secondary lysosome Gene Set

Dataset COMPARTMENTS Text-mining Protein Localization Evidence Scores
Category structural or functional annotations
Type cellular component
Description Vacuole formed by the fusion of a lysosome with an organelle (autosome) or with a primary phagosome. (Gene Ontology, GO_0005767)
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Genes

320 proteins co-occuring with the secondary lysosome cellular component in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.

Symbol Name Standardized Value
ACPP acid phosphatase, prostate 1.85662
LAMP1 lysosomal-associated membrane protein 1 1.70322
CTSD cathepsin D 1.60593
BECN1 beclin 1, autophagy related 1.54461
FTH1 ferritin, heavy polypeptide 1 1.34392
FTL ferritin, light polypeptide 1.33087
LAMP2 lysosomal-associated membrane protein 2 1.29906
ATG5 autophagy related 5 1.23557
MAP4 microtubule-associated protein 4 1.20601
MAP1LC3B microtubule-associated protein 1 light chain 3 beta 1.17671
MAPT microtubule-associated protein tau 1.07765
MAP2 microtubule-associated protein 2 1.07005
CTSB cathepsin B 1.0413
SQSTM1 sequestosome 1 1.03129
SLC11A1 solute carrier family 11 (proton-coupled divalent metal ion transporter), member 1 1.03129
CTSS cathepsin S 1.01189
ATG7 autophagy related 7 0.983419
MTOR mechanistic target of rapamycin (serine/threonine kinase) 0.977589
RAB34 RAB34, member RAS oncogene family 0.938795
KRT83 keratin 83, type II 0.938795
GUSB glucuronidase, beta 0.920918
PIK3C3 phosphatidylinositol 3-kinase, catalytic subunit type 3 0.894406
CTSL cathepsin L 0.865367
EEA1 early endosome antigen 1 0.849746
ATG12 autophagy related 12 0.840564
DECR1 2,4-dienoyl CoA reductase 1, mitochondrial 0.797436
ATP12A ATPase, H+/K+ transporting, nongastric, alpha polypeptide 0.793313
ATP4A ATPase, H+/K+ exchanging, alpha polypeptide 0.791939
EPGN epithelial mitogen 0.772275
ALB albumin 0.758161
MRC1 mannose receptor, C type 1 0.748641
ACP2 acid phosphatase 2, lysosomal 0.735115
MPO myeloperoxidase 0.735115
TG thyroglobulin 0.713238
TECPR1 tectonin beta-propeller repeat containing 1 0.709251
RILP Rab interacting lysosomal protein 0.707039
NLRP3 NLR family, pyrin domain containing 3 0.700423
LYG2 lysozyme G-like 2 0.677238
TFRC transferrin receptor 0.670725
LPO lactoperoxidase 0.654311
CAT catalase 0.632878
LYZ lysozyme 0.621804
APOE apolipoprotein E 0.620954
IRGM immunity-related GTPase family, M 0.620104
ULK1 unc-51 like autophagy activating kinase 1 0.608663
PI3 peptidase inhibitor 3, skin-derived 0.604862
IRG1 immunoresponsive 1 homolog (mouse) 0.589714
CD4 CD4 molecule 0.585942
EPG5 ectopic P-granules autophagy protein 5 homolog (C. elegans) 0.577999
M6PR mannose-6-phosphate receptor (cation dependent) 0.562187
TFEB transcription factor EB 0.555973
MORN2 MORN repeat containing 2 0.554732
ARSH arylsulfatase family, member H 0.532078
SERPINA13P serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 13, pseudogene 0.521841
DNAH8 dynein, axonemal, heavy chain 8 0.510418
SPNS1 spinster homolog 1 (Drosophila) 0.50879
HLA-B major histocompatibility complex, class I, B 0.507977
CD63 CD63 molecule 0.505944
DRG1 developmentally regulated GTP binding protein 1 0.499042
GAA glucosidase, alpha; acid 0.4958
COMTD1 catechol-O-methyltransferase domain containing 1 0.488115
BHMT betaine--homocysteine S-methyltransferase 0.486096
MCOLN1 mucolipin 1 0.476027
RNF185 ring finger protein 185 0.468401
EPX eosinophil peroxidase 0.4676
BNIP3 BCL2/adenovirus E1B 19kDa interacting protein 3 0.463598
CD68 CD68 molecule 0.442896
SOD2 superoxide dismutase 2, mitochondrial 0.441312
SMPD1 sphingomyelin phosphodiesterase 1, acid lysosomal 0.439333
CARD17 caspase recruitment domain family, member 17 0.439333
CTSG cathepsin G 0.436565
ESX1 ESX homeobox 1 0.43538
CLN6 ceroid-lipofuscinosis, neuronal 6, late infantile, variant 0.433012
FCGR2A Fc fragment of IgG, low affinity IIa, receptor (CD32) 0.42396
RAB24 RAB24, member RAS oncogene family 0.413382
ATG16L1 autophagy related 16-like 1 (S. cerevisiae) 0.408309
TF transferrin 0.406361
B4GALT7 xylosylprotein beta 1,4-galactosyltransferase, polypeptide 7 0.404804
PTBP2 polypyrimidine tract binding protein 2 0.400139
REG3G regenerating islet-derived 3 gamma 0.400139
FLOT1 flotillin 1 0.391228
RAB22A RAB22A, member RAS oncogene family 0.389682
FXYD1 FXYD domain containing ion transport regulator 1 0.38428
DEFA4 defensin, alpha 4, corticostatin 0.381199
MAP1A microtubule-associated protein 1A 0.380814
SYTL1 synaptotagmin-like 1 0.380045
G6PC glucose-6-phosphatase, catalytic subunit 0.378891
VTI1B vesicle transport through interaction with t-SNAREs 1B 0.378507
SNAPIN SNAP-associated protein 0.37505
CASP3 caspase 3, apoptosis-related cysteine peptidase 0.371599
RAB7A RAB7A, member RAS oncogene family 0.365859
SLC25A30 solute carrier family 25, member 30 0.365477
HMGB1 high mobility group box 1 0.360896
AKT1 v-akt murine thymoma viral oncogene homolog 1 0.351002
CLC Charcot-Leyden crystal galectin 0.350622
INS insulin 0.346071
TLR2 toll-like receptor 2 0.345692
CTSC cathepsin C 0.344178
ARSA arylsulfatase A 0.342664
HCK HCK proto-oncogene, Src family tyrosine kinase 0.342285
CD164 CD164 molecule, sialomucin 0.341907
CD1B CD1b molecule 0.337373
TNF tumor necrosis factor 0.332095
RAB5A RAB5A, member RAS oncogene family 0.331342
DPP7 dipeptidyl-peptidase 7 0.330589
CTSE cathepsin E 0.326829
ATG4C autophagy related 4C, cysteine peptidase 0.325327
TLR9 toll-like receptor 9 0.32345
BCKDHA branched chain keto acid dehydrogenase E1, alpha polypeptide 0.322325
VMP1 vacuole membrane protein 1 0.314839
IFIT5 interferon-induced protein with tetratricopeptide repeats 5 0.314465
ZNF85 zinc finger protein 85 0.307377
NPRL2 nitrogen permease regulator-like 2 (S. cerevisiae) 0.307377
EXOC2 exocyst complex component 2 0.303655
NT5E 5'-nucleotidase, ecto (CD73) 0.303283
CERK ceramide kinase 0.30254
CD1C CD1c molecule 0.297342
CARD9 caspase recruitment domain family, member 9 0.29586
GLB1 galactosidase, beta 1 0.29586
CAMP cathelicidin antimicrobial peptide 0.292157
CD209 CD209 molecule 0.290678
CLEC16A C-type lectin domain family 16, member A 0.285138
EI24 etoposide induced 2.4 0.278509
HAVCR1 hepatitis A virus cellular receptor 1 0.276671
VAMP3 vesicle-associated membrane protein 3 0.269701
ENTPD5 ectonucleoside triphosphate diphosphohydrolase 5 0.267871
DAPK2 death-associated protein kinase 2 0.266774
ATG14 autophagy related 14 0.25547
WDR83 WD repeat domain 83 0.251839
SCRG1 stimulator of chondrogenesis 1 0.249302
CD79A CD79a molecule, immunoglobulin-associated alpha 0.24894
PPA2 pyrophosphatase (inorganic) 2 0.246046
CD86 CD86 molecule 0.245685
IGF2R insulin-like growth factor 2 receptor 0.241356
VAMP8 vesicle-associated membrane protein 8 0.240276
CRHBP corticotropin releasing hormone binding protein 0.238119
MAP2K2 mitogen-activated protein kinase kinase 2 0.236683
MTM1 myotubularin 1 0.234533
ITGAM integrin, alpha M (complement component 3 receptor 3 subunit) 0.234174
SLC4A1AP solute carrier family 4 (anion exchanger), member 1, adaptor protein 0.233459
PPP2R2B protein phosphatase 2, regulatory subunit B, beta 0.232386
ATP11A ATPase, class VI, type 11A 0.232029
RHO rhodopsin 0.229532
RAP2B RAP2B, member of RAS oncogene family 0.225622
CPNE1 copine I 0.224204
NOS2 nitric oxide synthase 2, inducible 0.218212
RBKS ribokinase 0.21716
BANF1 barrier to autointegration factor 1 0.216111
PPARGC1B peroxisome proliferator-activated receptor gamma, coactivator 1 beta 0.215412
AQR aquarius intron-binding spliceosomal factor 0.214714
VIPAS39 VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog 0.214017
VAMP5 vesicle-associated membrane protein 5 0.213322
SLC34A1 solute carrier family 34 (type II sodium/phosphate cotransporter), member 1 0.211587
PRL prolactin 0.210549
ALPPL2 alkaline phosphatase, placental-like 2 0.207108
ALPL alkaline phosphatase, liver/bone/kidney 0.206766
ALPP alkaline phosphatase, placental 0.206423
PRNP prion protein 0.203022
MEFV Mediterranean fever 0.202684
HLA-DPB1 major histocompatibility complex, class II, DP beta 1 0.198991
DCTN1 dynactin 1 0.197662
UVRAG UV radiation resistance associated 0.19733
SLC40A1 solute carrier family 40 (iron-regulated transporter), member 1 0.19733
C7 complement component 7 0.196339
MTR 5-methyltetrahydrofolate-homocysteine methyltransferase 0.195681
CD40 CD40 molecule, TNF receptor superfamily member 5 0.191456
VPS72 vacuolar protein sorting 72 homolog (S. cerevisiae) 0.191135
PIGB phosphatidylinositol glycan anchor biosynthesis, class B 0.18859
ATG9A autophagy related 9A 0.18796
WIPI1 WD repeat domain, phosphoinositide interacting 1 0.185469
RAB20 RAB20, member RAS oncogene family 0.183631
ATG3 autophagy related 3 0.180045
LRRK2 leucine-rich repeat kinase 2 0.178877
PTPN6 protein tyrosine phosphatase, non-receptor type 6 0.178299
MAVS mitochondrial antiviral signaling protein 0.177154
B4GALT2 UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 2 0.17687
B4GALT3 UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 3 0.17687
BCL2 B-cell CLL/lymphoma 2 0.176024
IDH2 isocitrate dehydrogenase 2 (NADP+), mitochondrial 0.174635
ST8SIA1 ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 1 0.174087
NCOA4 nuclear receptor coactivator 4 0.172735
KCNB1 potassium channel, voltage gated Shab related subfamily B, member 1 0.17141
USE1 unconventional SNARE in the ER 1 homolog (S. cerevisiae) 0.169604
BAG3 BCL2-associated athanogene 3 0.169604
SLC11A2 solute carrier family 11 (proton-coupled divalent metal ion transporter), member 2 0.168598
DCTN2 dynactin 2 (p50) 0.165697
RAPGEF3 Rap guanine nucleotide exchange factor (GEF) 3 0.165231
BEAN1 brain expressed, associated with NEDD4, 1 0.160658
CR1 complement component (3b/4b) receptor 1 (Knops blood group) 0.160254
DIRC2 disrupted in renal carcinoma 2 0.157397
CALM3 calmodulin 3 (phosphorylase kinase, delta) 0.157039
CALM2 calmodulin 2 (phosphorylase kinase, delta) 0.156863
CALM1 calmodulin 1 (phosphorylase kinase, delta) 0.156688
RPS6KB1 ribosomal protein S6 kinase, 70kDa, polypeptide 1 0.156342
DHFR dihydrofolate reductase 0.142548
RBBP9 retinoblastoma binding protein 9 0.14188
NCBP1 nuclear cap binding protein subunit 1, 80kDa 0.141795
CAPN7 calpain 7 0.141542
NRD1 nardilysin (N-arginine dibasic convertase) 0.141527
BLVRB biliverdin reductase B 0.134648
ANXA4 annexin A4 0.134294
ENTPD4 ectonucleoside triphosphate diphosphohydrolase 4 0.134246
B4GALNT2 beta-1,4-N-acetyl-galactosaminyl transferase 2 0.133608
VARS valyl-tRNA synthetase 0.133506
MTO1 mitochondrial tRNA translation optimization 1 0.133173
REEP5 receptor accessory protein 5 0.133078
ABCB1 ATP-binding cassette, sub-family B (MDR/TAP), member 1 0.133003
HPD 4-hydroxyphenylpyruvate dioxygenase 0.132474
FANCL Fanconi anemia, complementation group L 0.131482
LGMN legumain 0.131344
EPB41 erythrocyte membrane protein band 4.1 0.131205
NDUFAB1 NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1, 8kDa 0.131167
STOM stomatin 0.131103
RAB12 RAB12, member RAS oncogene family 0.130831
ZC3H12A zinc finger CCCH-type containing 12A 0.130685
BNIP1 BCL2/adenovirus E1B 19kDa interacting protein 1 0.130672
XPNPEP1 X-prolyl aminopeptidase (aminopeptidase P) 1, soluble 0.130645
AMPD2 adenosine monophosphate deaminase 2 0.130565
KCNJ13 potassium channel, inwardly rectifying subfamily J, member 13 0.130511
HDAC10 histone deacetylase 10 0.130484
OSTC oligosaccharyltransferase complex subunit (non-catalytic) 0.130429
CERS1 ceramide synthase 1 0.130237
BAMBI BMP and activin membrane-bound inhibitor 0.13014
DIRAS3 DIRAS family, GTP-binding RAS-like 3 0.129626
TPT1 tumor protein, translationally-controlled 1 0.129582
CALCOCO2 calcium binding and coiled-coil domain 2 0.12933
USP9X ubiquitin specific peptidase 9, X-linked 0.129315
CSTB cystatin B (stefin B) 0.129194
VAC14 Vac14 homolog (S. cerevisiae) 0.129103
TP53INP1 tumor protein p53 inducible nuclear protein 1 0.129041
DUT deoxyuridine triphosphatase 0.128824
KRT9 keratin 9, type I 0.128522
AMBRA1 autophagy/beclin-1 regulator 1 0.12849
MAP1LC3A microtubule-associated protein 1 light chain 3 alpha 0.128393
RAB31 RAB31, member RAS oncogene family 0.128377
AKAP13 A kinase (PRKA) anchor protein 13 0.128295
GNE glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase 0.128096
PLOD1 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 0.127774
SEC31A SEC31 homolog A (S. cerevisiae) 0.127723
TIMD4 T-cell immunoglobulin and mucin domain containing 4 0.127567
TMPRSS13 transmembrane protease, serine 13 0.127532
EXOC3 exocyst complex component 3 0.127284
PDE6D phosphodiesterase 6D, cGMP-specific, rod, delta 0.127212
DGKD diacylglycerol kinase, delta 130kDa 0.12714
EDA ectodysplasin A 0.127104
KIAA0226 KIAA0226 0.127104
AZU1 azurocidin 1 0.127031
TSKU tsukushi, small leucine rich proteoglycan 0.126734
PGM1 phosphoglucomutase 1 0.126697
FCGR1A Fc fragment of IgG, high affinity Ia, receptor (CD64) 0.126659
GZMH granzyme H (cathepsin G-like 2, protein h-CCPX) 0.126507
ANXA2 annexin A2 0.126373
HTRA1 HtrA serine peptidase 1 0.126373
S100A9 S100 calcium binding protein A9 0.126353
CMAS cytidine monophosphate N-acetylneuraminic acid synthetase 0.126178
PSAP prosaposin 0.126178
BPI bactericidal/permeability-increasing protein 0.12594
UTY ubiquitously transcribed tetratricopeptide repeat containing, Y-linked 0.12594
NHLRC1 NHL repeat containing E3 ubiquitin protein ligase 1 0.12588
SPTLC2 serine palmitoyltransferase, long chain base subunit 2 0.12586
STX17 syntaxin 17 0.125615
RAB5B RAB5B, member RAS oncogene family 0.125615
HSPD1 heat shock 60kDa protein 1 (chaperonin) 0.125553
VPS33B vacuolar protein sorting 33 homolog B (yeast) 0.125511
TIAL1 TIA1 cytotoxic granule-associated RNA binding protein-like 1 0.125491
CAST calpastatin 0.125217
APEH acylaminoacyl-peptide hydrolase 0.125175
LXN latexin 0.124959
NPPB natriuretic peptide B 0.124916
GNPDA1 glucosamine-6-phosphate deaminase 1 0.12485
ACIN1 apoptotic chromatin condensation inducer 1 0.124784
SYK spleen tyrosine kinase 0.124674
MRPS7 mitochondrial ribosomal protein S7 0.124517
LGALS8 lectin, galactoside-binding, soluble, 8 0.124472
MAGI2 membrane associated guanylate kinase, WW and PDZ domain containing 2 0.124427
MMP12 matrix metallopeptidase 12 0.124358
RAC2 ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2) 0.124312
SNF8 SNF8, ESCRT-II complex subunit 0.123988
REN renin 0.123964
KDELR1 KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 0.123703
CD1E CD1e molecule 0.123607
PTEN phosphatase and tensin homolog 0.123582
TCN1 transcobalamin I (vitamin B12 binding protein, R binder family) 0.123436
DCLK3 doublecortin-like kinase 3 0.123337
RPS6KB2 ribosomal protein S6 kinase, 70kDa, polypeptide 2 0.123011
MIR210 microRNA 210 0.122986
ABCC4 ATP-binding cassette, sub-family C (CFTR/MRP), member 4 0.122677
IDE insulin-degrading enzyme 0.122625
LARS leucyl-tRNA synthetase 0.122573
ITCH itchy E3 ubiquitin protein ligase 0.122573
MT3 metallothionein 3 0.122521
GOPC golgi-associated PDZ and coiled-coil motif containing 0.122521
CA3 carbonic anhydrase III 0.122494
STX6 syntaxin 6 0.122468
CYP2B6 cytochrome P450, family 2, subfamily B, polypeptide 6 0.122441
CNTN3 contactin 3 (plasmacytoma associated) 0.122335
NPRL3 nitrogen permease regulator-like 3 (S. cerevisiae) 0.122282
CFTR cystic fibrosis transmembrane conductance regulator (ATP-binding cassette sub-family C, member 7) 0.122255
EIF4EBP1 eukaryotic translation initiation factor 4E binding protein 1 0.122174
VSX1 visual system homeobox 1 0.122092
NPPA natriuretic peptide A 0.121983
GNPTAB N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits 0.121929
HTT huntingtin 0.121873
RAB21 RAB21, member RAS oncogene family 0.121706
LAP3 leucine aminopeptidase 3 0.121594
ANXA6 annexin A6 0.121338
FASLG Fas ligand (TNF superfamily, member 6) 0.121338
TGM2 transglutaminase 2 0.121193
ST8SIA2 ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 2 0.121105
PSMB4 proteasome (prosome, macropain) subunit, beta type, 4 0.121105
ATG4B autophagy related 4B, cysteine peptidase 0.121076
SLC17A5 solute carrier family 17 (acidic sugar transporter), member 5 0.121047
RALA v-ral simian leukemia viral oncogene homolog A (ras related) 0.120959
HLA-DMA major histocompatibility complex, class II, DM alpha 0.120899
CLEC7A C-type lectin domain family 7, member A 0.120899
ROCK1 Rho-associated, coiled-coil containing protein kinase 1 0.12081
IL22 interleukin 22 0.12072
PIKFYVE phosphoinositide kinase, FYVE finger containing 0.12063
CD55 CD55 molecule, decay accelerating factor for complement (Cromer blood group) 0.120569
ANTXR2 anthrax toxin receptor 2 0.120539