ecsit Sitpec mitochondrial precursor

↓

MKK6 26399 Map2k6 Prkmk6, Sapkk3 Dual specificity mitogen-activated protein kinase kinase 6 ↓

X. Y. LIU ET AL.

545

Figure 6. The location of altered proteins involved in MAPK signaling pathway from KEGG database.

In recent years, it has been demonstrated that the

MAPK signaling pathway plays a key role in the cell

cycle and gene expression regulation of various cells.

MAP kinases are major components of the pathways that

control embryogenesis, cell differentiation, cell prolif-

eration, and cell death. Current research on the three

pathways is described in detail, and offers insight into

the mechanism of the pathways. Much of the review

highlights research into the JNK and p38 MAPK path-

ways, stress activated protein kinase pathways that are

also often deregulated in cancer. JNKs and p38 MAPKs

are activated by environmental and genotoxic stress and

are associated with tumorigenesis in humans and mice.

The function of JNKs and p38 MAPKs in cancer devel-

opment are complex and correlate with the wide range of

cellular responses that they modulate [28,29].

3.4.2. JNK Pathway

Three genes encode the JNK proteins: MAPK8 encodes

JNK1/ MAPK8, MAPK9 encodes JNK2/ MAPK9, and

MAPK10 encodes JNK3/ MAPK10 [30]. Various JNKs

differ substantially in their ability to interact with JUN, a

well-established regulator of cell cycle progression [31].

A JNK2 deficiency results in elevated c-Jun phosphory-

lation and stability, whereas the absence of JNK1 re-

duces c-Jun phosphorylation and stability. JNK2 prefer-

entially binds to c-Jun in unstimulated cells, thereby con-

tributing to c-Jun degradation. In contrast, JNK1 be-

comes the major c-Jun interacting kinase after cell

stimulation [32]. It has been recently demonstrated that

the JNK pathway is linked to p53-dependent senescence

via a conditional JNK1 allele [33]. The contribution of

JNK1 to tumour development has also been investigated

in mouse skin carcinogenesis. JNK1-knockout mice were

shown to be more susceptible to tumours of the skin [34].

These results indicate that JNK1 may act as a suppressor

of skin tumour development. In this study, JNK1 was

found to be up-regulated in the Dnmt3a-D cell line which

is unable to grow in-v i v o, which potentially illustrates the

fact that Dnmt3a depletion affects melanoma tumori-

genesis by regulation of JNK1 expression.

3.4.3. p38 MAPK Pathway

The p38 MAPKs are activated by the upstream MKK3

and MKK6 kinases as shown in Figure 6. There are four

genes that encode p38 MAPKs: MAPK14 encodes

p38α/MAPK14; MAPK11 encodes p38β/MAPK11; MA-

PK12 encodes p38γ/MAPK12; and MAPK13 encodes

p38δ/MAPK13 [35]. Among these, p38α was found to be

up-regulated in the Dnmt3a-D cell line. Most of the pub-

lished studies that have investigated p38 MAPKs refer to

p38α, as p38α was highly abundant in most cell types

[36]. A stress-activated protein kinase, p38α suppresses

tumor formation by negatively regulating cell cycle pro-

X. Y. LIU ET AL.

546

gression and proliferation, or by inducing apoptosis

[37-40].

There is evidence that indicates that p38α also may be

an important regulator of differentiation programs in

many cell types, including epithelial lung cells and em-

bryonic stem cells [41,42]. Moreover, p38α directly ph-

osphorylates and modulates the activity of several tran-

scription factors involved in tissue-specific differentia-

tion. The differentiation-inducing activity of p38α may

be related to tumour suppression, as p38α activation

triggers a high level of specific differentiation and lowers

transformed phenotypes in renal carcinoma and colon

cancer cell lines compared to cancer cell lines in which

p38α has not been activated [43-45]. The function of

p38α as a tumour suppressor in-vivo has been observed

in a mouse model [18]. These results provide a reason-

able explanation as to why the Dnmt3a-D cell line with

p38α up-regulated is unable to grow in-vivo. Dnmt3a

depletion potentially directly or indirectly regulates the

expression of p38α.

3.4.4. ERK Pathway

ERK1 and ERK2 are ubiquitously expressed, although

their relative abundance in tissues is variable. They are

stimulated to a certain extent by a vast number of ligands

and cellular perturbations, and there is evidence of some

cell type specificity [46]. They are highly expressed in

postmitotic neurons and other highly differentiated cells

[47], and in these cells they are often involved in adap-

tive responses, such as long-term potentiation [48,49].

The receptor tyrosine kinase uses the ERK1 and ERK2

cell membrane signaling pathway [50-52]. Stimulation of

these receptors by the appropriate ligand results is an

increase in the catalytic activity of the receptor and sub-

sequent autophosphorylation on tyrosine residues. Phos-

phorylation of these receptors results in the formation of

multiprotein complexes whose organization dictates fur-

ther downstream signaling events.

The ERK pathway is a major pathway involved in the

control of growth signals, cell survival, and invasion.

ERK acts as a central point where multiple signaling

pathways coalesce to drive transcription, and it plays a

critical role in the pathway downstream of Ras, Raf, and

MEK. Melanomas are known to harbour activation mu-

tations for both Ras and BRAF, suggesting that the

downstream effector ERK may be playing a key role in

the oncogenic behaviour of these tumours. In-vitro stud-

ies have demonstrated that melanoma cell lines and tu-

mour tissues exhibit high constitutive ERK activity. The

high constitutive ERK activity in melanoma is most

likely a consequence of mutations in the upstream com-

ponents of the MAPK pathway [53,54]. In this study, we

found that tumour cells cannot grow normally with

ERK1 and ERK2 up-regulated while upstream compo-

nents B-raf are concurrently down-regulated. Accord-

ingly, we suspected that the activity of ERK1 and ERK2

was limited by the down-regulation of upstream compo-

nents B-raf. This may account for the ability of Dnmt3a

to affect the growth of melanoma by regulating the activ-

ity of ERK.

3.4.5. Melanoma Pathway

The altered proteins involved in the melanoma pathway

are listed in Table 2. The locations of the altered proteins

involved in the melanoma pathway are indicated with

pink boxes (up-regulated proteins) and yellow boxes

(down-regulated proteins) in Figure 7. The figure was

manually edited. BRAF plays an important role in repli-

cative and oncogene-induced senescence, as indicated by

the red oval.

Frequent somatic mutation of BRAF is described in

melanoma cell lines, such as the B16 mouse melanoma

cell line, and other tumors [55,56]. BRAF is a serine/

threonine kinase that is commonly activated by a somatic

point mutation in human cancer, and may provide new

therapeutic opportunities for malignant melanoma [57].

Thus, we focused on BRAF in the melanoma pathway.

It has been reported that PTEN deficiency combined

with BRAF activation induces a melanoma in-situ like

phenotype without dermal invasion [58]. In our study,

Table 2. The altered proteins involved in melanoma pathway.

Location in

Pathway

Gen Bank

ID Gene name Synonyms Name of Altered Protein;

↑: Up-regulated protein; ↓: Down-regulated protein

26413 Mapk1 Erk2, Mapk, Prkm1 Mitogen-activated protein kinase 1 ↑

ERK

26417 Mapk3 Erk1, Prkm3 Mitogen-activated protein kinase 3 ↑

BRAF 109880 Braf B-raf Serine/threonine-protein kinase B-raf ↓

Raf 109880 Braf B-raf Serine/threonine-protein kinase B-raf ↓

CDK4/6 12571 Cdk6 Crk2 Cell division protein kinase 6 ↓

X. Y. LIU ET AL.

547

Figure 7. The location of altered proteins involved in melanoma pathway from KEGG database.

BRAF was found to be down-regulated in the melanoma

pathway of the Dnmt3a-D cell line (Figure 7). Most

likely, the down-regulated expression of BRAF resulted

in the suppression of tumorigenesis. Dnmt3a depletion

inhibited the growth of melanoma by directly or indi-

rectly regulating the expression of BRAF.

4. Conclusions

This study demonstrates the varied changes in protein

level, and that in the Dnmt3a-D cell line 467 proteins

were up-regulated, while 535 proteins were down-regu-

lated as compared to the NC cell line. GO analysis indi-

cated that the altered proteins were primarily concen-

trated in the cytoplasm, nucleus, and mitochondrion, and

that the altered proteins exhibiting activity function were

primarily classified as exhibiting catalytic activity, tran-

sferase activity, and phosphotransferase activity. KEGG

pathway analysis demonstrated that the MAPK signaling

pathway exhibited a greater level of altered proteins, a

fact that attracted our attention due to the close relation-

ship with tumorigenesis. Taken together, our results

strongly suggested that Dnmt3a depletion has a great

impact on the expression of melanoma cell proteins. Ad-

ditionally, Dnmt3a depletion may affect tumorigenesis

through regulation of the proteins involved in tumor-

related pathways, such as the MAPK signaling pathway

and the melanoma pathway. These results indicated that

the tumor-related pathways may be potentially valuable

for the treatment of malignant melanoma in the future.

5. Acknowledgements

The authors would like to acknowledge the financial

support by the National Natural Science Foundation of

China (20675057, 20705024).

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Supporting Information Available

There are 467 proteins were up-regulated (Supplementary Materials, Table S1) and 535 proteins were down-regulated

(Supplementary Materials, Table S2) in the Dnmt3a-D cell line as compared with the NC cell line. Supplementary ma-

terials Table S3 including the abbreviated words and their full name.

Table S1

protein Protein

probability

num unique

peps

precursor ion

charge peptide sequence

sp|Q8CGP0|H2B3B_MOUSE 0.9997 2 2 AMGIMNSFVNDIFER

sp|Q8QZT1|THIL_MOUSE 1 18 2 ASKPTLNEVVIVSAIR

sp|Q9QZQ8|H2AY_MOUSE 1 9 2 AASADSTTEGTPTDGFTVLSTK

sp|O88544|CSN4_MOUSE 1 11 2 AIQLSGTEQLEALK

sp|Q9CR16|PPID_MOUSE 1 15 2 DGSGDSHPDFPEDADIDLK

sp|Q9WVJ2|PSD13_MOUSE 1 10 2 LYENFISEFEHR

sp|P40336|VP26A_MOUSE 1 11 2 ELALPGELTQSR

sp|Q921H8|THIKA_MOUSE 1 12 2 AEELGLPILGVLR

sp|P63085|MK01_MOUSE 1 12 2 FDM[147]ELDDLPK

sp|Q9QWL7|K1C17_MOUSE 1 5 2 LLEGEDAHLTQYK

sp|Q99J62|RFC4_MOUSE 1 10 2 AITFLQSATR

sp|Q60737|CSK21_MOUSE 1 11 2 GGPNIITLADIVK

sp|Q91WK2|EIF3H_MOUSE 1 11 2 LFM[147]AQALQEYNN

sp|O54984|ARSA1_MOUSE 1 8 2 GM[147]NFSVVVFDTAPTGH

sp|Q07417|ACADS_MOUSE 1 10 2 GISAFLVPM[147]PTPGLTLGK

sp|Q99KV1|DJB11_MOUSE 1 7 2 FQDLGAAYEVLSDSEK

sp|Q9DAR7|DCPS_MOUSE 1 9 2 IVFENPDPSDGFVLIPDLK

sp|Q9R1T2|SAE1_MOUSE 1 9 2 AQNLNPM[147]VDVK

sp|Q9D0M1|KPRA_MOUSE 1 10 2 GQDIFIIQTIPR

sp|Q9JHJ0|TMOD3_MOUSE 1 7 2 DLGDYKDLDEDELLGK

sp|Q9Z2K1|K1C16_MOUSE 1 4 2 TRLEQEIATYR

sp|Q9Z1G3|VATC1_MOUSE 1 11 2 VAQYM[147]ADVLEDSKDK

X. Y. LIU ET AL.

551

sp|P70362|UFD1_MOUSE 1 7 2 FQPQSPDFLDITNPK

sp|P47811|MK14_MOUSE 1 9 2 HENVIGLLDVFTPAR

sp|Q9R0U0|FUSIP_MOUSE 1 6 2 GFAYVQFEDVR

sp|P63276|RS17_MOUSE 1 3 2 IAGYVTHLM[147]K

sp|Q9CXW2|RT22_MOUSE 1 8 2 LM[147]TQAQLEEATR

sp|Q6Y7W8|PERQ2_MOUSE 1 9 2 EVESPYEVHDYTR

sp|Q9CPX6|ATG3_MOUSE 1 5 2 LWLFGYDEQR

sp|P70318|TIAR_MOUSE 1 4 2 FEDVVNQSSPK

sp|P05132|KAPCA_MOUSE 1 9 2 ILQAVNFPFLVK

sp|Q9DBS1|TMM43_MOUSE 1 9 2 LLSDPNYGVHLPAVK

sp|P54923|ADPRH_MOUSE 1 7 3 DGETIHQQLAQM[147]GDLEAIDVAR

sp|Q9D7G0|PRPS1_MOUSE 1 6 2 IFSGSSHQDLSQK

sp|Q9ER00|STX12_MOUSE 1 4 2 ELGSLPLPLSASEQR

sp|Q9ER88|RT29_MOUSE 1 6 2 FDQPLEASTWLK

sp|Q9Z0G0|GIPC1_MOUSE 1 6 2 APPLVENEEAEPSR

sp|Q99LG2|TNPO2_MOUSE 1 4 2 ALVM[147]LLEVR

sp|Q9CQT1|EI2BL_MOUSE 1 6 2 AGAGGPGLAALVAFVR

sp|Q9WUL7|ARL3_MOUSE 1 6 2 LNVWDIGGQR

sp|P47964|RL36_MOUSE 0.9975 2 2 YPM[147]AVGLNK

sp|P26516|PSD7_MOUSE 1 5 2 TNDQM[147]VVVYLASLIR

sp|Q8K157|GALM_MOUSE 1 4 2 VSPDGEEGYPGELK

sp|P58774|TPM2_MOUSE 0.9994 1 2 ATDAEADVASLNR

sp|P61963|WDR68_MOUSE 1 3 2 DM[147]FASVGADGSVR

sp|Q64442|DHSO_MOUSE 1 4 2 AM[147]GAAQVVVTDLSASR

sp|Q99J09|MEP50_MOUSE 1 4 2 IWDLAQQVSLNSYR

sp|Q9CX34|SUGT1_MOUSE 1 6 2 DYASALETFAEGQK

sp|Q9QYA2|TOM40_MOUSE 1 6 2 FVNWQVDGEYR

sp|Q9QYJ3|DNJB1_MOUSE 1 6 2 DGSDVIYPAR

sp|P68181|KAPCB_MOUSE 0.9987 1 2 ILQAVEFPFLVR

sp|Q60766|IRGM_MOUSE 1 5 2 DLSTSVLSEVR

sp|Q64213|SF01_MOUSE 1 4 3 ILRPWQSSETR

sp|Q8R323|RFC3_MOUSE 1 7 2 AIYHLEAFVAK

sp|Q8R574|KPRB_MOUSE 1 5 2 IFVM[147]ATHGLLSSDAPR

sp|Q99JB2|STML2_MOUSE 1 4 2 AEQINQAAGEASAVLAK

sp|Q9EQ80|NIF3L_MOUSE 1 5 2 TLM[147]QVLAFLSQDR

sp|Q9JLC8|SACS_MOUSE 1 9 2 LLLVLNK

sp|O09174|AMACR_MOUSE 1 5 2 GQNILDGGAPFYTTYK

sp|O35435|PYRD_MOUSE 1 7 2 QTQLTTDGLPLGINLGK

sp|P24288|BCAT1_MOUSE 1 5 2 HLTM[147]DDLATALEGNR

sp|P70697|DCUP_MOUSE 1 5 2 LVQQM[147]LDDFGPQR

sp|Q61187|TS101_MOUSE 1 5 2 ELVNLTGTIPVR

sp|Q6PD19|CJ076_MOUSE 1 6 2 LQDGLDQYER

sp|Q91WM2|CECR5_MOUSE 1 5 2 QM[147]LVSGQGPLVENAR

sp|P18872|GNAO_MOUSE 0.9998 2 2 TTGIVETHFTFK

sp|P47941|CRKL_MOUSE 1 4 2 IHYLDTTTLIEPAPR

sp|Q8VDT9|RM50_MOUSE 1 5 2 DVLDFYNVPVQDK

sp|Q99M71|EPDR1_MOUSE 1 3 2 ALVSYDGLNQR

X. Y. LIU ET AL.

552

sp|Q9WTQ8|TIM23_MOUSE 1 3 2 NVQILNM[147]VTR

sp|Q80WQ2|VAC14_MOUSE 1 4 2 DFVAQNNTM[147]QIK

sp|Q9CQ92|FIS1_MOUSE 1 2 2 GLLQTEPQNNQAK

sp|Q9CXE7|TMED5_MOUSE 1 4 2 LEDILESINSIK

sp|Q9DC50|OCTC_MOUSE 1 5 2 AASDLQIAASTFTSFGK

sp|Q9JK48|SHLB1_MOUSE 1 4 2 LAADAGTFLSR

sp|Q8K0D0|PCTK2_MOUSE 1 4 2 LDSEGIELITK

sp|Q99J95|CDK9_MOUSE 0.9997 3 2 LADFGLAR

sp|P21278|GNA11_MOUSE 1 6 2 IATVGYLPTQQDVLR

sp|Q8BMS9|RASF2_MOUSE 1 5 2 TSVFTPAYGSVTNVR

sp|Q99JT2|MST4_MOUSE 1 3 2 LADFGVAGQLTDTQIK

sp|O70493|SNX12_MOUSE 0.9966 2 2 TNLPIFK

sp|O08915|AIP_MOUSE 1 3 2 VLELDPALAPVVSR

sp|P59708|PM14_MOUSE 1 3 2 GTAYVVYEDIFDAK

sp|P70404|IDH3G_MOUSE 1 6 2 ENTEGEYSSLEHESVAGVVESLK

sp|Q80V26|IMPA3_MOUSE 1 3 2 EM[147]LAVAVLAAER

sp|Q8BGR9|UBCP1_MOUSE 1 4 2 LDDFLELNHK

sp|Q8BTZ7|GMPPB_MOUSE 1 5 2 ALILVGGYGTR

sp|Q8N9S3|AHSA2_MOUSE 1 4 2 LQASPVALGVR

sp|Q91YM2|GRLF1_MOUSE 1 6 2 EQLTEGEEIAQEIDGR

sp|Q99JF8|PSIP1_MOUSE 1 4 2 QVDTEEAGM[147]VTAATASNVK

sp|Q9CQR4|THEM2_MOUSE 1 2 2 TLAFASVDLTNK

sp|Q9CXY9|GPI8_MOUSE 1 3 2 NVLITDFFGSVR

sp|Q9JHI5|IVD_MOUSE 1 4 2 IGQFQLM[147]QGK

sp|Q9WVL0|MAAI_MOUSE 1 2 2 VITSGFNALEK

sp|O08583|THOC4_MOUSE 1 3 2 QQLSAEELDAQLDAYNAR

sp|Q63844|MK03_MOUSE 1 3 2 FDM[147]ELDDLPK

sp|Q00899|TYY1_MOUSE 1 3 2 TLEGEFSVTM[147]WSSDEKK

sp|Q3URS9|CCD51_MOUSE 1 4 2 EDNQYLELATLEHR

sp|Q8R2U6|NUDT4_MOUSE 1 2 2 LLGIFENQDR

sp|P13011|ACOD2_MOUSE 0.9913 1 2 DDLYDPTYQDDEGPPPK

sp|O70439|STX7_MOUSE 1 2 2 TLNQLGTPQDSPELR

sp|O88543|CSN3_MOUSE 1 2 2 AM[147]DQEITVNPQFVQK

sp|P47199|QOR_MOUSE 1 3 2 VFEFGGPEVLK

sp|Q8BG94|COMD7_MOUSE 1 3 2 FGVTSGSSELEK

sp|Q8BH69|SPS1_MOUSE 1 4 2 IIEVAPQVATQNVNPTPGATS

sp|Q8CAY6|THIC_MOUSE 1 5 2 ILVTLLHTLER

sp|Q8K2Z2|PRP39_MOUSE 1 4 2 DLLTGEQFIQLR

sp|Q8R349|CDC16_MOUSE 1 4 2 YAEALDYHR

sp|Q8VCG3|WDR74_MOUSE 1 3 2 VWDLQGSEEPVFR

sp|Q921X9|PDIA5_MOUSE 1 4 2 FHISAFPTLK

sp|Q99K23|UFSP2_MOUSE 1 4 2 INAYHFPDELYK

sp|Q99LD9|EI2BB_MOUSE 1 4 2 FVAPEEVLPFTEGDILEK

sp|Q9D2R6|CCD56_MOUSE 1 3 2 FLDELEDEAK

sp|Q9D8X5|CNOT8_MOUSE 1 3 2 GGLQEVADQLDLQR

sp|Q9DCA5|BXDC2_MOUSE 1 4 2 EFLIQIFSTPR

sp|P21279|GNAQ_MOUSE 1 2 2 M[147]FVDLNPDSDK

X. Y. LIU ET AL.

553

sp|Q8VE80|THOC3_MOUSE 0.9992 2 2 YVLGM[147]QELFR

sp|Q62422|OSTF1_MOUSE 0.9989 2 2 ALYTFEPR

sp|P61294|RAB6B_MOUSE 0.9979 1 2 GSDVIIMLVGNK

sp|Q8R2E9|ERO1B_MOUSE 0.9969 1 2 TLLLSIFQDTK

sp|O09110|MP2K3_MOUSE 1 2 2 FPYESWGTPFQQLK

sp|O35658|C1QBP_MOUSE 1 2 2 AFVEFLTDEIKEEK

sp|P62488|RPB7_MOUSE 1 3 2 GEVVDAVVTQVNK

sp|Q59J78|MIMIT_MOUSE 1 3 2 ETSEELLPSPTATQVK

sp|Q60866|PTER_MOUSE 1 3 2 GGGALVENTTTGLSR

sp|Q61249|IGBP1_MOUSE 1 3 2 AAGM[147]LSQLDLFSR

sp|Q62203|SF3A2_MOUSE 1 4 2 M[147]EKPPAPPSLPAGPPGVK

sp|Q78HU3|F125A_MOUSE 1 2 2 GPLPSGFSAVNDPQDIK

sp|Q78JW9|UBFD1_MOUSE 1 4 2 IM[147]VVGSTINDVLAVNTPK

sp|Q8BFQ8|PDDC1_MOUSE 1 2 2 AIDFVDVTESNAR

sp|Q8CFE2|CD027_MOUSE 1 5 2 DSPDELPVYVGTNEAK

sp|Q8R1J3|ZCHC9_MOUSE 1 2 2 GM[147]SADYEDVLDVPK

sp|Q8VDG7|PAFA2_MOUSE 1 4 2 TVVNVFPGGLDLM[147]TLK

sp|Q8VDQ1|PTGR2_MOUSE 1 4 2

GLENM[147]GVAFQSM[147]M[147]TGG

NVGK

sp|Q91VE6|MK67I_MOUSE 1 3 2 GIDYSFPSLVLPK

sp|Q91WE2|NIP30_MOUSE 1 3 2 GLDEDETNFLDEVSR

sp|Q99LC2|CSTF1_MOUSE 1 3 2 LGM[147]ENDDTAVQYAIGR

sp|Q9CQI9|MED30_MOUSE 1 2 2 IGQETVQDIVYR

sp|Q9D753|EXOS8_MOUSE 1 3 2 ATTVNIGSISTADGSALVK

sp|Q9D832|DNJB4_MOUSE 1 5 2 VIGYGLPFPK

sp|Q9DBL1|ACDSB_MOUSE 1 5 2 SGNYYVLNGSK

sp|Q9EPJ9|ARFG1_MOUSE 1 3 2 IFDDVSSGVSQLASK

sp|Q9JK38|GNA1_MOUSE 1 2 2 VLGQLTETGVVSPEQFM[147]K

sp|Q9WUN2|TBK1_MOUSE 1 5 2 LSSSQGTIESSLQDISSR

sp|Q9Z2D8|MBD3_MOUSE 1 2 2 AFM[147]VTDDDIR

sp|P18653|KS6A1_MOUSE 0.9993 1 3 DLKPENILLDEEGHIK

sp|P97820|M4K4_MOUSE 1 4 2 GQNVLLTENAEVK

sp|Q91YS8|KCC1A_MOUSE 0.9999 2 2 LIFQVLDAVK

sp|Q921E2|RAB31_MOUSE 0.9999 2 2 GSAAAVIVYDITK

sp|P0C7N9|PSMG4_MOUSE 0.9998 2 2 AAADADVSLHNFSAR

sp|P59438|HPS5_MOUSE 0.9998 4 2 LLDPLVLFEPK

sp|Q8C5Q4|GRSF1_MOUSE 0.9998 2 2 LGDEVDDVYLIR

sp|Q9Z1B5|MD2L1_MOUSE 0.9998 2 2 YGLTLLTTTDPELIK

sp|P47226|TES_MOUSE 0.9997 2 2 NVM[147]ILTNPVAAK

sp|O09117|SYPL1_MOUSE 0.9992 2 2 SAFQINLNPLK

sp|Q9D7H3|RTC1_MOUSE 0.999 3 2 AFVAGVLPLK

sp|Q91X78|ERLN1_MOUSE 0.9969 1 2 ISEIEDAAFLAR

sp|A6PWY4|WDR76_MOUSE 1 3 2 VFDSSSISSQLPLLSTIR

sp|O08579|EMD_MOUSE 1 3 2 DYNDDYYEESYLTTK

sp|O54784|DAPK3_MOUSE 1 3 2 ESLTEDEATQFLK

sp|P33611|DPOA2_MOUSE 1 3 2 QLLSPSSFSPSATPSQK

sp|P97789|XRN1_MOUSE 1 4 2 APELFSYIAK

X. Y. LIU ET AL.

554

sp|Q3U1V6|UEVLD_MOUSE 1 5 2 DGVLSPSSQAQLSSR

sp|Q64669|NQO1_MOUSE 1 3 2 ALIVLAHSEK

sp|Q78JE5|FBX22_MOUSE 1 2 2 STYVLSNLAEVVER

sp|Q810A3|TTC9C_MOUSE 1 3 2 AGVAFFHLQDYDR

sp|Q8BKX1|BAIP2_MOUSE 1 2 2 EGDLITLLVPEAR

sp|Q8BWR2|CA128_MOUSE 1 2 2 GLAYGLYLR

sp|Q8C407|YIPF4_MOUSE 1 3 2 SAASLLVGEEFK

sp|Q8CEC0|NUP88_MOUSE 1 2 2 GPSGGGVEPPLSQYQR

sp|Q8CF89|TAB1_MOUSE 1 3 2 VLLQAFDVVER

sp|Q8K194|SNR27_MOUSE 1 3 2 VDGSVNAYAINVSQK

sp|Q8K409|DPOLB_MOUSE 1 3 2 EEM[147]LQM[147]QDIVLNEIK

sp|Q8VDS4|RPR1A_MOUSE 1 2 2 SVYENDVLEQLK

sp|Q8VDS8|STX18_MOUSE 1 3 2 TAVLDFVDDYLK

sp|Q91WK1|SPRY4_MOUSE 1 3 2 VGLLLDYEAK

sp|Q91XI1|DUS3L_MOUSE 1 4 2 ISEM[147]LLGPVPPGFVFLPK

sp|Q9CR95|NECP1_MOUSE 1 3 2 ASGTGGLSLLPPPPGGK

sp|Q9CY28|GTPB8_MOUSE 1 3 2 LFDPSLEDIGR

sp|Q9CZX9|TMM85_MOUSE 1 2 2 GSGQGDSLYPVGYLDK

sp|Q9D8M4|RL7L_MOUSE 1 4 2 TVPLTDNTVIEEHLGR

sp|Q9DBX2|PHLP_MOUSE 1 3 2 EVLVLTSVR

sp|Q9ER73|ELP4_MOUSE 1 4 2 NLSDTVVGLESFIGSER

sp|Q9JLB2|MPP5_MOUSE 1 4 2 EGDEDNQPLAGLVPGK

sp|Q9R099|TBL2_MOUSE 1 3 2 APIINIGIADTGK

sp|Q9WVB0|RBPMS_MOUSE 1 3 2 ENTPSEANLQEEEVR

sp|Q6ZPF4|FMNL3_MOUSE 0.9983 1 2 AAAVSLENVLLDVK

sp|Q921Y2|IMP3_MOUSE 0.9999 2 2 VGPDVVTDPAFLVTR

sp|Q3V009|TMED1_MOUSE 0.9998 2 2 SIQM[147]LTLLR

sp|Q9CQ71|RFA3_MOUSE 0.9991 2 2 M[147]FILSDGEGK

sp|Q9CQG2|MET10_MOUSE 0.9983 2 2 APEDVILALEER

sp|O55125|NIPS1_MOUSE 0.9904 1 2 AGPNIYELR

sp|O09114|PTGDS_MOUSE 1 3 2 AQGLTEEDIVFLPQPDK

sp|P27601|GNA13_MOUSE 1 4 2 ALWEDSGIQNAYDR

sp|P42669|PURA_MOUSE 1 2 2 GPGLGSTQGQTIALPAQGLIEFR

sp|P62748|HPCL1_MOUSE 1 3 2 IYANFFPYGDASK

sp|P97493|THIOM_MOUSE 1 2 2 TTFNVQDGPDFQDR

sp|Q3U0V2|TRADD_MOUSE 1 3 2 DPALDSLAYEYER

sp|Q3UE37|UBE2Z_MOUSE 1 3 2 GHFDYQSLLM[147]R

sp|Q5SSK3|CQ042_MOUSE 1 2 2 LENLIDVPLIQYK

sp|Q62086|PON2_MOUSE 1 4 2 FQEEENSLLHLK

sp|Q8BJZ4|RT35_MOUSE 1 3 2 IPNFLHLTPVAIK

sp|Q8BKF1|RPOM_MOUSE 1 4 2 QLAELLVQAVQM[147]PR

sp|Q8BMZ5|SEN34_MOUSE 1 3 2 FGGDFLVYPGDPLR

sp|Q8BNV1|TRM2A_MOUSE 1 4 2 DDLFTSEIFK

sp|Q8BP40|PPA6_MOUSE 1 4 2 AAISQPGISEDLEK

sp|Q8BVI5|STX16_MOUSE 1 2 2 QIVQSISDLNEIFR

sp|Q8K2M0|RM38_MOUSE 1 4 2 TPPLGPM[147]PNEDIDVSNLER

sp|Q8R322|GLE1_MOUSE 1 4 2 IEAITSSGQM[147]GSFIR

X. Y. LIU ET AL.

555

sp|Q8R4Y8|RTTN_MOUSE 1 5 2 AILLYLLQGR

sp|Q8VD00|TMM97_MOUSE 1 3 2 DPLM[147]QEPPVWFK

sp|Q91VJ5|PQBP1_MOUSE 1 3 2 KDEELDPM[147]DPSSYSDAPR

sp|Q920R0|ALS2_MOUSE 1 5 2 GTSDFPLYGGGSSVQR

sp|Q921T2|TOIP1_MOUSE 1 3 2 FESLPAGSTLIFYK

sp|Q9CXR1|DHRS7_MOUSE 1 3 2 LM[147]LISM[147]ANDLK

sp|Q9CYY7|SLMO2_MOUSE 1 2 2 LNAEIEELAASAR

sp|Q9CZU4|ERAL_MOUSE 1 3 2 ETQVILLDTPGIISPVK

sp|Q9D2R8|RT33_MOUSE 1 2 2 VVSLFSEQPLAK

sp|Q9EP72|CO024_MOUSE 1 3 2 SEVPGAAAEGPGGSGVGLGDR

sp|Q9WV03|FA50A_MOUSE 1 3 2 SGPLFNFDVHDDVR

sp|Q925E7|2ABD_MOUSE 0.9951 1 2 INLWHLEITDR

sp|Q9JI46|NUDT3_MOUSE 1 2 2 LVGIFENQER

sp|Q3UA16|SPC25_MOUSE 0.9999 3 2 LQFIFTSIDPK

sp|Q6PAQ4|REXO4_MOUSE 0.9999 3 2 VSIVNQYGK

sp|Q810J8|ZFYV1_MOUSE 0.9999 3 2 FLGDASEAYLK

sp|Q8BH66|ATLA1_MOUSE 0.9999 4 2 SFLM[147]DFM[147]LR

sp|Q8JZV7|NAGA_MOUSE 0.9999 3 2 ATEDVGSGVALVAR

sp|Q9D7X8|GGCT_MOUSE 0.9999 2 2 SYLM[147]TNYESAPPSPQYK

sp|O88952|LIN7C_MOUSE 0.9999 2 2 TEEGLGFNIM[147]GGK

sp|Q9EQS3|MYCBP_MOUSE 0.9998 2 2 LVQYEPPQEEK

sp|Q9WV84|NDKM_MOUSE 0.9996 2 2 M[147]LQAPESILAEHYR

sp|Q9CQX4|PAF_MOUSE 0.9995 2 2 VLGSSTFVTNSSSSSR

sp|Q9D4J1|EFHD1_MOUSE 0.9987 1 2 VFNPYTEFPEFSR

sp|Q8R035|ICT1_MOUSE 0.9975 2 2 AGELVLTSESSR

sp|Q5BL07|PEX1_MOUSE 0.9963 1 2 YPELFANLPIR

sp|O35448|PPT2_MOUSE 0.9929 2 2 ESLRPLWEQVQGFR

sp|Q99JF5|ERG19_MOUSE 0.9913 1 2 GLQVAPVLLSDELK

sp|Q9CXA2|PRCM_MOUSE 0.9913 1 2 DLVDAASALTGAVK

sp|A2ADY9|DDI2_MOUSE 1 2 2 NPPLAEALLSGDLEK

sp|A2RSX7|CB060_MOUSE 1 2 2 DAQYLYLSGSK

sp|A3KMP2|TTC38_MOUSE 1 2 2 VLELLLPIR

sp|O35295|PURB_MOUSE 1 2 2 GGGGGGGGGPGGFQPAPR

sp|O35623|BET1_MOUSE 1 2 2 LLAEM[147]DSQFDSTTGFLGK

sp|Q03958|PFD6_MOUSE 1 2 2 ETLAQLQQEFQR

sp|Q3UGP9|LRC58_MOUSE 1 2 2 DLTYDPPTLLELAAR

sp|Q4FK66|PR38A_MOUSE 1 2 2 YVLEEAEQLEPR

sp|Q4FZF3|DDX49_MOUSE 1 2 2 ELAYQIAEQFR

sp|Q56A08|GPKOW_MOUSE 1 3 2 AVVVLSGPYR

sp|Q61823|PDCD4_MOUSE 1 3 2 DLPELALDTPR

sp|Q6P3D0|NUD16_MOUSE 1 2 2 EQLLEALQDLK

sp|Q6PCP5|MFF_MOUSE 1 3 2 IQYEM[147]EYTEGISQR

sp|Q80TH2|LAP2_MOUSE 1 4 2 IYDILGDDGPQPPSAAVK

sp|Q80UW2|FBX2_MOUSE 1 2 2 TDAGSLYELTVR

sp|Q8BGU5|CCNY_MOUSE 1 2 2 IVLGAILLASK

sp|Q8BHL8|PSMF1_MOUSE 1 2 2 VLIDPSSGLPNR

sp|Q8C163|EXOG_MOUSE 1 2 2 SPESTEPLALGAFVVPNK

X. Y. LIU ET AL.

556

sp|Q8JZM0|TFB1M_MOUSE 1 2 2 FIPGLQM[147]LSDAAPGK

sp|Q8K3J1|NDUS8_MOUSE 1 2 2 GLGM[147]TLSYLFR

sp|Q8R3Y8|I2BP1_MOUSE 1 2 2 LALPSPALEYTLGSR

sp|Q8VC70|RBMS2_MOUSE 1 3 2 GYGFVDFDSPSSAQK

sp|Q8VCN9|TBCC_MOUSE 1 2 2 QGQAALAQLQAVLTER

sp|Q8VHR5|P66B_MOUSE 1 3 2 LQQQAALSPTTAPAVSSVSK

sp|Q8WTY4|CPIN1_MOUSE 1 2 2 KPNFEVGSSSQLK

sp|Q91YY4|ATPF2_MOUSE 1 2 2 LTVEQAVLLSR

sp|Q920Q8|NS1BP_MOUSE 1 3 2 LYIVGGSDPYGQK

sp|Q922Q9|CHID1_MOUSE 1 3 2 FTQISPVWLQLK

sp|Q99K43|PRC1_MOUSE 1 2 2 EIWELIGIPEEQR

sp|Q99N94|RM09_MOUSE 1 2 2 LLSQGLAVYASPENR

sp|Q9D1C1|UBE2C_MOUSE 1 2 2 LQQELM[147]ILM[147]TSGDK

sp|Q9D920|L12R1_MOUSE 1 2 2 GLLSGQTSPTNAK

sp|Q9DCT8|CRIP2_MOUSE 1 2 2 GVNTGAVGSYIYDKD

sp|Q9JHE7|TSSC4_MOUSE 1 2 2 DAALAFLSSR

sp|Q9JJZ4|UB2J1_MOUSE 1 2 2 TALLAIIGFM[147]PTK

sp|Q9JKJ9|CP39A_MOUSE 1 4 2 TVLESISSVFGTAGK

sp|Q9JLJ0|LITAF_MOUSE 1 2 2 GM[147]NPPSYYTQPVPVPNAN

sp|Q9JMG1|EDF1_MOUSE 1 2 2 INEKPQVIADYESGR

sp|P34056|AP2A_MOUSE 1 3 2 AVAEFLNR

sp|P36993|PPM1B_MOUSE 1 3 2 GPTEQLVSPEPEVYEIVR

sp|Q9JHD1|PCAF_MOUSE 1 3 2 LFMADLQR

sp|P42230|STA5A_MOUSE 0.9999 2 2 IQAQFAQLGQLNPQER

sp|Q3UX61|ARD1B_MOUSE 0.9999 2 2 YVSLHVR

sp|Q80WC1|K2030_MOUSE 0.9999 3 2 VVPTLPEGLPVLLEK

sp|Q91YD9|WASL_MOUSE 0.9999 2 2 FYGSQVNNISHTK

sp|Q9DCS3|MECR_MOUSE 0.9999 3 2 DLGADYVLTEEELR

sp|Q02614|S30BP_MOUSE 0.9998 2 2 DPQELVASFSER

sp|Q8BSQ9|PB1_MOUSE 0.9998 3 2 VVDDEIYYFR

sp|Q9DAU1|CNPY3_MOUSE 0.9998 2 2 ELGGLGEDANAEEEEGVQK

sp|Q7TQK4|EXOS3_MOUSE 0.9996 2 2 LYPLEIVFGM[147]NGR

sp|Q8K4F5|ABHDB_MOUSE 0.9996 2 2 LNLDTLAQHLDK

sp|Q9D6Y7|MSRA_MOUSE 0.9996 3 2 VISAEEALPGR

sp|A2APY7|CT007_MOUSE 0.9994 2 2 IFQTDIAEHALK

sp|O70126|AURKB_MOUSE 0.9994 3 2 FGNVYLAR

sp|Q60759|GCDH_MOUSE 0.9994 2 2 AITGIQAFTVGK

sp|P49586|PCY1A_MOUSE 0.9992 2 2 TEGISTSDIITR

sp|Q9Z0M5|LICH_MOUSE 0.9992 2 2 LYDEIISLM[147]K

sp|Q9QYL7|ABT1_MOUSE 0.9991 2 2 NLLSAYGEVGR

sp|O88520|SHOC2_MOUSE 0.999 2 2 LVLTNNQLSTLPR

sp|Q9CR09|UFC1_MOUSE 0.999 3 3 LKEEYQSLIR

sp|Q9DCF9|SSRG_MOUSE 0.9983 2 2 QQSEEDLLLQDFSR

sp|Q8BGX2|CS052_MOUSE 0.9982 2 2 ILDVGFVGR

sp|Q9Z1R4|CF047_MOUSE 0.9978 2 2 AILDALGLR

sp|Q9DBY1|SYVN1_MOUSE 0.9977 3 2 VHTFPLFAIR

sp|Q9Z2G0|FEM1B_MOUSE 0.9977 2 2 VLTLAALLLNR

X. Y. LIU ET AL.

557

sp|P62484|ABI2_MOUSE 0.996 1 2 ALFDSYTNLER

sp|A2A4P0|DHX8_MOUSE 0.9957 1 2 FSQYFYEAPIFTIPGR

sp|Q9D735|CS043_MOUSE 0.9913 1 2 GGPGPTLSFVGK

sp|Q3UBX0|TM109_MOUSE 0.9904 1 2 ETSADILTQIGR

sp|O35972|RM23_MOUSE 1 2 2 NYLEQIYNVPVAAVR

sp|Q2TPA8|HSDL2_MOUSE 1 2 2 ADVVM[147]SM[147]ATDDFVK

sp|Q80VL1|TDRKH_MOUSE 1 2 2 DM[147]ATETDDSLASILTETK

sp|Q8C156|CND2_MOUSE 1 2 2 TIEQNLSNINVSEADGK

sp|Q8CHT0|AL4A1_MOUSE 1 3 2 TVIQAEIDAAAELIDFFR

sp|Q8K2L8|TTC15_MOUSE 1 2 2 QVLNASSVEQSFVGLK

sp|Q8R2N2|CIR1A_MOUSE 1 2 2 TDGTVEIYNLSANYFQEK

sp|Q8VE18|CQ071_MOUSE 1 2 2 AANYDFYQLLEEK

sp|Q91ZR2|SNX18_MOUSE 1 2 2 APEPGPPADGGPGAPAR

sp|Q921W4|QORL1_MOUSE 1 2 3 LSAGVFRPLLDEPIPLYEAK

sp|Q99MZ7|PECR_MOUSE 1 2 2 NQVAVVTGGGTGIGK

sp|Q9D7A8|ARMC1_MOUSE 1 2 2 AEALASAIASTK

sp|Q9DC71|RT15_MOUSE 1 3 2 TLEAQIIALTVR

sp|Q9ESP1|SDF2L_MOUSE 1 2 2 AM[147]EGIFIKPGADLSTGHDEL

sp|Q9WV85|NDK3_MOUSE 1 2 2 ALIGATDPGDAM[147]PGTIR

sp|Q3V300|KIF22_MOUSE 0.9999 3 2 ALM[147]DLLQLAR

sp|Q8BHE8|CB047_MOUSE 0.9999 2 2 QLLSASYEFQR

sp|Q8BVU5|NUDT9_MOUSE 0.9999 3 2 EFGEEALNSLQK

sp|Q8R107|PRLD1_MOUSE 0.9999 2 2 AVQEFGLAR

sp|Q9CRA5|GOLP3_MOUSE 0.9999 2 2 SDAPTGDVLLDEALK

sp|Q9D125|RT25_MOUSE 0.9999 2 2 IM[147]TVNYNTYGELGEGAR

sp|Q9D2E2|TOE1_MOUSE 0.9999 3 2 VPVVDVQSDNFK

sp|Q9DB90|CS061_MOUSE 0.9999 2 2 GGNQTSGIDFFITQER

sp|Q9WVM3|APC7_MOUSE 0.9999 2 2 AIQLNSNSVQALLLK

sp|Q9Z2E1|MBD2_MOUSE 0.9999 2 2 LQGLSASDVTEQIIK

sp|Q8K0C9|GMDS_MOUSE 0.9998 2 2 FYQASTSELYGK

sp|Q9ESW8|PGPI_MOUSE 0.9998 2 2 SAFVHVPPLGK

sp|Q62036|AZI1_MOUSE 0.9997 2 2 PAEPTDFLM[147]LFEGSTSGR

sp|Q99N87|RT05_MOUSE 0.9997 3 2 EPEPEPEVPDTK

sp|Q9CYI4|LUC7L_MOUSE 0.9997 2 2 ALLDQLM[147]GTAR

sp|Q9R1Z7|PTPS_MOUSE 0.9997 2 3 LHSPSLSDEENLR

sp|Q64437|ADH7_MOUSE 0.9997 3 2 M[147]LTYDPM[147]LLFTGR

sp|Q924W5|SMC6_MOUSE 0.9996 2 2 SAVLTALIVGLGGK

sp|Q9R0X0|MED20_MOUSE 0.9996 2 2 SLQQTVELLTK

sp|Q9D8V7|SC11C_MOUSE 0.9993 2 2 GDLLFLTNFR

sp|Q9DB40|MED27_MOUSE 0.9993 2 2 TPLYSQLLQAYK

sp|Q80W93|HYDIN_MOUSE 0.9992 3 3 QKLT[181]LLAQGQGLEPR

sp|Q91Y86|MK08_MOUSE 0.9988 3 2 NIIGLLNVFTPQK

sp|Q63810|CANB1_MOUSE 0.9977 2 3 M[147]M[147]VGNNLKDTQLQQIVDK

sp|Q91ZF0|DJC24_MOUSE 0.9973 2 2 LILLYHPDK

sp|Q8VC65|NRM_MOUSE 0.996 2 2 YFGVLQR

sp|Q99KK9|SYHM_MOUSE 0.9945 1 2 DQGGELLSLR

sp|Q9D6M3|GHC1_MOUSE 0.9933 2 2 SEGYFGM[147]YR

X. Y. LIU ET AL.

558

sp|Q8BIJ7|RUFY1_MOUSE 0.9902 2 2 GSALQLQLSQLR

sp|O89050|MKLN1_MOUSE 1 3 2 VFGGM[147]NEENM[147]TELLSSGLK

sp|P04184|KITH_MOUSE 1 2 2 KLFASQQVLQYNSAN

sp|P63271|SPT41_MOUSE 1 2 3 VSNFKPGVYAVSVTGR

sp|Q8R088|GLP3L_MOUSE 1 3 2 DLVELDPEVEGTK

sp|Q9D8T7|SLIRP_MOUSE 1 3 2 IPWTAAASELR

sp|O70325|GPX41_MOUSE 1 3 2 TDVNYTQLVDLHAR

sp|Q5SYD0|MYO1D_MOUSE 0.9963 1 2 LMYNSSNPVLK

sp|P40338|VHL_MOUSE 0.9999 3 2 SLYEDLEDYPSVR

sp|Q921G6|LRCH4_MOUSE 0.9999 2 2 SYDLSDITQADLSR

sp|Q99JN2|KLH22_MOUSE 0.9999 3 2 LFVIGGSNNDAGYR

sp|Q9D4J7|PHF6_MOUSE 0.9999 3 2 VAIDQQLTQQQLNGN

sp|P15327|PMGE_MOUSE 0.9998 3 2 HYGALIGLNR

sp|Q8K273|MMGT1_MOUSE 0.9998 3 3 NHPSFYVFNHR

sp|Q8K3C3|LZIC_MOUSE 0.9998 2 2 KVEILTALR

sp|A3KGB4|TBC8B_MOUSE 0.9998 3 2 DSLALWTFR

sp|Q60967|PAPS1_MOUSE 0.9996 2 2 M[147]VAGANFYIVGR

sp|Q8BZH4|POGZ_MOUSE 0.9996 2 2 SFLVASVLPGPDGNVNSPTR

sp|Q9CYX7|RRP15_MOUSE 0.9995 2 2 GVVQLFNAVQK

sp|P11930|NUD19_MOUSE 0.9994 2 2 LENFASLSALYR

sp|Q6P6J9|TXD15_MOUSE 0.9994 2 2 GDPM[147]VVLSVVPGAAEDQR

sp|Q9D1R1|T126B_MOUSE 0.9994 2 2 LFVTDALQSGDISK

sp|Q80TF4|KLH13_MOUSE 0.9993 3 2 NFAALLSTGEFLK

sp|Q8BJS4|UN84B_MOUSE 0.9993 2 2 ADVESQFPDWIR

sp|Q3TMH2|SCRN3_MOUSE 0.9991 2 2 SPTFEPERPVAK

sp|Q99KL7|RAB28_MOUSE 0.9991 2 2 ADIVNYNQEPLSR

sp|Q8BP48|AMPM1_MOUSE 0.9989 2 2 EVLDIAAGM[147]IK

sp|Q99M04|LIAS_MOUSE 0.9985 3 2 VGNELGFLYTASGPLVR

sp|Q9CQT5|POMP_MOUSE 0.9985 2 2 NIQGLFAPLK

sp|Q9CXZ1|NDUS4_MOUSE 0.9984 2 2 LDITTLTGVPEEHIK

sp|O08738|CASP6_MOUSE 0.9983 2 2 IEIQTLTGLFK

sp|P30280|CCND2_MOUSE 0.9983 2 2 SVEDPDQATTPTDVRDVDL

sp|Q9Z0V7|TI17B_MOUSE 0.9982 2 2 EGSPAPGYPNYQQYH

sp|Q8CFH6|SN1L2_MOUSE 0.998 2 2 IADFGFGNFFK

sp|O08914|FAAH1_MOUSE 0.9979 2 2 LQSGELSPEAVLFTYLGK

sp|P60766|CDC42_MOUSE 0.9979 2 2 TLGLFDTAGQEDYDR

sp|Q9D6H2|HSB11_MOUSE 0.9979 2 2 DGYATFLR

sp|Q9DD18|DTD1_MOUSE 0.9979 2 2 ASVTVGGEQISAIGR

sp|Q3TKY6|SDC10_MOUSE 0.9978 2 2 EDQTLALLSQFK

sp|Q9ERA0|TFCP2_MOUSE 0.9978 2 2 LFTNFSGADLLK

sp|Q3TQB2|FXRD1_MOUSE 0.9976 2 2 TIDM[147]SPFLFTR

sp|Q9D1H6|HRP20_MOUSE 0.9976 2 2 IAQEYYLELK

sp|Q9D2X5|K0892_MOUSE 0.9976 2 2 GLFSFFQGR

sp|Q9CQ02|COMD4_MOUSE 0.9971 2 2 ELLGQGIDYEK

sp|Q80UU2|RPP38_MOUSE 0.9969 1 2 VPSLNVPWLPDR

sp|Q9DBS5|KLC4_MOUSE 0.9969 1 2 DHPAVAATLNNLAVLYGK

sp|P02468|LAMC1_MOUSE 0.9966 1 2 LSAEDLVLEGAGLR

X. Y. LIU ET AL.

559

sp|Q64152|BTF3_MOUSE 0.9963 2 2 TATADDKKLQFSLK

sp|Q8BRN9|C2D1B_MOUSE 0.9963 1 2 GM[147]NLPAPPGVTPDDLDAFVR

sp|P19182|IFRD1_MOUSE 0.9961 2 2 VLYEFVLER

sp|Q91Z38|TTC1_MOUSE 0.9958 2 2 AIQLNPTYIR

sp|Q9D8T0|FAM3A_MOUSE 0.9958 2 2 IVSGAANVIGPK

sp|O09111|NDUBB_MOUSE 0.9954 2 2 EVNGLPIM[147]ESNYFDPSK

sp|Q9CYA0|CREL2_MOUSE 0.9949 2 2 YEFSEIR

sp|Q6ZQF0|TOPB1_MOUSE 0.9942 2 2 NLTVALANSSR

sp|Q8CI70|LRC20_MOUSE 0.9933 2 2 FM[147]TTFNQLR

sp|Q7TSG2|CTDP1_MOUSE 0.9931 2 2 VLTQLVLSPDAPDR

sp|Q8BRK8|AAPK2_MOUSE 0.9923 1 2 IADFGLSNM[147]M[147]SDGEFLR

sp|O35459|ECH1_MOUSE 0.9913 1 2 EVDM[147]GLAADVGTLQR

sp|P17095|HMGA1_MOUSE 0.9913 1 2 KQPPVSPGTALVGSQK

sp|Q9CQ26|STABP_MOUSE 0.9913 1 2 NEFTITHVLIPR

sp|Q9CRB2|NHP2_MOUSE 0.9913 1 2 ELLVNLNPIAQPLASR

sp|Q9D0I4|STX17_MOUSE 0.9913 1 2 VAGIAAALGGGVLGFTGGK

sp|Q8BW94|DYH3_MOUSE 0.9908 2 2 VFLEALNNNIR

sp|P70353|NFYC_MOUSE 0.9904 1 2 M[147]ISAEAPVLFAK

sp|P60762|MO4L1_MOUSE 1 2 2 VDPTVENEETFM[147]NR

sp|Q8BLY7|HPS6_MOUSE 1 2 2 LLSDLSNFTGAAR

sp|Q9DBZ1|IKIP_MOUSE 1 2 2 LLQTESSEFQGLQSK

sp|Q8C863|ITCH_MOUSE 0.9904 1 2 FIDTGFSLPFYK

sp|Q91W34|CP058_MOUSE 0.9999 2 2 ALVLETLNESR

sp|Q4VAA7|SNX33_MOUSE 0.9998 2 2 IAETYSIEM[147]GPR

sp|Q9DCT5|SDF2_MOUSE 0.9997 2 2 AM[147]EGIFM[147]KPSELLR

sp|Q9D287|SPF27_MOUSE 0.9996 2 2 EAAAALVEEETR

sp|Q9JKK1|STX6_MOUSE 0.9995 2 2 DQM[147]SASSVQALAER

sp|P97434|MPRIP_MOUSE 0.9993 2 2 LLAEETAATISAIEAMK

sp|Q3TRM4|PLPL6_MOUSE 0.9993 3 2 GDLIGVVEALTR

sp|Q9D1I5|MCEE_MOUSE 0.9988 2 3 M[147]ELLHPLGSDSPITGFLQK

sp|O55060|TPMT_MOUSE 0.9983 2 2 GALVAINPGDHDR

sp|Q64362|AKTIP_MOUSE 0.9983 2 2 IDTTSPLNPEAAVLYEK

sp|Q9Z2Q5|RM40_MOUSE 0.9983 2 2 VYTQVEFKR

sp|Q3UH68|LIMC1_MOUSE 0.9978 2 2 TSVPESIASAGTGSPSK

sp|Q8CE50|SNX30_MOUSE 0.9976 2 2 VEFDLPEYSVR

sp|Q8BQZ4|K1219_MOUSE 0.9973 2 2 EVPVIFIHPLNTGLFR

sp|Q99JY4|TRABD_MOUSE 0.9971 2 2 TVTQLVAEDGSR

sp|Q8VCR3|CF035_MOUSE 0.9966 1 2 GTM[147]ATAALPESGSSLALR

sp|Q9D892|ITPA_MOUSE 0.9931 3 2 IDLPEYQGEPDEISIQK

sp|A2RTL5|RSRC2_MOUSE 0.9913 1 2 NTAM[147]DAQEALAR

sp|O54916|REPS1_MOUSE 0.9913 1 2 LVAVAQSGFPLR

sp|Q8BKW4|ZCHC4_MOUSE 0.9913 1 2 YLSFIQLPLAQR

sp|Q8BU04|UBR7_MOUSE 0.9913 1 2 EDIQQFFEEFQSK

sp|Q9CXK8|NIP7_MOUSE 0.9913 1 2 LHVTALDYLAPYAK

sp|Q9D8Z1|ASCC1_MOUSE 0.9913 1 2 TFENFYFGSLR

sp|Q9ET47|ESPN_MOUSE 0.9913 1 2 SFNM[147]M[147]SPTGDNSELLAEIK

sp|Q9JI44|DMAP1_MOUSE 0.9913 1 2 TPEQVAEEEYLLQELR

X. Y. LIU ET AL.

560

sp|Q9WU81|SPX2_MOUSE 0.9913 1 2 EQGPEPEAISFLGALR

sp|P55302|AMRP_MOUSE 0.9913 1 2 IQEYNVLLDTLSR

sp|Q5SS80|DHR13_MOUSE 0.991 3 2 LLT[181]HLLLPR

sp|Q8BGI5|PEX26_MOUSE 0.9904 1 2 LSEAEELAVR

sp|O35144|TERF2_MOUSE 0.9977 2 2 ALSTAQDSEAAFAK

sp|Q80X71|T106B_MOUSE 0.997 2 2 GQENQLVALIPYSDQR

sp|Q8C0M9|ASGL1_MOUSE 0.9967 2 2 GLGGLILVNK

sp|Q69ZW3|EHBP1_MOUSE 0.9954 2 3 PK[142]PTSPNNLVNTVQEGETER

sp|P70428|EXT2_MOUSE 0.9914 1 2 YVDDAGVPVSSAISR

sp|P70445|4EBP2_MOUSE 0.9913 1 2 HAVGDEAQFEM[147]DI

sp|Q61827|MAFK_MOUSE 0.9913 1 2 EAGENAPVLSDDELVSM[147]SVR

sp|Q9WTK2|CDYL_MOUSE 0.9913 1 2 EVQSALSTAAADDSK

sp|P55937|GOGA3_MOUSE 0.9913 1 2 VADAAASLEQQLEQVK

sp|O35516|NOTC2_MOUSE 0.9904 1 2 EPLPPIVTFQLIPK

sp|P61205|ARF3_MOUSE 1 2 2 DAVLLVFANK

sp|Q61781|K1C14_MOUSE 1 2 2 VLDELTLAR

sp|Q9Z1K7|APC2_MOUSE 0.9993 2 2 LPVS[167]IPAPQR

sp|P09041|PGK2_MOUSE 0.9961 1 3 VSHVSTGGGASLELLEGK

sp|P62309|RUXG_MOUSE 0.9961 1 2 GNSIIMLEALER

sp|Q66JX5|FR1OP_MOUSE 0.9961 1 2 DLLVQTLENSGVLNR

sp|P62746|RHOB_MOUSE 0.9942 1 2 QVELALWDTAGQEDYDR

sp|Q9D1M7|FKB11_MOUSE 0.9942 1 2 DPLVIELGQK

sp|Q61474|MSI1H_MOUSE 0.9914 1 2 GFGFVTFMDQAGVDK

Table S2

protein protein

probability

Num

unique peps

precursor ion

charge peptide sequence

sp|P68033|ACTC_MOUSE 1 9 2 AGFAGDDAPR

sp|Q64524|H2B2E_MOUSE 1 10 2 AMGIMNSFVNDIFER

sp|Q7TPR4|ACTN1_MOUSE 1 35 2 AGTQIENIEEDFR

sp|Q9WU78|PDC6I_MOUSE 1 33 2 ATLVKPTPVNVPVSQK

sp|Q62448|IF4G2_MOUSE 1 23 2 EWLTELFQQSK

sp|Q6PIC6|AT1A3_MOUSE 0.9951 4 2 GVGIISEGNETVEDIAAR

sp|P16110|LEG3_MOUSE 1 13 2 IQVLVEADHFK

sp|Q61206|PA1B2_MOUSE 1 2 2 IIVLGLLPR

sp|Q61941|NNTM_MOUSE 1 11 2 AVVLAANHFGR

sp|Q8BH74|NU107_MOUSE 1 13 2 AIYAALSGNLK

sp|Q9Z2I0|LETM1_MOUSE 1 9 2 ADDKLISEEGVDSLTVK

sp|Q921N6|DDX27_MOUSE 1 13 2 ALQEFDLALR

sp|Q6PAR5|GAPD1_MOUSE 1 12 2 AVETPPM[147]SSVNLLEGLSR

sp|Q9DBY8|NVL_MOUSE 1 13 2 AVANESGLNFISVK

sp|Q9WVL3|S12A7_MOUSE 1 13 2 DLQMFLYHLR

sp|P28271|ACOC_MOUSE 1 10 2 TSLSPGSGVVTYYLR

sp|Q9QZQ1|AFAD_MOUSE 1 12 2 LAAGDQLLSVDGR

sp|Q80TP3|UBR5_MOUSE 1 12 2 LLTATNLVTLPNSR

X. Y. LIU ET AL.

561

sp|Q8VED5|K2C79_MOUSE 0.9908 1 3 NKYEDEINKR

sp|P42859|HD_MOUSE 1 14 2 TLFGTNLASQFDGLSSNPSK

sp|P43247|MSH2_MOUSE 1 11 2 DSLIIIDELGR

sp|Q6P5H2|NEST_MOUSE 1 12 2 AGLELEQEVVGLEDPR

sp|Q64310|SURF4_MOUSE 1 9 2 GQNDLM[147]GTAEDFADQFLR

sp|Q60790|RASA3_MOUSE 1 11 2 FGDEFLGELR

sp|Q69ZN7|MYOF_MOUSE 1 9 2 ANVTVLDTQIR

sp|Q8BTI8|SRRM2_MOUSE 1 11 2 IPAASAAAM[147]NLASAR

sp|Q921G8|GCP2_MOUSE 1 11 2 ILPVAASYSTVTR

sp|Q6P2K6|P4R3A_MOUSE 1 9 2 AESDGSLLLESK

sp|Q91ZU6|BPA1_MOUSE 1 15 2 AGNDLIESSEGEEASNLQYK

sp|Q3TLH4|BA2D1_MOUSE 1 9 2 ESVTDYTTPSSSLPNTVATNNAK

sp|Q99K01|PDXD1_MOUSE 1 11 2 AVPVSNIAPAAVGR

sp|P48722|HS74L_MOUSE 1 11 2 EDINSIEIVGGATR

sp|Q07113|MPRI_MOUSE 1 8 2 LASM[147]QLDYR

sp|Q62383|SPT6H_MOUSE 1 9 2 IDTASLGDSTDSYIEVLDGSR

sp|Q6P549|SHIP2_MOUSE 1 10 2 ALQDM[147]SSTAPPAPLQPSIR

sp|Q8R0Y6|FTHFD_MOUSE 1 7 2 ANATEFGLASGVFTR

sp|Q8VHE0|SEC63_MOUSE 1 10 2 LIM[147]VLAGASEFDPQYNK

sp|Q3TZZ7|ESYT2_MOUSE 1 7 2 ALALLEDEEQAVR

sp|Q9CY27|GPSN2_MOUSE 1 8 2 LPVGTTATLYFR

sp|P53986|MOT1_MOUSE 1 4 2 AAQSPQQHSSGDPTEEESPV

sp|Q6Q899|DDX58_MOUSE 1 9 2 DNVAELEQVVYKPQK

sp|Q9DBT5|AMPD2_MOUSE 1 10 2 SAPYEFPEESPIEQLEER

sp|P46425|GSTP2_MOUSE 0.9995 1 2 AFLSSPEHVNRPINGNGK

sp|Q9EPK7|XPO7_MOUSE 1 9 2 AALSGSYVNFGVFR

sp|Q9ERA6|TFP11_MOUSE 1 7 2 AVSSNVGAYM[147]QPGAR

sp|P97386|DNLI3_MOUSE 1 7 2 HVLDALDPNAYEAFK

sp|Q8BI84|MIA3_MOUSE 1 6 2 ELEGLLEDMSIR

sp|Q9D2M8|UB2V2_MOUSE 0.9998 6 2 WTGM[147]IIGPPR

sp|Q61703|ITIH2_MOUSE 1 3 2 IQPSGGTNINEALLR

sp|Q8BH24|TM9S4_MOUSE 1 6 2 ITEEYYVHLIADNLPVATR

sp|Q91YR7|PRP6_MOUSE 1 6 2 LSQVSDSVSGQTVVDPK

sp|Q9ERG2|STRN3_MOUSE 1 6 2 AYIASAGADALAK

sp|Q9CR68|UCRI_MOUSE 0.9999 2 2 LQVTNVLSQPLTQATVK

sp|P08775|RPB1_MOUSE 1 5 2 INISQVIAVVGQQNVEGK

sp|Q61263|SOAT1_MOUSE 1 6 2 LLAAEAEELKPLFM[147]K

sp|Q8BPM2|M4K5_MOUSE 1 7 2 LISENTEGSAQAPQLPR

sp|Q99KD5|UN45A_MOUSE 1 3 2 ASFITANGVSLLK

sp|Q9D0A3|CO038_MOUSE 1 6 2 VNTGFLM[147]SSYK

sp|Q9DBC3|FTSJ2_MOUSE 1 8 2 IHAFVQDTTLSEPR

sp|O35678|MGLL_MOUSE 1 3 2 GAYLLM[147]ESSR

sp|Q8BX70|VP13C_MOUSE 1 7 2 SLDVFNIILVR

sp|Q8BYW9|AER61_MOUSE 1 5 2 AFTDYDVIHLK

sp|Q924Z4|LASS2_MOUSE 1 5 2 AGTLIM[147]ALHDASDYLLESAK

X. Y. LIU ET AL.

562

sp|Q9Z160|COG1_MOUSE 1 8 2 ALQLLYDLR

sp|O08759|UBE3A_MOUSE 1 6 2 M[147]M[147]ETFQQLITYK

sp|P22892|AP1G1_MOUSE 1 6 2 AM[147]ELSFALVNGNNIR

sp|Q52KI8|SRRM1_MOUSE 1 6 2 DSSVQEATSTSDILK

sp|Q6PGH2|HN1L_MOUSE 1 4 2 GSGIFDESTPVQTR

sp|Q80U72|LAP4_MOUSE 1 7 2 SLEELLLDANQLR

sp|Q8BVG4|DPP9_MOUSE 1 4 2 ELVQPFSSLFPK

sp|Q8R3S6|EXOC1_MOUSE 1 6 2 ALQEGDLVSSR

sp|Q9D4H1|EXOC2_MOUSE 1 6 2 ASNTADTLFQEVLGR

sp|O54988|SLK_MOUSE 1 6 2 AGNILFTLDGDIK

sp|P16056|MET_MOUSE 1 5 2 GDLTIANLGTSEGR

sp|O35382|EXOC4_MOUSE 1 5 2 FIQEIEHALGLGPAK

sp|P39053|DYN1_MOUSE 1 4 2 SSVLENFVGR

sp|P39447|ZO1_MOUSE 1 5 2 LAGGNDVGIFVAGVLEDSPAAK

sp|Q7TSC1|BAT2_MOUSE 1 5 2 AVGTPGANAGGAGPGISAM[147]SR

sp|Q8BU03|PWP2_MOUSE 1 3 2 AGQLLPVVQFLQK

sp|Q8BYH7|TBC17_MOUSE 1 5 2 IFSGGLSPGLR

sp|Q8CCB4|VPS53_MOUSE 1 6 2 M[147]VLLDLPSIGSQVVR

sp|Q8K368|FANCI_MOUSE 1 6 2 FVSDLLTALFR

sp|Q8R5L3|VPS39_MOUSE 1 8 2 AINLLPANTQINDIR

sp|Q99NH0|ANR17_MOUSE 1 6 2 NVSDYTPLSLAASGGYVNIIK

sp|Q9DC40|TELO2_MOUSE 1 6 2 LLGDLPDELLEAR

sp|Q9QX47|SON_MOUSE 1 5 2 AGIEGPLLASEVER

sp|Q9R0L6|PCM1_MOUSE 1 7 2 ALYALQDIVSR

sp|P83741|WNK1_MOUSE 1 5 2 IGDLGLATLK

sp|Q8CJG0|I2C2_MOUSE 1 5 2 YAQGADSVEPM[147]FR

sp|P17897|LYZ1_MOUSE 0.9976 2 2 STDYGIFQINSR

sp|P03911|NU4M_MOUSE 1 5 2 IILPSLM[147]LLPLTWLSSPK

sp|P45377|ALD2_MOUSE 1 4 3 AVQREDLFIVSK

sp|P97452|BOP1_MOUSE 1 4 2 VNVDPEDLIPK

sp|Q3U487|HECD3_MOUSE 1 4 2 AGLPLPAALAFVPR

sp|Q6PF93|PK3C3_MOUSE 1 5 2 DGDESSPILTSFELVK

sp|Q6PR54|RIF1_MOUSE 1 7 2 TIGDLSTLTASEIK

sp|Q8BIG7|CMTD1_MOUSE 1 2 2 PGGVLAVLR

sp|Q8BUV3|GEPH_MOUSE 1 5 2 DLVQDPSLLGGTISAYK

sp|Q8VBZ3|CLPT1_MOUSE 1 4 2 NLLTGETEADPEM[147]IK

sp|Q9D8V0|HM13_MOUSE 1 3 2 QYQLLFTQGSGENK

sp|Q9WV70|NOC2L_MOUSE 1 3 2 SIAFPELVLPTVLQLK

sp|Q99KH8|STK24_MOUSE 1 7 2 KTSYLTELIDR

sp|P01027|CO3_MOUSE 0.9999 3 2 SSVAVPYVIVPLK

sp|Q8BIV3|RNBP6_MOUSE 0.9985 2 2 EGFVEYTEQVVK

sp|O54827|AT10A_MOUSE 0.9919 2 2 ASPSPSLVIDGR

sp|O35604|NPC1_MOUSE 1 5 2 LQEETLDQQLGR

sp|O70579|PM34_MOUSE 1 4 2 LSSLDVFIIGAIAK

sp|P58021|TM9S2_MOUSE 1 5 2 RPSENLGQVLFGER

X. Y. LIU ET AL.

563

sp|Q3UDW8|HGNAT_MOUSE 1 2 2 ADPLSADYQPETR

sp|Q61464|ZN638_MOUSE 1 6 2 DVTVLSM[147]AEEQDLQQER

sp|Q6PIP5|NUDC1_MOUSE 1 6 2 LPTDVTAYDNR

sp|Q8VDF2|UHRF1_MOUSE 1 6 2 YDDYPEHGVDIVK

sp|Q91V04|TRAM1_MOUSE 1 3 2 LDFSTGNFNVLAVR

sp|Q9DBF1|AL7A1_MOUSE 1 5 2 GAPTTSLVSVAVTK

sp|Q9QY36|ARD1A_MOUSE 1 4 2 YYADGEDAYAM[147]K

sp|Q91W97|HKDC1_MOUSE 0.9956 2 2 M[147]ISGLYM[147]GELVR

sp|P31786|ACBP_MOUSE 1 5 2 TYVEKVDELKK

sp|P41216|ACSL1_MOUSE 1 2 2 LM[147]ITGAAPVSATVLTFLR

sp|P58404|STRN4_MOUSE 1 5 2 ALIASAGADALAK

sp|Q0VGY8|TANC1_MOUSE 1 7 2 ANFQEIISALPFVK

sp|Q3TCJ1|F175B_MOUSE 1 3 2 AIYQVYNALQEK

sp|Q3UVK0|ERMP1_MOUSE 1 5 2 AFINLEAAGVGGK

sp|Q5H8C4|VP13A_MOUSE 1 4 2 ALVGGAVGGLAGAASK

sp|Q60953|PML_MOUSE 1 4 2 DNSVSSFLDSTR

sp|Q6P9Q6|FKB15_MOUSE 1 5 2 EVATDGLLQGNSR

sp|Q80Y81|RNZ2_MOUSE 1 4 2 LDNIFLTR

sp|Q8C8R3|ANK2_MOUSE 1 3 2 VVTEEVTTTTTTITEK

sp|Q8K1X1|BRWD2_MOUSE 1 3 2 LLLDPDFSLLQR

sp|Q8R4G6|MGT5A_MOUSE 1 4 2 TLAVLLDNILQR

sp|Q8VDC0|SYLM_MOUSE 1 4 2 AM[147]QDALADLPEWYGIK

sp|Q91W86|VPS11_MOUSE 1 3 2 GNYPVTGLAFR

sp|Q99PG2|OGFR_MOUSE 1 3 2 QSALDYFLFAVR

sp|Q9EPU4|CPSF1_MOUSE 1 4 2 VLVDSSFGQPTTQGEVR

sp|Q9ERG0|LIMA1_MOUSE 1 5 2 SQDVGFWEGEVVR

sp|Q9ET30|TM9S3_MOUSE 1 4 2 DAFVYAIK

sp|Q9JIX8|ACINU_MOUSE 1 4 2 KVTLGDTLTR

sp|P46467|VPS4B_MOUSE 1 4 2 GILLFGPPGTGK

sp|Q922W5|P5CR1_MOUSE 0.9999 2 2 LGAQALLGAAK

sp|O35609|SCAM3_MOUSE 1 3 2 AQQEFAAGVFSNPAVR

sp|P11688|ITA5_MOUSE 1 3 2 VTAPLEAEYSGLVR

sp|P81117|NUCB2_MOUSE 1 3 2 AATADLEQYDR

sp|Q0KL02|TRIO_MOUSE 1 5 2 DNFDAFYSEVAELGR

sp|Q3TMX7|QSOX2_MOUSE 1 5 2 EGSDAVWLLDSGSVR

sp|Q3U186|SYRM_MOUSE 1 2 2 GGVTFLEDVLNEVQSR

sp|Q3UMF0|COBL1_MOUSE 1 3 2 DYQAQEPLDLTK

sp|Q6ZQ93|UBP34_MOUSE 1 10 2 SFLLLAASTLLK

sp|Q8BTY8|SCFD2_MOUSE 1 3 2 SQIAVNDVFM[147]ALR

sp|Q8BXN9|TM87A_MOUSE 1 3 2 ADEIESYLENLK

sp|Q8C0L8|COG5_MOUSE 1 3 2 GALEAYVQSVR

sp|Q8C754|VPS52_MOUSE 1 3 2 FLEQLQELDAK

sp|Q8CBQ5|P4K2B_MOUSE 1 3 2 IAAIDNGLAFPFK

sp|Q8K2C9|PTAD1_MOUSE 1 3 3 VELSDVQNPAISITDNVLHFK

sp|Q8R0A0|T2FB_MOUSE 1 4 3 VVTTNYKPVANHQYNIEYER

X. Y. LIU ET AL.

564

sp|Q8R5J9|PRAF3_MOUSE 1 2 2 TPM[147]GIILDALEQQEDNINK

sp|Q8VEL2|MTMRE_MOUSE 1 2 2 AATPSPSGAIGGLLEQFAR

sp|Q922U1|PRPF3_MOUSE 1 5 2 LFEAVEEGR

sp|Q99LB7|SARDH_MOUSE 1 3 2 DPSGGPVSLDFVK

sp|Q9CQJ6|DENR_MOUSE 1 3 2 QETGITEGQGPVGEEEEK

sp|Q9D853|METLA_MOUSE 1 3 2 SGNTVAALVFQK

sp|Q9WV68|DECR2_MOUSE 1 5 2 VAFITGGGSGIGFR

sp|Q61411|RASH_MOUSE 1 3 2 LVVVGAGGVGK

sp|Q3UV17|K22O_MOUSE 0.99 1 2 AQYEDIAQK

sp|Q8K0V4|CNOT3_MOUSE 1 3 2 M[147]LDNDSILVDAIR

sp|Q921C5|BICD2_MOUSE 1 4 2 VGLLATLQDTQK

sp|Q811J3|IREB2_MOUSE 0.9999 3 2 EGIPLIILAGK

sp|P00397|COX1_MOUSE 0.9983 2 2 M[147]IGAPDM[147]AFPR

sp|Q8BZ98|DYN3_MOUSE 0.9964 2 2 SSVLENFVGR

sp|Q9ERY9|ERG28_MOUSE 0.9955 2 2 YLEAEPVSR

sp|O08784|TCOF_MOUSE 1 3 2 AGAVTSSASLSSPALAK

sp|O35657|NEUR1_MOUSE 1 3 2 GTLLAFAEAR

sp|P03888|NU1M_MOUSE 1 3 2 GPNIVGPYGILQPFADAM[147]K

sp|P70206|PLXA1_MOUSE 1 4 2 FVDDLFETIFSTAHR

sp|Q3UMC0|SPAT5_MOUSE 1 6 2 ALANESGLNFLAIK

sp|Q5DTT3|CJ018_MOUSE 1 4 2 VIPILPALSYALLEAK

sp|Q5RJG1|NOL10_MOUSE 1 3 2 DLENLGLTHLIGSPFLR

sp|Q68FF6|GIT1_MOUSE 1 3 2 SLSSPTDNLELSAR

sp|Q80YV3|TRRAP_MOUSE 1 5 2 NFIQTILTSLIEK

sp|Q8BM72|HSP13_MOUSE 1 4 2 IFTPEELEAEVGR

sp|Q8R151|ZNFX1_MOUSE 1 5 2 INVFDFGQWPSK

sp|Q8VCR7|ABHEB_MOUSE 1 3 2 FSVLLLHGIR

sp|Q91X52|DCXR_MOUSE 1 4 2 GVPGAIVNVSSQASQR

sp|Q9D8N2|FAM45_MOUSE 1 3 2 M[147]M[147]ESYIAVLTK

sp|Q9QWT9|KIFC1_MOUSE 1 4 2 LTYLLQNSLGGSAK

sp|Q9Z2G6|SE1L1_MOUSE 1 3 2 AADM[147]GNPVGQSGLGM[147]AYLYGR

sp|P10648|GSTA2_MOUSE 1 3 2 SHGQDYLVGNR

sp|Q3B7Z2|OSBP1_MOUSE 1 4 2 IPM[147]PVNFNEPLSM[147]LQR

sp|Q8BLR2|CPNE4_MOUSE 0.9999 2 2 DIVQFVPFR

sp|P28028|BRAF1_MOUSE 0.9999 3 2 M[147]LNVTAPTPQQLQAFK

sp|Q8K4L0|DDX54_MOUSE 0.9997 3 2 AGLTEPVLIR

sp|Q6GQT1|A2MP_MOUSE 0.9992 3 2 M[147]VSGFIPLKPTVK

sp|Q8BFR1|ZCCHL_MOUSE 0.9989 2 2 FLLQEVELR

sp|O35621|PMM1_MOUSE 0.994 1 2 NGM[147]LNVSPIGR

sp|Q9CZX7|TM55A_MOUSE 0.9917 2 2 ISSVGSALPR

sp|O88487|DC1I2_MOUSE 1 3 2 EAAVSVQEESDLEK

sp|P52875|TM165_MOUSE 1 3 2 M[147]SPDEGQEELEEVQAELK

sp|P97478|COQ7_MOUSE 1 2 2 IYAGQM[147]AVLGR

sp|Q2HXL6|EDEM3_MOUSE 1 3 2 FTGATIFEEYAR

sp|Q3THK3|T2FA_MOUSE 1 3 2 IYQEEEM[147]PESGAGSEFNR

X. Y. LIU ET AL.

565

sp|Q3UHJ0|AAK1_MOUSE 1 4 2 AGQTQPNPGILPIQPALTPR

sp|Q60596|XRCC1_MOUSE 1 3 2 HFFLYGEFPGDER

sp|Q60855|RIPK1_MOUSE 1 3 2 AEYNEVLLEEGK

sp|Q80TE0|RPAP1_MOUSE 1 4 2 VSSLLLPVPK

sp|Q80U70|SUZ12_MOUSE 1 5 2 ETLTTELQTR

sp|Q811D0|DLG1_MOUSE 1 3 2 QVTPDGESDEVGVIPSK

sp|Q8BI72|CARF_MOUSE 1 4 2 GSASFVSSLLK

sp|Q8BM55|TM214_MOUSE 1 4 2 SQSVFTGNPSVWLK

sp|Q8BT07|CEP55_MOUSE 1 5 2 YSSSSLFEQLEEK

sp|Q8BZ20|PAR12_MOUSE 1 4 2 LGLSSDLVSR

sp|Q8CGU1|CACO1_MOUSE 1 3 2 AALLGEELASAAGAR

sp|Q8K0Q5|RHG18_MOUSE 1 4 2 IEEGSLETEGLLR

sp|Q8R2M2|TDIF2_MOUSE 1 3 2 LTSSSIDPGLNIK

sp|Q8VIM9|IRGQ_MOUSE 1 3 2 PLPQGDVTALFLGPPGSGK

sp|Q91VW5|GOGA4_MOUSE 1 3 2 SLLEELASQLDSR

sp|Q91WR3|ASCC2_MOUSE 1 3 2 HNIFQNDEFDVFSR

sp|Q91YK2|RRP1B_MOUSE 1 3 2 LGALPDSSSDLPVQK

sp|Q99J27|ACATN_MOUSE 1 4 2 YTAGPQPLNIFYK

sp|Q99KB8|GLO2_MOUSE 1 3 2 HVEPGNAAIQEK

sp|Q99LB2|DHRS4_MOUSE 1 4 2 LAEDGAHVVVSSR

sp|Q99M28|RNPS1_MOUSE 1 3 2 DHIMEIFSTYGK

sp|Q9D2N9|VP33A_MOUSE 1 4 2 IISAAFEER

sp|Q9DBR0|AKAP8_MOUSE 1 3 2 TVEFLQEYIINR

sp|Q9JJA2|COG8_MOUSE 1 3 2 ISQFLQVLETDLYR

sp|Q9WTR1|TRPV2_MOUSE 1 3 2 GVPEELTGLLEYLR

sp|Q9Z2V5|HDAC6_MOUSE 1 3 2 LVDALM[147]GAEIR

sp|Q64261|CDK6_MOUSE 0.9917 1 2 VQTSEEGM[147]PLSTIR

sp|P63011|RAB3A_MOUSE 1 2 2 M[147]SESLDTADPAVTGAK

sp|Q04692|SMRCD_MOUSE 0.9999 2 2 QEQLYSGLFNR

sp|Q3U308|CP084_MOUSE 0.9999 3 2 DLPSLDPLPPYVLAEAQLR

sp|Q8VHE6|DYH5_MOUSE 0.9999 7 2 RTDLNYIAAVDLK

sp|P24638|PPAL_MOUSE 0.9998 2 2 LQGGVLLAQILK

sp|Q8BZQ7|ANC2_MOUSE 0.9998 2 2 IEELFSIIR

sp|Q99KR7|PPIF_MOUSE 0.9998 3 2 HVGPGVLSM[147]AN

sp|P83510|TNIK_MOUSE 0.9993 2 2 NIATYYGAFIK

sp|P62858|RS28_MOUSE 0.9984 2 2 EGDVLTLLESER

sp|Q8R2U4|ME11A_MOUSE 0.9978 2 2 TAGLSLLAEER

sp|P45878|FKBP2_MOUSE 0.9968 2 2 LVIPSELGYGER

sp|P08032|SPTA1_MOUSE 0.9967 3 2 FLTLLAK

sp|Q8C7B8|ZSWM4_MOUSE 0.9943 2 2 LQPALTSR

sp|O35682|MYADM_MOUSE 1 2 2 TTITTTTSSSTTVGSAR

sp|O70481|UBR1_MOUSE 1 2 2 INSENAEALAQLLTLAR

sp|O88746|TOM1_MOUSE 1 4 2 SSPDLTGVVAVYEDLR

sp|P48771|CX7A2_MOUSE 1 2 2 LFQEDNGM[147]PVHLK

sp|P62313|LSM6_MOUSE 1 2 2 GNNVLYISTQK

X. Y. LIU ET AL.

566

sp|P97314|CSRP2_MOUSE 1 2 2 GFGYGQGAGALVHAQ

sp|Q00547|HMMR_MOUSE 1 3 2 DVTAQLESVQEK

sp|Q3TVI8|PBIP1_MOUSE 1 2 2 QEGLALFGVELAPVR

sp|Q3UVG3|F91A1_MOUSE 1 3 2 VQGDYFETLLYK

sp|Q60772|CDN2C_MOUSE 1 3 2 DGTGFAVIHDAAR

sp|Q64FW2|RETST_MOUSE 1 3 2 ATVQSVLLDSAGR

sp|Q6DVA0|LEMD2_MOUSE 1 3 2 ELQALGFQPGPITDTTR

sp|Q6NVE8|WDR44_MOUSE 1 2 2 LLASAGQDNIVR

sp|Q6NZN0|RBM26_MOUSE 1 3 2 VIQPLVQQPILPVVK

sp|Q80XU3|NUCKS_MOUSE 1 2 3 TPSPKEEDEEAESPPEKK

sp|Q8BFW7|LPP_MOUSE 1 3 2 M[147]LYDM[147]ENPPADDYFGR

sp|Q8BTZ5|ANR46_MOUSE 1 2 2 LLESLEEQEVK

sp|Q8BUY5|CC001_MOUSE 1 2 2 AGAVAADSPGFVEDR

sp|Q8C3I8|BRP16_MOUSE 1 3 2 DQGAYLILR

sp|Q8C9B9|DIDO1_MOUSE 1 3 2 TASPLEHILQTLFGK

sp|Q8K3X4|EAP1_MOUSE 1 2 2 YGLSAAAAAAAAAAAVEQR

sp|Q8R307|VPS18_MOUSE 1 3 2 LGALQGDPDALTLYR

sp|Q8R3P6|CO044_MOUSE 1 3 2 AALAFGFLDLLK

sp|Q8R3V5|SHLB2_MOUSE 1 2 2 LASDAGIFFTR

sp|Q8R5H6|WASF1_MOUSE 1 3 2 IENDVATILSR

sp|Q8VD04|GRAP1_MOUSE 1 4 2 TQTGDSSSVSSFSYR

sp|Q91VS7|MGST1_MOUSE 1 2 2 IYHTIAYLTPLPQPNR

sp|Q91VX9|TM168_MOUSE 1 2 2 TVDIEEADPPQLGDFTR

sp|Q91VY9|ZN622_MOUSE 1 3 3 VHSFFIPDIEYLSDLK

sp|Q922S8|KIF2C_MOUSE 1 4 2 FSLVDLAGNER

sp|Q922Y1|UBXN1_MOUSE 1 2 2 GEEPGQDQDPVQLLSGFPR

sp|Q923D5|WBP11_MOUSE 1 2 2 AVSILPLLGHGVPR

sp|Q9CQU3|RER1_MOUSE 1 2 2 LGQIYQSWLDK

sp|Q9CYK1|SYWM_MOUSE 1 3 2 YGEFFPLPK

sp|Q9D0M0|EXOS7_MOUSE 1 3 3 VYIVHGVQEDLR

sp|Q9D1C8|VPS28_MOUSE 1 2 2 AM[147]DEIQPDLR

sp|Q9DB96|NGDN_MOUSE 1 2 2 ASGASLQGHPAVLR

sp|Q9DC29|ABCB6_MOUSE 1 2 2 APDIILLDEATSALDTSNER

sp|Q9DCD2|SYF1_MOUSE 1 2 2 FYEDNGQLDDAR

sp|Q9QUJ7|ACSL4_MOUSE 1 4 2 SDQSYVISFVVPNQK

sp|Q9QWF0|CAF1A_MOUSE 1 2 2 LVGGQGPIDSFLR

sp|Q9QY06|MYO9B_MOUSE 1 3 2 TPIESLFIEATER

sp|Q9Z1T6|FYV1_MOUSE 1 3 2 DYFPEQIYWSPLLNK

sp|Q9Z2A5|ATE1_MOUSE 1 3 2 SLEDLIFQSLPENASHK

sp|Q9Z2L7|CRLF3_MOUSE 1 2 2 LIEHGVNTADDLVR

sp|O35638|STAG2_MOUSE 0.9999 2 2 M[147]YSDAFLNDSYLK

sp|P25425|PO2F1_MOUSE 1 3 2 LYGNDFSQTTISR

sp|P42232|STA5B_MOUSE 1 4 2 IQAQFAQLGQLNPQER

sp|P61620|S61A1_MOUSE 1 5 3 GM[147]EFEGAIIALFHLLATR

sp|P84075|HPCA_MOUSE 0.997 1 2 IYANFFPYGDASK

X. Y. LIU ET AL.

567

sp|P15116|CADH2_MOUSE 0.9999 3 2 LNGDFAQLNLK

sp|P70700|RPA2_MOUSE 0.9999 3 2 ISLTIVDAVISPPSVPK

sp|Q60928|GGT1_MOUSE 0.9999 2 2 FVDVSQVIR

sp|Q8CI95|OSB11_MOUSE 0.9999 3 2 SVILHLLSQLK

sp|Q91V01|PCAT3_MOUSE 0.9999 2 2 LATSLGASEQALR

sp|Q9D0P8|RAYL_MOUSE 0.9999 2 2 SQTSGISLPGVLVGTK

sp|Q9JJL8|SYSM_MOUSE 0.9999 2 2 VLIALLESNQQK

sp|Q9QZ08|NAGK_MOUSE 0.9999 2 2 LGILTHLYR

sp|Q02780|NFIA_MOUSE 0.9999 2 2 LDLVM[147]VILFK

sp|Q91W69|EPN3_MOUSE 0.9999 2 2 NIVHNYSEAEIK

sp|Q9CTG6|AT132_MOUSE 0.9996 3 2 ELSLLGLLVM[147]R

sp|Q9R0Q9|MPU1_MOUSE 0.9996 2 2 GLGLGIVAGSLLVK

sp|Q60848|HELLS_MOUSE 0.9995 2 2 LISQIQPEVNR

sp|Q91ZN5|S35B2_MOUSE 0.9994 2 2 APDEVLLAPR

sp|Q9WUU9|MCM3A_MOUSE 0.9994 3 2 LPLYLPQTLVSFPDSIK

sp|P00848|ATP6_MOUSE 0.9993 2 2 LSM[147]AIPLWAGAVITGFR

sp|Q8BTI7|ANR52_MOUSE 0.9993 2 2 DAVSPFSFSLLK

sp|Q9JHS3|MAPIP_MOUSE 0.9993 2 2 NGNQAFNEDSLK

sp|Q3TYS2|CQ062_MOUSE 0.9991 2 2 DIQDVNVEEEK

sp|O88848|ARL6_MOUSE 0.999 3 2 IPILFFANK

sp|Q80TZ9|RERE_MOUSE 0.999 2 2 VDSFFYILGYNPETR

sp|P97412|LYST_MOUSE 0.9988 5 2 DLSGLLVSAFK

sp|Q9CPP0|NPM3_MOUSE 0.9988 2 2 DHDNQEIAVPVANLR

sp|Q8BFS6|CSTP1_MOUSE 0.9986 2 2 LTEQAVEAINK

sp|Q8R1S0|COQ6_MOUSE 0.9981 2 2 ILLLEAGPK

sp|Q8VHN7|GPR98_MOUSE 0.998 4 2 FAEPCVLR

sp|Q9R0M6|RAB9A_MOUSE 0.9976 2 2 EPESFPFVILGNK

sp|Q8BYU6|TOIP2_MOUSE 0.9957 5 2 FESLPAGSTLIFYK

sp|Q9WTL7|LYPA2_MOUSE 0.9956 2 2 FGALTAEK

sp|Q9Z2R6|U119A_MOUSE 0.9949 1 2 QPIGPEDVLGLQR

sp|Q9CQT2|RBM7_MOUSE 0.9919 2 2 TLFVGNLETK

sp|Q9CY57|CA077_MOUSE 0.9917 1 2 EQLDNQLDAYM[147]SK

sp|P03930|ATP8_MOUSE 1 2 2 VSSQTFPLAPSPK

sp|P24610|PAX3_MOUSE 1 3 2 TTFTAEQLEELER

sp|P70302|STIM1_MOUSE 1 3 2 YAEEELEQVR

sp|P70677|CASP3_MOUSE 1 4 2 LEFM[147]HILTR

sp|Q09143|CTR1_MOUSE 1 2 2 VIYAM[147]AEDGLLFK

sp|Q3UA37|QRIC1_MOUSE 1 3 2 EIQEAIAVANATTM[147]H

sp|Q3UGY8|BIG3_MOUSE 1 4 2 NLIDTLSTPLTGR

sp|Q3UW53|NIBAN_MOUSE 1 4 2 VLTSEEEYSLLSDK

sp|Q64430|ATP7A_MOUSE 1 5 2 QIEAVGFPAFIK

sp|Q8BHY8|SNX14_MOUSE 1 3 2 LVSLITLLR

sp|Q8BTG3|T11L1_MOUSE 1 3 2 AIFSVLDLM[147]K

sp|Q8C5W3|TBCEL_MOUSE 1 3 2 YYVDVPQEEVPFR

sp|Q8CIM8|INT4_MOUSE 1 3 2 FLQEVDFFQR

X. Y. LIU ET AL.

568

sp|Q91VZ6|SMAP1_MOUSE 1 3 2 LLYEANLPENFR

sp|Q9JLV1|BAG3_MOUSE 1 3 2 ELLALDSVDPEGR

sp|Q9QYC7|VKGC_MOUSE 1 3 2 DGLTGELGYLNPGVFTQSR

sp|Q9QYH6|MAGD1_MOUSE 1 3 2 ATEAVLWEALR

sp|Q9R0I7|YLPM1_MOUSE 1 3 2 VFSSEQGLGESSALSQSIIAAK

sp|P61028|RAB8B_MOUSE 0.9993 2 2 SSTNVEEAFFTLAR

sp|Q8JZR6|S4A8_MOUSE 0.9984 2 2 FLFILLGPVGK

sp|Q9CQK7|RWDD1_MOUSE 1 4 3 AKFDAELLEIKK

sp|P10922|H10_MOUSE 0.9999 2 2 YSDM[147]IVAAIQAEK

sp|Q3UUQ7|PGAP1_MOUSE 0.9998 3 2 AFFDLIDADTK

sp|Q8CHC4|SYNJ1_MOUSE 0.9998 3 2 VLDAYGLLGVLR

sp|Q8K370|ACD10_MOUSE 0.9998 4 2 LSLQPSEAIFLDDLGSNLK

sp|Q8BGZ2|F168A_MOUSE 0.9997 2 2 SIPSAIYPAPVAAPR

sp|Q922H1|ANM3_MOUSE 0.9997 3 2 QTVFLLEKPFPVK

sp|P58854|GCP3_MOUSE 0.9996 3 2 YLLLGQGDFIR

sp|Q9CQZ6|NDUB3_MOUSE 0.9996 3 2 M[147]ELPDYR

sp|P47713|PA24A_MOUSE 0.9995 3 2 DVPVVAILGSGGGFR

sp|Q99JP7|GGT7_MOUSE 0.9995 3 2 LPEDEPAPAAPLR

sp|O55242|OPRS1_MOUSE 0.9994 2 2 QYAGLDHELAFSR

sp|Q8K5B2|MCFD2_MOUSE 0.9994 2 2 DDDKNNDGYIDYAEFAK

sp|Q5U430|UBR3_MOUSE 0.9992 3 2 LDPDYFISSVFER

sp|Q9QZH6|ECSIT_MOUSE 0.9992 3 2 IFVHYPR

sp|Q9Z0J0|NPC2_MOUSE 0.9991 2 2 LPVKNEYPSIK

sp|Q6P8H8|ALG8_MOUSE 0.999 2 2 AILLAILPM[147]SLLSVEK

sp|Q8K4M5|COMD1_MOUSE 0.999 2 2 LSEVEESINR

sp|Q9CQB5|CISD2_MOUSE 0.9987 3 2 QLPVPDSITGFAR

sp|Q03173|ENAH_MOUSE 0.9986 2 2 VEDGSFPGGGNTGSVSLASSK

sp|Q9EPN1|NBEA_MOUSE 0.9984 3 2 EISNFEYLM[147]FLNTIAGR

sp|Q9R0Q4|MO4L2_MOUSE 0.9983 2 2 EYAVNEVVGGIK

sp|Q8VCI5|PEX19_MOUSE 0.9975 2 2 ELAEEEPHLVEQFQK

sp|Q80U78|PUM1_MOUSE 0.9973 1 2 SASSASSLFSPSSTLFSSSR

sp|Q6ZPE2|MTMR5_MOUSE 0.9964 2 2 GLLALLFPLR

sp|Q8CHT3|INT5_MOUSE 0.9957 2 2 EQPLLFELLK

sp|Q91XL9|OSBL1_MOUSE 0.9917 1 2 ITM[147]PVIFNEPLSFLQR

sp|Q80UG2|PLXA4_MOUSE 0.9911 1 2 FVDDLFETIFSTAHR

sp|A2AAJ9|OBSCN_MOUSE 0.9904 3 2 EDENFVCIR

sp|P97857|ATS1_MOUSE 0.99 1 2 GIGYFFVLQPK

sp|O89017|LGMN_MOUSE 1 2 2 DYTGEDVTPENFLAVLR

sp|Q3UFM5|NOM1_MOUSE 1 3 2 ELITEAQTQASGAGNK

sp|Q5PRF0|HTR5A_MOUSE 1 2 2 VLILEQLLNSIK

sp|Q5SUC9|SCO1_MOUSE 1 2 2 LVGLTGTKEEIDGVAR

sp|Q64282|IFIT1_MOUSE 1 3 2 ISEQVQFLDIK

sp|Q91WG2|RABE2_MOUSE 1 2 2 LQAELETSEQVQR

sp|Q99MU3|DSRAD_MOUSE 1 3 2 YLNTNPVGGLLEYAR

sp|Q9CR88|RT14_MOUSE 1 2 2 HLADHGLLSGVQR

X. Y. LIU ET AL.

569

sp|Q9D187|FA96B_MOUSE 1 2 2 SGERPVTAGEEDEEVPDSIDAR

sp|Q9Z0R9|FADS2_MOUSE 1 3 2 ALIDIVSSLK

sp|Q61771|KIF3B_MOUSE 1 2 2 HLIIENFIPLEEK

sp|O08601|MTP_MOUSE 0.9999 3 2 SGFTTANQVLGVSSK

sp|O35350|CAN1_MOUSE 0.9999 2 2 APSDLYQIILK

sp|O88879|APAF_MOUSE 0.9999 2 2 GSPLVVSLIGALLR

sp|Q3SXD3|HDDC2_MOUSE 0.9999 2 2 LQDFYDSTAGK

sp|Q3U5F4|YRDC_MOUSE 0.9999 2 2 LPESEPVEAASPER

sp|Q80XQ2|TBCD5_MOUSE 0.9999 2 2 TFPEM[147]QFFQQENVR

sp|Q8BKX6|SMG1_MOUSE 0.9999 4 2 AQDTFQTIEGIIR

sp|Q9CQ75|NDUA2_MOUSE 0.9999 2 2 TVSLNNLSADEVTR

sp|Q9DBA9|TF2H1_MOUSE 0.9999 2 2 M[147]LQEDPVLFQLYK

sp|Q9EQG9|C43BP_MOUSE 0.9999 2 2 DVLYLSAIR

sp|Q3TEL6|RN157_MOUSE 0.9999 2 2 VSYLLQEIYGIENK

sp|Q66T02|PKHG5_MOUSE 0.9998 3 2 SLGEVLLPVFER

sp|Q8R080|GTSE1_MOUSE 0.9998 2 2 VPQFSVGESPGGVTPK

sp|Q8VHL1|SETD7_MOUSE 0.9998 2 2 VYVADSLISSAGEGLFSK

sp|Q99LH1|NOG2_MOUSE 0.9998 2 2 VIDSSDVVVQVLDAR

sp|Q05793|PGBM_MOUSE 0.9997 5 2 VIPYFTQTPYSFLPLPTIK

sp|Q3UGP8|AG10B_MOUSE 0.9997 2 2 YFILPYIIYR

sp|Q9D4H2|GCC1_MOUSE 0.9997 2 2 TQLATLTSSLATVTQEK

sp|Q9Z1X9|CC45L_MOUSE 0.9997 2 2 LQEFLADM[147]GLPLK

sp|Q6IQX7|CHSS2_MOUSE 0.9996 2 2 LTVLLPLAAAER

sp|Q6PEV3|WIPF2_MOUSE 0.9996 2 2 GSSGGYGPGAAALQPK

sp|Q6XUX1|RIPK5_MOUSE 0.9996 2 3 SPLYGQLVDLGYLSSSHR

sp|Q6ZWZ2|UB2R2_MOUSE 0.9996 2 2 FPIDYPYSPPTFR

sp|P40201|CHD1_MOUSE 0.9927 2 2 M[147]LDILAEYLK

sp|Q5SWT3|S2535_MOUSE 0.9994 2 2 LGTYGLAESR

sp|Q91ZR1|RAB4B_MOUSE 0.9994 2 2 M[147]GSGIQYGDISLR

sp|P46414|CDN1B_MOUSE 0.9993 2 2 NLFGPVNHEELTR

sp|Q3U5Q7|CMPK2_MOUSE 0.9993 2 2 AFYSLGNYLVASEIAK

sp|Q9CQ86|CQ037_MOUSE 0.9993 2 2 EEYPGIEIESR

sp|P62311|LSM3_MOUSE 0.9992 2 2 GDGVVLVAPPLR

sp|Q5BLK4|ZCHC6_MOUSE 0.9992 2 2 NTEPVGQLWLGLLR

sp|Q8R550|SH3K1_MOUSE 0.9992 2 2 M[147]EPAVSSQAAIEELK

sp|P54116|STOM_MOUSE 0.9991 2 2 EASM[147]VITESPAALQLR

sp|Q501J2|F173A_MOUSE 0.9991 2 2 LQAELPVGAR

sp|Q3UDR8|YIPF3_MOUSE 0.999 2 2 DIPAVLPAAR

sp|Q9EPQ7|STAR5_MOUSE 0.999 2 2 SM[147]AEFYPNLQK

sp|Q9CYZ6|CS060_MOUSE 0.9989 2 2 DAPIATLVQR

sp|P28741|KIF3A_MOUSE 0.9988 2 2 SAKPETVIDSLLQ

sp|Q9CYA6|ZCHC8_MOUSE 0.9988 2 2 LVNYPGFNISTPR

sp|Q9R1S3|PIGN_MOUSE 0.9988 2 2 EATLPFLFTPFK

sp|Q9R207|NBN_MOUSE 0.9988 2 2 LLPAAGAAPGEPYR

sp|Q9JKX4|AATF_MOUSE 0.9987 2 2 ALLTTNQLPQPDVFPVFK

X. Y. LIU ET AL.

570

sp|Q5KU39|VPS41_MOUSE 0.9986 4 2 IVLLM[147]DFDSEK

sp|P0C1Q2|PDE11_MOUSE 0.9985 2 2 DISNDLDLTSLSYK

sp|Q76KJ5|RPA34_MOUSE 0.9985 2 2 EATLLASSSEAGGR

sp|Q9D850|TMM68_MOUSE 0.9985 2 2 TFLGDPIPYDPK

sp|Q9R0D8|WDR54_MOUSE 0.9985 2 2 TISALDLAPEVGK

sp|Q8K2F8|LS14A_MOUSE 0.9981 2 2 YEGILYTIDTENSTVALAK

sp|Q9CPV5|PMF1_MOUSE 0.9981 2 2 NQELADAVLAGR

sp|Q9DCI9|RM32_MOUSE 0.998 2 2 QQIGAQEGGPFR

sp|Q9CQ18|RNH2C_MOUSE 0.9978 2 2 HDADGLQASFR

sp|Q9D8Y1|T126A_MOUSE 0.9978 2 2 ILNVTQAR

sp|Q9WTK3|GPAA1_MOUSE 0.9976 2 2 YGVEALTLR

sp|P70444|BID_MOUSE 0.9975 2 2 IEPDSESQEEIIHNIAR

sp|Q07139|ECT2_MOUSE 0.9974 2 2 LPSVALLLNDLK

sp|Q8BMD6|CN101_MOUSE 0.9974 3 2 LPGTGIDPEVLLSEAIR

sp|Q9D600|PSF2_MOUSE 0.9974 2 2 TNLQPSESTQSQDF

sp|Q8BTJ4|ENPP4_MOUSE 0.9973 2 2 EVDDLIGDIVLK

sp|Q8QZX2|CD015_MOUSE 0.9973 2 2 TNPM[147]VFLSQFPLGK

sp|Q924L1|LTMD1_MOUSE 0.9972 2 2 LGIGQLTAQEVK

sp|Q7TSZ8|NACC1_MOUSE 0.9971 2 2 FSTPDLALNR

sp|Q61207|SAP_MOUSE 0.997 2 2 TVVTEAGNLLK

sp|Q9D023|BR44_MOUSE 0.9969 3 2 YSLVIIPK

sp|Q8K1A6|C2D1A_MOUSE 0.9967 2 2 SFDPVLEALSR

sp|Q9CPR1|RWDD4_MOUSE 0.9966 2 2 SIYEGDNSFR

sp|Q3TBW2|RM10_MOUSE 0.996 2 2 VFPSQVLKPFLENSK

sp|Q8BK75|CC075_MOUSE 0.9958 2 2 GQLVFLEGLK

sp|P50096|IMDH1_MOUSE 0.9954 1 2 NLIDAGVDGLR

sp|P63139|NFYB_MOUSE 0.9951 2 2 EQDIYLPIANVAR

sp|Q9R059|FHL3_MOUSE 0.9949 2 2 TLTQGGVTYR

sp|Q3ULF4|SPG7_MOUSE 0.9944 2 2 EGGFSAFNQLK

sp|Q80UZ2|SDA1_MOUSE 0.9943 1 2 DLLVQYATGK

sp|Q8VE19|MIO_MOUSE 0.9932 2 2 NLAIFDLR

sp|Q9JKK8|ATR_MOUSE 0.9931 3 2 FLDLIPQDTLAVASFR

sp|Q8CIG3|AOF1_MOUSE 0.9927 2 2 VLVTVPLAILQR

sp|Q3TDD9|KLRAQ_MOUSE 0.9917 2 2 EGLAQQVQQSLEK

sp|Q6PCM2|INT6_MOUSE 0.9917 1 2 NLQAEGLTTLGQSLR

sp|Q8K2F0|BRD3_MOUSE 0.9917 1 2 EYPDAQGFAADIR

sp|Q8R0J7|VP37B_MOUSE 0.9917 1 2 SLAEGNLLYQPQLDAQK

sp|Q9QUG2|POLK_MOUSE 0.9912 2 2 ASTVPAAISTAEEIFAIAK

sp|Q68EF0|RAB3I_MOUSE 0.9908 1 2 IDVLQAEVAALK

sp|Q7TPM1|BAT2L_MOUSE 0.99 1 2 LLSFSPEEFPTLK

sp|O35379|MRP1_MOUSE 1 2 2 LYAWELAFQDK

sp|P70399|TP53B_MOUSE 1 3 2 VITDVYYVDGTEVER

sp|Q4FZC9|SYNE3_MOUSE 1 2 2 AATLLEQVTSSVR

sp|Q6P8M1|TATD1_MOUSE 1 2 2 HQDDLQDVIER

sp|Q8BK03|FA73B_MOUSE 1 2 2 PAAAYEEALQLVK

X. Y. LIU ET AL.

571

sp|Q8BW10|NOB1_MOUSE 1 2 2 TDVFAPDYIAGVSPFAENDISSR

sp|Q99K74|MED24_MOUSE 1 2 2 VESLVALLNNSSEM[147]K

sp|Q9CQF4|CF203_MOUSE 1 2 2 SEQEEELESEPGVAK

sp|Q9Z2A7|DGAT1_MOUSE 1 2 2 LQDSLFSSDSGFSNYR

sp|P59016|VP33B_MOUSE 0.9999 2 2 AGLLTEQAPGDTLTAVESK

sp|Q5DU25|IQEC2_MOUSE 0.9999 2 2 LIEAFSQR

sp|Q8VDD9|PHIP_MOUSE 0.9999 2 3 YHDM[147]PDVIDFLVLR

sp|A2AR02|PPIG_MOUSE 0.9998 2 2 DFM[147]VQGGDFSEGNGR

sp|Q8C3X8|LMF2_MOUSE 0.9998 2 2 LFGSVEHLQLANSYGLFR

sp|P70188|KIFA3_MOUSE 0.9997 2 2 SLNANTDITSLAR

sp|Q9ER69|FL2D_MOUSE 0.9997 2 2 STM[147]VDPAINLFFLK

sp|Q9QZ73|DCNL1_MOUSE 0.9997 2 2 QFM[147]IFTQSSEK

sp|P58501|GCFC_MOUSE 0.9996 2 2 TLQELSIDGLLNR

sp|P22366|MYD88_MOUSE 0.9991 2 2 FALSLSPGVQQK

sp|P97480|EYA3_MOUSE 0.999 2 2 SNVGGLLSPQR

sp|Q0P678|ZCH18_MOUSE 0.999 2 3 ASQQAAAPQPAVPGQPQQGSFVAHK

sp|Q9CX00|K0174_MOUSE 0.999 2 2 ELDSGLAESVSTLIWAAPR

sp|Q61037|TSC2_MOUSE 0.9987 3 2 LGYLPYSLLFR

sp|P46938|YAP1_MOUSE 0.9985 2 2 GDSETDLEALFNAVM[147]NPK

sp|P62046|LRCH1_MOUSE 0.9985 2 2 NLESIDPQFTIR

sp|P97473|TRBP2_MOUSE 0.9985 2 2 TPISLLQEYGTR

sp|Q5PSV9|MDC1_MOUSE 0.9985 3 2 LGLPLLSPEFLLTGVLK

sp|Q9JKL4|CC060_MOUSE 0.9985 2 2 IEIVVVGTGNK

sp|P97300|NPTN_MOUSE 0.9984 2 3 KRPDEVPDDDEPAGPM[147]K

sp|Q99KY4|GAK_MOUSE 0.9984 2 2 IAVM[147]SFPAEGVESAIK

sp|P59672|ANS1A_MOUSE 0.9981 3 2 LLLNGFDDVR

sp|Q8VDR9|DOCK6_MOUSE 0.9979 2 2 VAELYLPLLSLAR

sp|Q80VQ1|LRRC1_MOUSE 0.9967 1 2 SLEELLLDANQLR

sp|Q9CXF7|CHD1L_MOUSE 0.9963 2 2 GIPTYIYYFPR

sp|Q9D820|U566_MOUSE 0.9962 2 2 FVLDSAFLEGGHEK

sp|Q8K2J4|CCD14_MOUSE 0.9952 3 2 NVSQTAEK

sp|P49769|PSN1_MOUSE 0.9937 2 2 NETLFPALIYSST

sp|Q3V1H1|CKAP2_MOUSE 0.9924 2 2 IEPITSPIENIISIYEK

sp|P70236|MP2K6_MOUSE 0.9923 2 2 ADDLEPIVELGR

sp|O35375|NRP2_MOUSE 0.9917 1 2 IFQANNDATEVVLNK

sp|P50427|STS_MOUSE 0.9917 1 2 VLAALDELGLAR

sp|P84089|ERH_MOUSE 0.9917 1 2 ADTQTYQPYNK

sp|Q5DTK1|CHSS3_MOUSE 0.9917 1 2 DNTVQGQQVYYPIIFSQYDPK

sp|Q8K4R9|DLGP5_MOUSE 0.9917 1 2 ANEILVQQGLESLTDR

sp|Q91YU8|SSF1_MOUSE 0.9917 1 2 TEEELQAILAAK

sp|Q9CQ39|MED21_MOUSE 0.9917 1 2 IQSALADIAQSQLK

sp|Q9Z0R4|ITSN1_MOUSE 0.9917 1 2 LQEIDVFNNQLK

sp|Q8VCF0|MAVS_MOUSE 0.9914 2 2 DTLWGLFNNLQR

sp|Q6TEK5|VKORL_MOUSE 0.9908 1 2 GFGLLGSIFGK

sp|Q9JIA7|SPHK2_MOUSE 0.9908 1 2 LLILVNPFGGR

X. Y. LIU ET AL.

572

sp|Q99LC9|PEX6_MOUSE 0.9902 3 2 LVFVGASEDR

sp|Q3U1G5|I20L2_MOUSE 0.9985 2 2 IDLLGEFQSALPK

sp|Q8BXA1|GOLI4_MOUSE 0.9981 2 2 DAGFQALEEQNQVEPR

sp|P70158|ASM3A_MOUSE 0.998 2 2 NGNPLNSVFVAPAVTPVK

sp|Q61624|ZN148_MOUSE 0.9979 2 2 LPQGLQYALNVPISVK

sp|Q9QXE7|TBLX_MOUSE 0.9979 2 2 HQEPVYSVAFSPDGK

sp|P59997|JHD1A_MOUSE 0.9974 2 2 ILLEELASSDPK

sp|Q8BRG8|TM209_MOUSE 0.9918 2 2 YTVAPTSLVVSPGQQALLGLK

sp|Q3URD3|SLMAP_MOUSE 0.9917 1 2 IEALQADNDFTNER

sp|Q62388|ATM_MOUSE 0.9917 1 2 SVATSSIVGYILGLGDR

sp|Q7TMW6|NARFL_MOUSE 0.9917 1 2 APDTEGSELLQQLER

sp|Q80YR4|ZN598_MOUSE 0.9917 1 2 TPGLAPTPQAYLVPENFR

sp|Q8K3K8|OPTN_MOUSE 0.9917 1 2 ADLLGIVSELQLK

sp|Q9CPS7|PNO1_MOUSE 0.9917 1 2 RPVFPPLSGDQLLTGK

sp|P70261|PALD_MOUSE 0.9908 1 2 ALGNILAYLSDAK

sp|Q8BW49|TTC12_MOUSE 0.9908 1 2 ANTAIGILTDLALEER

sp|Q91W92|BORG5_MOUSE 0.9908 1 2 LTADM[147]ISPPLGDFR

sp|Q9Z0P7|SUFU_MOUSE 0.9908 1 2 VSILPDVVFDSPLH

sp|P62737|ACTA_MOUSE 1 5 2 AVFPSIVGR

sp|P12246|SAMP_MOUSE 0.9965 1 2 APPSIVLGQEQDNYGGGFQR

sp|P62835|RAP1A_MOUSE 0.9952 1 2 INVNEIFYDLVR

sp|Q80Y17|L2GL1_MOUSE 0.9948 1 2 APVVAIAVLDGR

Table S3

All the abbreviated words and their full name

1DE-LC-MS/MS dimensional gel electrophoresis- liquid chromatography-mass spectrometry

ACN Acetonitrile

BSA Bovine Albumin Standards

DMEM Dulbecco's Modified Eagle Media

Dnmt3a DNA methyltransferase 3A

Dnmt3a-D Dnmt3a depletion B16 melanoma

ERK extracellular signal-regulated kinase

FBS Fetal bovine serum

GO Genome Ontology

IEF isoelectro- focusing

IPG immobilized pH gradient

IPI International Protein Index

JNK c-Jun N-terminal kinase

KEGG Kyoto Encyclopedia of Genes and Genomes

LTQ-Orbitrap Linear ion trap Orbitrap

MAPK mitogen activated protein kinase signaling pathway

NC negative control cell line

PBS phosphate-buffered saline

PMSF phenylmethanesulfonyl fluoride

TPP Trans-Proteomic Pipeline