pEpi39 program activity among Epithelial cells

Activation of pEpi39
pEpi39 gene program activation in Epithelial cells. (Top) Activation of program across all epithelial cells. (Bottom) Activation in MMRd (left), MMRp (middle), and normal epithelial cells (right).

Epithelial cell compositional overview

Overview of epithelial cell composition
Overview of epithelial cell composition. A tSNE plot colored by: (left) MMR status of epithelial cells, (middle) specimen, (righ) epithelial cell sub-type.
Gene program activation of pEpi39 by different cell subtypes
pEpi39 gene program activation among cells of different subtypes (Epithelial cells).

pEpi39 top program genes

Top genes of pEpi39 program
Bar plots showing the top genes for each gene program, ranked by (left) unique weights, (right) raw weights.

pEpi39 gene-set enrichment of top program genes (using g-profiler)

GSEA wth gene profiler of pEpi39
pEpi39 gene-set enrichment summary using g-profiler webtool.
Source termID Name Padj Tsize Qsize Overlap Precision Recall
GO:BP GO:0042119 neutrophil activation 0.00958895074859009 498 26 6 0.230769230769231 0.0120481927710843
GO:BP GO:0043312 neutrophil degranulation 0.00958895074859009 482 26 6 0.230769230769231 0.012448132780083
GO:BP GO:0055067 monovalent inorganic cation homeostasis 0.00958895074859009 165 9 3 0.333333333333333 0.0181818181818182
GO:BP GO:0055085 transmembrane transport 0.00958895074859009 1635 62 17 0.274193548387097 0.0103975535168196
GO:BP GO:0006814 sodium ion transport 0.00958895074859009 241 16 4 0.25 0.016597510373444
GO:BP GO:0002446 neutrophil mediated immunity 0.00958895074859009 497 26 6 0.230769230769231 0.0120724346076459
GO:BP GO:0002283 neutrophil activation involved in immune response 0.00958895074859009 485 26 6 0.230769230769231 0.0123711340206186
GO:BP GO:0036230 granulocyte activation 0.00958895074859009 504 26 6 0.230769230769231 0.0119047619047619
GO:BP GO:0030004 cellular monovalent inorganic cation homeostasis 0.00958895074859009 118 9 3 0.333333333333333 0.0254237288135593
GO:BP GO:0043299 leukocyte degranulation 0.0115054280889812 535 26 6 0.230769230769231 0.011214953271028
GO:BP GO:0002275 myeloid cell activation involved in immune response 0.0115054280889812 547 26 6 0.230769230769231 0.0109689213893967
GO:BP GO:0019934 cGMP-mediated signaling 0.0115054280889812 30 55 3 0.0545454545454545 0.1
GO:BP GO:0002444 myeloid leukocyte mediated immunity 0.0115054280889812 551 26 6 0.230769230769231 0.0108892921960073
GO:BP GO:0046903 secretion 0.0138873228834888 1501 43 12 0.27906976744186 0.00799467021985343
GO:BP GO:0042044 fluid transport 0.0144987094057245 33 57 3 0.0526315789473684 0.0909090909090909
GO:BP GO:0098660 inorganic ion transmembrane transport 0.015478320674355 883 62 11 0.17741935483871 0.0124575311438279
GO:BP GO:0034220 ion transmembrane transport 0.0165700309837303 1397 62 14 0.225806451612903 0.0100214745884037
GO:BP GO:0046717 acid secretion 0.0169126833046948 44 53 3 0.0566037735849057 0.0681818181818182
GO:BP GO:1900371 regulation of purine nucleotide biosynthetic process 0.0169126833046948 42 55 3 0.0545454545454545 0.0714285714285714
GO:BP GO:0140352 export from cell 0.0169126833046948 1418 42 11 0.261904761904762 0.0077574047954866
GO:BP GO:0030808 regulation of nucleotide biosynthetic process 0.0169126833046948 43 55 3 0.0545454545454545 0.0697674418604651
GO:BP GO:0006753 nucleoside phosphate metabolic process 0.0169126833046948 555 55 8 0.145454545454545 0.0144144144144144
GO:BP GO:0002274 myeloid leukocyte activation 0.0169126833046948 667 26 6 0.230769230769231 0.00899550224887556
GO:BP GO:0006810 transport 0.0171443618011935 5224 23 15 0.652173913043478 0.00287136294027565
GO:BP GO:0015711 organic anion transport 0.0173147385741605 386 62 7 0.112903225806452 0.0181347150259067
GO:BP GO:0071320 cellular response to cAMP 0.0198565117130813 54 49 3 0.0612244897959184 0.0555555555555556
GO:BP GO:0051234 establishment of localization 0.0198565117130813 5372 23 15 0.652173913043478 0.00279225614296351
GO:BP GO:0046942 carboxylic acid transport 0.0198565117130813 294 62 6 0.0967741935483871 0.0204081632653061
GO:BP GO:0044283 small molecule biosynthetic process 0.0198565117130813 704 60 9 0.15 0.0127840909090909
GO:BP GO:0002263 cell activation involved in immune response 0.0198565117130813 721 26 6 0.230769230769231 0.00832177531206657
GO:BP GO:0006140 regulation of nucleotide metabolic process 0.0198565117130813 121 55 4 0.0727272727272727 0.0330578512396694
GO:BP GO:0002366 leukocyte activation involved in immune response 0.0198565117130813 717 26 6 0.230769230769231 0.00836820083682008
GO:BP GO:0055086 nucleobase-containing small molecule metabolic process 0.0217776485075122 629 55 8 0.145454545454545 0.0127186009538951
GO:BP GO:0072348 sulfur compound transport 0.0228513331140071 49 62 3 0.0483870967741935 0.0612244897959184
GO:BP GO:0045055 regulated exocytosis 0.0252421679473487 785 26 6 0.230769230769231 0.00764331210191083
GO:BP GO:0007586 digestion 0.0259295749612671 141 24 3 0.125 0.0212765957446809
GO:BP GO:0048878 chemical homeostasis 0.0259295749612671 1229 62 12 0.193548387096774 0.00976403580146461
GO:BP GO:0032940 secretion by cell 0.0262288098855842 1364 42 10 0.238095238095238 0.00733137829912024
GO:BP GO:0007588 excretion 0.0262998930331408 62 57 3 0.0526315789473684 0.0483870967741935
GO:BP GO:0019637 organophosphate metabolic process 0.0264038532936142 1041 55 10 0.181818181818182 0.00960614793467819
GO:BP GO:0071384 cellular response to corticosteroid stimulus 0.0264038532936142 63 57 3 0.0526315789473684 0.0476190476190476
GO:BP GO:0009117 nucleotide metabolic process 0.0291481621930052 544 55 7 0.127272727272727 0.0128676470588235
GO:BP GO:0002443 leukocyte mediated immunity 0.0291481621930052 877 26 6 0.230769230769231 0.00684150513112885
GO:BP GO:0044281 small molecule metabolic process 0.0320474208247043 1921 61 15 0.245901639344262 0.00780843310775638
GO:BP GO:0006887 exocytosis 0.0325278757044107 904 26 6 0.230769230769231 0.00663716814159292
GO:BP GO:0006094 gluconeogenesis 0.0366722049567999 89 49 3 0.0612244897959184 0.0337078651685393
GO:BP GO:1901135 carbohydrate derivative metabolic process 0.0369108822340014 1145 54 10 0.185185185185185 0.00873362445414847
GO:BP GO:0019319 hexose biosynthetic process 0.0388654386370033 92 49 3 0.0612244897959184 0.0326086956521739
GO:BP GO:0035725 sodium ion transmembrane transport 0.0390070461849034 171 57 4 0.0701754385964912 0.0233918128654971
GO:BP GO:0098656 anion transmembrane transport 0.0390070461849034 550 9 3 0.333333333333333 0.00545454545454545
GO:BP GO:0006812 cation transport 0.0402382865679923 1197 62 11 0.17741935483871 0.00918964076858814
GO:BP GO:0098739 import across plasma membrane 0.0402382865679923 163 62 4 0.0645161290322581 0.0245398773006135
GO:BP GO:0046364 monosaccharide biosynthetic process 0.0402382865679923 98 49 3 0.0612244897959184 0.0306122448979592
GO:BP GO:0042592 homeostatic process 0.0402382865679923 1981 62 15 0.241935483870968 0.00757193336698637
GO:BP GO:0006163 purine nucleotide metabolic process 0.0402382865679923 450 55 6 0.109090909090909 0.0133333333333333
GO:BP GO:0034404 nucleobase-containing small molecule biosynthetic process 0.0402382865679923 117 40 3 0.075 0.0256410256410256
GO:BP GO:0051591 response to cAMP 0.0402382865679923 97 49 3 0.0612244897959184 0.0309278350515464
GO:BP GO:0040008 regulation of growth 0.0410507004271381 681 16 4 0.25 0.00587371512481645
GO:BP GO:0019935 cyclic-nucleotide-mediated signaling 0.0478667443119151 95 55 3 0.0545454545454545 0.0315789473684211
GO:BP GO:0072521 purine-containing compound metabolic process 0.0478667443119151 473 55 6 0.109090909090909 0.0126849894291755
GO:CC GO:0005903 brush border 8.7168247667313e-10 107 66 10 0.151515151515152 0.0934579439252336
GO:CC GO:0098862 cluster of actin-based cell projections 1.13571629083621e-09 162 66 11 0.166666666666667 0.0679012345679012
GO:CC GO:0098590 plasma membrane region 6.92647440103461e-09 1240 66 22 0.333333333333333 0.017741935483871
GO:CC GO:0070062 extracellular exosome 6.06788497490168e-08 2176 66 27 0.409090909090909 0.0124080882352941
GO:CC GO:0043230 extracellular organelle 8.91371634505565e-08 2263 66 27 0.409090909090909 0.0119310649580203
GO:CC GO:0045177 apical part of cell 8.91371634505565e-08 431 66 13 0.196969696969697 0.0301624129930394
GO:CC GO:1903561 extracellular vesicle 8.91371634505565e-08 2261 66 27 0.409090909090909 0.0119416187527643
GO:CC GO:0016324 apical plasma membrane 1.16487923002838e-07 361 66 12 0.181818181818182 0.0332409972299169
GO:CC GO:0031526 brush border membrane 6.99158416309257e-07 59 58 6 0.103448275862069 0.101694915254237
GO:CC GO:0005576 extracellular region 2.03243544329938e-06 4567 63 35 0.555555555555556 0.0076636741843661
GO:CC GO:0005615 extracellular space 1.31685586572962e-05 3594 62 29 0.467741935483871 0.00806900389538119
GO:CC GO:0005775 vacuolar lumen 2.93242608508108e-05 174 61 7 0.114754098360656 0.0402298850574713
GO:CC GO:0005886 plasma membrane 3.81048588688483e-05 5681 63 37 0.587301587301587 0.00651293786305228
GO:CC GO:0031982 vesicle 3.89461699808489e-05 4055 62 30 0.483870967741935 0.00739827373612824
GO:CC GO:0071944 cell periphery 8.91501139663866e-05 6169 63 38 0.603174603174603 0.00615983141514022
GO:CC GO:0043202 lysosomal lumen 0.000235928564053436 97 61 5 0.0819672131147541 0.0515463917525773
GO:CC GO:0031253 cell projection membrane 0.00025523928168352 343 63 8 0.126984126984127 0.0233236151603499
GO:CC GO:0005773 vacuole 0.000280269860326247 810 66 12 0.181818181818182 0.0148148148148148
GO:CC GO:0000323 lytic vacuole 0.00034691068979452 712 66 11 0.166666666666667 0.0154494382022472
GO:CC GO:0034774 secretory granule lumen 0.00034691068979452 320 22 5 0.227272727272727 0.015625
GO:CC GO:0031983 vesicle lumen 0.00034691068979452 326 22 5 0.227272727272727 0.0153374233128834
GO:CC GO:0060205 cytoplasmic vesicle lumen 0.00034691068979452 324 22 5 0.227272727272727 0.0154320987654321
GO:CC GO:0005764 lysosome 0.00034691068979452 712 66 11 0.166666666666667 0.0154494382022472
GO:CC GO:0031224 intrinsic component of membrane 0.000620368087786851 5868 59 33 0.559322033898305 0.00562372188139059
GO:CC GO:0030141 secretory granule 0.00112164176442581 851 26 7 0.269230769230769 0.0082256169212691
GO:CC GO:0035578 azurophil granule lumen 0.00149433095085233 91 22 3 0.136363636363636 0.032967032967033
GO:CC GO:0031226 intrinsic component of plasma membrane 0.00204294465630871 1726 66 16 0.242424242424242 0.00926998841251448
GO:CC GO:0016021 integral component of membrane 0.00235014388584679 5711 59 31 0.525423728813559 0.00542812116967256
GO:CC GO:0099503 secretory vesicle 0.00296170894407366 1020 26 7 0.269230769230769 0.00686274509803922
GO:CC GO:0009897 external side of plasma membrane 0.00396710356415167 408 66 7 0.106060606060606 0.017156862745098
GO:CC GO:0005766 primary lysosome 0.00505762417714412 154 22 3 0.136363636363636 0.0194805194805195
GO:CC GO:0042582 azurophil granule 0.00505762417714412 154 22 3 0.136363636363636 0.0194805194805195
GO:CC GO:0016020 membrane 0.00812590065289355 9838 63 45 0.714285714285714 0.00457410042691604
GO:CC GO:0098552 side of membrane 0.00814433536219504 619 66 8 0.121212121212121 0.012924071082391
GO:CC GO:0005887 integral component of plasma membrane 0.00814433536219504 1645 66 14 0.212121212121212 0.00851063829787234
GO:CC GO:0005774 vacuolar membrane 0.00920343138283608 441 37 5 0.135135135135135 0.0113378684807256
GO:CC GO:0098852 lytic vacuole membrane 0.0139976550988619 383 29 4 0.137931034482759 0.010443864229765
GO:CC GO:0005765 lysosomal membrane 0.0139976550988619 383 29 4 0.137931034482759 0.010443864229765
GO:CC GO:0098857 membrane microdomain 0.0149478164424773 335 17 3 0.176470588235294 0.00895522388059702
GO:CC GO:0097708 intracellular vesicle 0.0149478164424773 2428 66 17 0.257575757575758 0.00700164744645799
GO:CC GO:0045121 membrane raft 0.0149478164424773 335 17 3 0.176470588235294 0.00895522388059702
GO:CC GO:0031410 cytoplasmic vesicle 0.0149478164424773 2424 66 17 0.257575757575758 0.00701320132013201
GO:CC GO:0009986 cell surface 0.0171094502443646 899 66 9 0.136363636363636 0.0100111234705228
GO:CC GO:0070820 tertiary granule 0.0197401493347913 163 39 3 0.0769230769230769 0.0184049079754601
GO:CC GO:0098588 bounding membrane of organelle 0.0378572982700732 2158 39 10 0.256410256410256 0.0046339202965709
GO:CC GO:0012505 endomembrane system 0.0434133774903803 4640 41 17 0.414634146341463 0.00366379310344828
GO:CC GO:0120025 plasma membrane bounded cell projection 0.046359741557348 2229 63 14 0.222222222222222 0.00628084342754599
GO:MF GO:0015318 inorganic molecular entity transmembrane transporter activity 0.000159617839462966 831 62 14 0.225806451612903 0.0168471720818291
GO:MF GO:0005215 transporter activity 0.00103090022348205 1185 62 15 0.241935483870968 0.0126582278481013
GO:MF GO:0022857 transmembrane transporter activity 0.00109200129366637 1075 62 14 0.225806451612903 0.0130232558139535
GO:MF GO:0015075 ion transmembrane transporter activity 0.00115141275881719 956 62 13 0.209677419354839 0.0135983263598326
GO:MF GO:0008509 anion transmembrane transporter activity 0.00158303465670911 464 62 9 0.145161290322581 0.0193965517241379
GO:MF GO:0022853 active ion transmembrane transporter activity 0.0046408901927855 213 62 6 0.0967741935483871 0.028169014084507
GO:MF GO:0015081 sodium ion transmembrane transporter activity 0.00661271070018871 151 62 5 0.0806451612903226 0.033112582781457
GO:MF GO:0005342 organic acid transmembrane transporter activity 0.00661271070018871 154 62 5 0.0806451612903226 0.0324675324675325
GO:MF GO:0046943 carboxylic acid transmembrane transporter activity 0.00661271070018871 153 62 5 0.0806451612903226 0.0326797385620915
GO:MF GO:0022804 active transmembrane transporter activity 0.0104121769619573 312 9 3 0.333333333333333 0.00961538461538462
GO:MF GO:1901682 sulfur compound transmembrane transporter activity 0.0119633618285192 47 62 3 0.0483870967741935 0.0638297872340425
GO:MF GO:0046873 metal ion transmembrane transporter activity 0.0127735558211383 435 62 7 0.112903225806452 0.0160919540229885
GO:MF GO:0022890 inorganic cation transmembrane transporter activity 0.0130379613897717 591 62 8 0.129032258064516 0.0135363790186125
GO:MF GO:0015291 secondary active transmembrane transporter activity 0.0152187515273762 237 62 5 0.0806451612903226 0.0210970464135021
GO:MF GO:0008324 cation transmembrane transporter activity 0.015450727281682 639 62 8 0.129032258064516 0.0125195618153365
GO:MF GO:0008028 monocarboxylic acid transmembrane transporter activity 0.0167773256229036 69 62 3 0.0483870967741935 0.0434782608695652
GO:MF GO:0008233 peptidase activity 0.0174837393333381 646 26 5 0.192307692307692 0.00773993808049536
GO:MF GO:0005319 lipid transporter activity 0.0210788095424704 167 62 4 0.0645161290322581 0.0239520958083832
GO:MF GO:0015294 solute:cation symporter activity 0.0290809521810088 99 62 3 0.0483870967741935 0.0303030303030303
GO:MF GO:0008237 metallopeptidase activity 0.0290809521810088 188 66 4 0.0606060606060606 0.0212765957446809
GO:MF GO:0008238 exopeptidase activity 0.0294947410435374 95 66 3 0.0454545454545455 0.0315789473684211
GO:MF GO:0003824 catalytic activity 0.0339872232381761 5896 22 13 0.590909090909091 0.00220488466757123
GO:MF GO:0016787 hydrolase activity 0.0339872232381761 2615 26 9 0.346153846153846 0.00344168260038241
GO:MF GO:0015293 symporter activity 0.0413410848005563 143 62 3 0.0483870967741935 0.020979020979021
GO:MF GO:0022803 passive transmembrane transporter activity 0.0487310321621145 485 58 5 0.0862068965517241 0.0103092783505155
GO:MF GO:0015267 channel activity 0.0487310321621145 484 58 5 0.0862068965517241 0.0103305785123967
KEGG KEGG:04964 Proximal tubule bicarbonate reclamation 0.000113771050186139 23 9 3 0.333333333333333 0.130434782608696
KEGG KEGG:04974 Protein digestion and absorption 0.000433452692307783 103 62 7 0.112903225806452 0.0679611650485437
KEGG KEGG:04978 Mineral absorption 0.00068214361168887 59 9 3 0.333333333333333 0.0508474576271186
KEGG KEGG:04972 Pancreatic secretion 0.00177456461093385 102 8 3 0.375 0.0294117647058824
KEGG KEGG:04976 Bile secretion 0.0039862215528272 90 53 5 0.0943396226415094 0.0555555555555556
KEGG KEGG:04614 Renin-angiotensin system 0.00928239204448307 23 66 3 0.0454545454545455 0.130434782608696
KEGG KEGG:04960 Aldosterone-regulated sodium reabsorption 0.0211526568141675 37 57 3 0.0526315789473684 0.0810810810810811
REAC REAC:R-HSA-382551 Transport of small molecules 0.0100066394764377 718 62 14 0.225806451612903 0.0194986072423398
REAC REAC:R-HSA-2022377 Metabolism of Angiotensinogen to Angiotensins 0.0125746745377137 18 66 3 0.0454545454545455 0.166666666666667
REAC REAC:R-HSA-425393 Transport of inorganic cations/anions and amino acids/oligopeptides 0.0193680534171331 105 62 5 0.0806451612903226 0.0476190476190476
REAC REAC:R-HSA-6798695 Neutrophil degranulation 0.0300206413063548 474 26 6 0.230769230769231 0.0126582278481013
REAC REAC:R-HSA-983712 Ion channel transport 0.0466577964062534 182 16 3 0.1875 0.0164835164835165
REAC REAC:R-HSA-2672351 Stimuli-sensing channels 0.0466577964062534 105 58 4 0.0689655172413793 0.0380952380952381

pEpi39 transcription factor target enrichment of top program genes

TF enrichment of pEpi39
Possible regulators of activation of pEpi39 in epithelial cells. (Left) pearson correlation of TF expression and gene expression program activatity in Epithelial cells, (right) negative log p-value for enrichment of TF binding sites among top uniqueness weighted genes for the gene program. Blue bars indicate significant TFs meeting the following criteria: FDR<0.1, overlap > 2, Corr. R > 0, permutation based p-value < 0.05.