|
|
ID |
Name |
Source |
pValue |
FDR B&H |
FDR B&Y |
Bonferroni |
Genes from Input
|
Genes in Annotation
|
|
1
|
16196087
|
Large-scale analysis of the human ubiquitin-related proteome.
|
Pubmed
|
6.336E-8
|
1.883E-4
|
1.615E-3
|
1.883E-4
|
7
|
313
|
|
2
|
21890473
|
A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
|
Pubmed
|
1.361E-7
|
2.023E-4
|
1.735E-3
|
4.046E-4
|
6
|
209
|
|
3
|
21139048
|
Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level.
|
Pubmed
|
2.580E-7
|
2.082E-4
|
1.785E-3
|
7.667E-4
|
6
|
233
|
|
4
|
17643375
|
Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme.
|
Pubmed
|
2.802E-7
|
2.082E-4
|
1.785E-3
|
8.327E-4
|
7
|
390
|
|
5
|
22032989
|
CSA and CSB proteins interact with p53 and regulate its Mdm2-dependent ubiquitination.
|
Pubmed
|
4.801E-7
|
2.854E-4
|
2.447E-3
|
1.427E-3
|
3
|
14
|
|
6
|
14743216
|
A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway.
|
Pubmed
|
1.125E-6
|
4.579E-4
|
3.926E-3
|
3.343E-3
|
5
|
162
|
|
7
|
16815301:gr
|
Induction of CML28-specific cytotoxic T cell responses using co-transfected dendritic cells with CML28 DNA vaccine and SOCS1 small interfering RNA expression vector.
|
GeneRIF
|
1.233E-6
|
4.579E-4
|
3.926E-3
|
3.663E-3
|
2
|
2
|
|
8
|
16815301
|
Induction of CML28-specific cytotoxic T cell responses using co-transfected dendritic cells with CML28 DNA vaccine and SOCS1 small interfering RNA expression vector.
|
Pubmed
|
1.233E-6
|
4.579E-4
|
3.926E-3
|
3.663E-3
|
2
|
2
|
|
9
|
24816145
|
A COFRADIC protocol to study protein ubiquitination.
|
Pubmed
|
1.468E-6
|
4.847E-4
|
4.156E-3
|
4.362E-3
|
5
|
171
|
|
10
|
17761535
|
Functional characterization of the OFD1 protein reveals a nuclear localization and physical interaction with subunits of a chromatin remodeling complex.
|
Pubmed
|
3.691E-6
|
9.756E-4
|
8.365E-3
|
1.097E-2
|
2
|
3
|
|
11
|
21906983
|
Systematic and quantitative assessment of the ubiquitin-modified proteome.
|
Pubmed
|
3.739E-6
|
9.756E-4
|
8.365E-3
|
1.111E-2
|
5
|
207
|
|
12
|
20467437
|
Direct interaction between hnRNP-M and CDC5L/PLRG1 proteins affects alternative splice site choice.
|
Pubmed
|
3.939E-6
|
9.756E-4
|
8.365E-3
|
1.171E-2
|
7
|
581
|
|
13
|
25609649
|
Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes.
|
Pubmed
|
4.673E-6
|
1.068E-3
|
9.160E-3
|
1.389E-2
|
8
|
849
|
|
14
|
22268729
|
Proteomic identification of common SCF ubiquitin ligase FBXO6-interacting glycoproteins in three kinds of cells.
|
Pubmed
|
5.588E-6
|
1.186E-3
|
1.017E-2
|
1.661E-2
|
7
|
613
|
|
15
|
19690564
|
A comprehensive framework of E2-RING E3 interactions of the human ubiquitin-proteasome system.
|
Pubmed
|
9.531E-6
|
1.759E-3
|
1.508E-2
|
2.833E-2
|
4
|
117
|
|
16
|
21630459
|
Proteomic characterization of the human sperm nucleus.
|
Pubmed
|
9.712E-6
|
1.759E-3
|
1.508E-2
|
2.886E-2
|
6
|
437
|
|
17
|
23658844
|
The novel ubiquitin ligase complex, SCF(Fbxw4), interacts with the COP9 signalosome in an F-box dependent manner, is mutated, lost and under-expressed in human cancers.
|
Pubmed
|
1.006E-5
|
1.759E-3
|
1.508E-2
|
2.991E-2
|
3
|
37
|
|
18
|
22505724
|
Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
|
Pubmed
|
1.880E-5
|
3.104E-3
|
2.661E-2
|
5.586E-2
|
4
|
139
|
|
19
|
20595234
|
The Prp19 complex and the Usp4Sart3 deubiquitinating enzyme control reversible ubiquitination at the spliceosome.
|
Pubmed
|
3.433E-5
|
3.936E-3
|
3.375E-2
|
1.020E-1
|
2
|
8
|
|
20
|
23000965
|
Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
|
Pubmed
|
3.765E-5
|
3.936E-3
|
3.375E-2
|
1.119E-1
|
4
|
166
|
|
21
|
21963094
|
Global identification of modular cullin-RING ligase substrates.
|
Pubmed
|
4.941E-5
|
3.936E-3
|
3.375E-2
|
1.468E-1
|
4
|
178
|
|
22
|
25882842
|
CRL3IBTK Regulates the Tumor Suppressor Pdcd4 through Ubiquitylation Coupled to Proteasomal Degradation.
|
Pubmed
|
5.509E-5
|
3.936E-3
|
3.375E-2
|
1.637E-1
|
2
|
10
|
|
23
|
25852190
|
Integrative analysis of kinase networks in TRAIL-induced apoptosis provides a source of potential targets for combination therapy.
|
Pubmed
|
8.855E-5
|
3.936E-3
|
3.375E-2
|
2.632E-1
|
5
|
401
|
|
24
|
25147182
|
Quantitative Lys-¿-Gly-Gly (diGly) proteomics coupled with inducible RNAi reveals ubiquitin-mediated proteolysis of DNA damage-inducible transcript 4 (DDIT4) by the E3 ligase HUWE1.
|
Pubmed
|
8.855E-5
|
3.936E-3
|
3.375E-2
|
2.632E-1
|
5
|
401
|
|
25
|
17314511
|
Large-scale identification of c-MYC-associated proteins using a combined TAP/MudPIT approach.
|
Pubmed
|
9.369E-5
|
3.936E-3
|
3.375E-2
|
2.784E-1
|
4
|
210
|
|
26
|
9253601
|
A transcript map for the 2.8-Mb region containing the multiple endocrine neoplasia type 1 locus.
|
Pubmed
|
9.528E-5
|
3.936E-3
|
3.375E-2
|
2.832E-1
|
2
|
13
|
|
27
|
22767593
|
Deconjugation of Nedd8 from Cul1 is directly regulated by Skp1-F-box and substrate, and the COP9 signalosome inhibits deneddylated SCF by a noncatalytic mechanism.
|
Pubmed
|
9.528E-5
|
3.936E-3
|
3.375E-2
|
2.832E-1
|
2
|
13
|
|
28
|
23463506
|
The intracellular interactome of tetraspanin-enriched microdomains reveals their function as sorting machineries toward exosomes.
|
Pubmed
|
9.718E-5
|
3.936E-3
|
3.375E-2
|
2.888E-1
|
4
|
212
|
|
29
|
20833797
|
Phosphoproteome analysis of functional mitochondria isolated from resting human muscle reveals extensive phosphorylation of inner membrane protein complexes and enzymes.
|
Pubmed
|
1.067E-4
|
3.936E-3
|
3.375E-2
|
3.171E-1
|
3
|
81
|
|
30
|
20562859
|
Network organization of the human autophagy system.
|
Pubmed
|
1.254E-4
|
3.936E-3
|
3.375E-2
|
3.726E-1
|
5
|
432
|
|
31
|
18606781
|
Human immunodeficiency virus type 1 Vpr-binding protein VprBP, a WD40 protein associated with the DDB1-CUL4 E3 ubiquitin ligase, is essential for DNA replication and embryonic development.
|
Pubmed
|
1.281E-4
|
3.936E-3
|
3.375E-2
|
3.806E-1
|
2
|
15
|
|
32
|
16036220
|
CAND1 enhances deneddylation of CUL1 by COP9 signalosome.
|
Pubmed
|
1.463E-4
|
3.936E-3
|
3.375E-2
|
4.347E-1
|
2
|
16
|
|
33
|
14690596
|
Regulation of NF-kappaB signaling by Pin1-dependent prolyl isomerization and ubiquitin-mediated proteolysis of p65/RelA.
|
Pubmed
|
1.463E-4
|
3.936E-3
|
3.375E-2
|
4.347E-1
|
2
|
16
|
|
34
|
22190034
|
Global landscape of HIV-human protein complexes.
|
Pubmed
|
1.628E-4
|
3.936E-3
|
3.375E-2
|
4.839E-1
|
5
|
457
|
|
35
|
21081666
|
Nuclear import of histone deacetylase 5 by requisite nuclear localization signal phosphorylation.
|
Pubmed
|
2.062E-4
|
3.936E-3
|
3.375E-2
|
6.129E-1
|
4
|
258
|
|
36
|
17403899
|
CIF-1, a shared subunit of the COP9/signalosome and eukaryotic initiation factor 3 complexes, regulates MEL-26 levels in the Caenorhabditis elegans embryo.
|
Pubmed
|
2.551E-4
|
3.936E-3
|
3.375E-2
|
7.580E-1
|
2
|
21
|
|
37
|
11719186
|
AU binding proteins recruit the exosome to degrade ARE-containing mRNAs.
|
Pubmed
|
2.551E-4
|
3.936E-3
|
3.375E-2
|
7.580E-1
|
2
|
21
|
|
38
|
18187620
|
Identification of host proteins required for HIV infection through a functional genomic screen.
|
Pubmed
|
2.556E-4
|
3.936E-3
|
3.375E-2
|
7.598E-1
|
4
|
273
|
|
39
|
22681889
|
The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts.
|
Pubmed
|
2.773E-4
|
3.936E-3
|
3.375E-2
|
8.242E-1
|
6
|
803
|
|
40
|
21549307
|
Maintenance of silent chromatin through replication requires SWI/SNF-like chromatin remodeler SMARCAD1.
|
Pubmed
|
3.162E-4
|
3.936E-3
|
3.375E-2
|
9.397E-1
|
3
|
117
|
|
41
|
17079684
|
DDB1 functions as a linker to recruit receptor WD40 proteins to CUL4-ROC1 ubiquitin ligases.
|
Pubmed
|
4.568E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
2
|
28
|
|
42
|
25943894
|
1Differential immune mechanism to HIV-1 Tat variants and its regulation by AEA.
|
Pubmed
|
4.568E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
2
|
28
|
|
43
|
26752685
|
FIH Regulates Cellular Metabolism through Hydroxylation of the Deubiquitinase OTUB1.
|
Pubmed
|
4.909E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
3
|
136
|
|
44
|
23398456
|
The P-body component USP52/PAN2 is a novel regulator of HIF1A mRNA stability.
|
Pubmed
|
5.109E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
4
|
328
|
|
45
|
19490893
|
A genome-wide RNAi screen identifies multiple synthetic lethal interactions with the Ras oncogene.
|
Pubmed
|
5.406E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
4
|
333
|
|
46
|
19549727
|
Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network.
|
Pubmed
|
5.798E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
3
|
144
|
|
47
|
16503656
|
Analysis of Nedd8-associated polypeptides: a model for deciphering the pathway for ubiquitin-like modifications.
|
Pubmed
|
5.977E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
2
|
32
|
|
48
|
17267499
|
NFX1-123 and poly(A) binding proteins synergistically augment activation of telomerase in human papillomavirus type 16 E6-expressing cells.
|
Pubmed
|
5.977E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
2
|
32
|
|
49
|
16964240
|
Molecular architecture and assembly of the DDB1-CUL4A ubiquitin ligase machinery.
|
Pubmed
|
5.977E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
2
|
32
|
|
50
|
15231747
|
A protein interaction framework for human mRNA degradation.
|
Pubmed
|
6.306E-4
|
3.936E-3
|
3.375E-2
|
1.000E0
|
4
|
347
|