Background
Results
IGFBP2 perturbation by shRNA alters gene expression profile in breast cancer cells
Probe | Gene symbol | Accession no. | LOG2 ratios IGFBP2 (shRNA/scrambled) | |
---|---|---|---|---|
C5 | C12 | |||
A_23_P70007 | HMMR | NM_012484 | −6.1994 | −6.3340 |
A_23_P115872 | CEP55 | NM_018131 | −5.5493 | −5.7555 |
A_23_P155815 | HCAP-G | NM_022346 | −5.9516 | −5.6434 |
A_23_P49878 | FAM64A | NM_019013 | −5.3231 | −5.5775 |
A_23_P401 | CENPF | NM_016343 | −5.6859 | −5.5456 |
A_24_P297539 | UBE2C | NM_181803 | −6.0374 | −5.5064 |
A_23_P52017 | ASPM | NM_018136 | −5.6626 | −5.4146 |
A_23_P118815 | BIRC5 | NM_001012271 | −5.7127 | −5.3579 |
A_23_P51085 | SPBC25 | NM_020675 | −5.3333 | −5.2314 |
A_32_P62997 | PBK | NM_018492 | −5.3592 | −5.1651 |
A_23_P379614 | OIP5 | NM_007280 | −5.4136 | −5.0805 |
A_23_P138507 | CDC2 | NM_001786 | −5.3918 | −4.9418 |
A_23_P74349 | CDCA1 | NM_145697 | −5.0628 | −4.7854 |
A_23_P375 | CDCA8 | NM_018101 | −4.9988 | −4.7055 |
A_23_P385861 | CDCA2 | NM_152562 | −4.8413 | −4.6523 |
A_23_P107421 | TK1 | NM_003258 | −5.1628 | −4.6138 |
A_23_P50108 | KNTC2 | NM_006101 | −4.5643 | −4.6060 |
A_23_P124417 | BUB1 | NM_004336 | −4.8189 | −4.5874 |
A_23_P88331 | DLG7 | NM_014750 | −4.8666 | −4.5641 |
A_23_P118834 | TOP2A | NM_001067 | −4.9585 | −4.5030 |
A_24_P234196 | RRM2 | NM_001034 | −4.6703 | −4.4466 |
A_23_P65757 | CCNB2 | NM_004701 | −4.6828 | −4.4265 |
A_23_P119943 | IGFBP2 | NM_000597 | −2.4765 | −4.4074 |
A_23_P88731 | RAD51 | NM_002875 | −4.9625 | −4.3833 |
A_23_P133123 | MND1 | NM_032117 | −4.6389 | −4.3051 |
A_23_P31407 | AGR2 | NM_006408 | 4.8060 | 4.2255 |
A_23_P106194 | FOS | NM_005252 | 2.1989 | 4.2063 |
A_23_P429998 | FOSB | NM_006732 | 1.5980 | 3.8822 |
A_23_P113952 | AY227436 | AY227436 | 3.4910 | 3.8165 |
A_23_P500000 | SCEL | NM_144777 | 3.6586 | 3.2728 |
A_23_P169437 | LCN2 | NM_005564 | 2.5385 | 3.2159 |
A_23_P380754 | PRSS1 | NM_002769 | 2.3278 | 3.1664 |
A_23_P29773 | LAMP3 | NM_014398 | 4.2963 | 3.1041 |
A_23_P5983 | PLTP | NM_006227 | 1.3270 | 2.8955 |
A_23_P310274 | PRSS2 | NM_002770 | 2.0382 | 2.8886 |
A_23_P71170 | TRPV6 | NM_018646 | 2.6719 | 2.7426 |
A_23_P98121 | FXYD4 | NM_173160 | 3.0264 | 2.6979 |
A_23_P88095 | TBC1D4 | NM_014832 | 0.9759 | 2.6576 |
A_32_P230828 | GAS5 | NR_002578 | 1.9990 | 2.6280 |
A_23_P369343 | KLK8 | NM_144505 | 2.0683 | 2.5972 |
A_23_P18684 | CLGN | NM_004362 | 2.4448 | 2.5689 |
A_32_P37592 | SCARNA17 | NR_003003 | 1.7724 | 2.5574 |
A_23_P22735 | BEX2 | NM_032621 | 3.3099 | 2.5138 |
A_24_P921446 | EMP1 | BC017854 | 1.1796 | 2.4896 |
A_23_P121926 | SEPP1 | NM_005410 | 2.7851 | 2.4722 |
A_23_P34915 | ATF3 | NM_004024 | 3.5213 | 2.4288 |
A_23_P105803 | FGF9 | NM_002010 | 0.9259 | 2.3751 |
A_24_P327886 | TCEA3 | NM_003196 | 2.1369 | 2.3522 |
A_23_P391344 | RASGEF1A | NM_145313 | 3.5570 | 2.3442 |
A_24_P18190 | HSPA5 | NM_005347 | 2.8335 | 2.3293 |
NAME | SIZE | NOM p-val | FDR q-val | FWER p-val |
---|---|---|---|---|
KEGG_CELL_CYCLE | 49 | 0 | 0 | 0 |
KEGG_DNA_REPLICATION | 28 | 0 | 0 | 0 |
KEGG_NUCLEOTIDE_EXCISION_REPAIR | 15 | 0 | 0 | 0 |
KEGG_MISMATCH_REPAIR | 15 | 0 | 0 | 0 |
KEGG_PATHOGENIC_ESCHERICHIA_COLI_INFECTION | 15 | 0 | 2.19E-04 | 0.001 |
KEGG_HOMOLOGOUS_RECOMBINATION | 15 | 0 | 1.83E-04 | 0.001 |
KEGG_PYRIMIDINE_METABOLISM | 21 | 0 | 1.56E-04 | 0.001 |
KEGG_OXIDATIVE_PHOSPHORYLATION | 19 | 0 | 0.00635 | 0.039 |
KEGG_PARKINSONS_DISEASE | 21 | 0 | 0.01229 | 0.082 |
KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION | 17 | 0.006186 | 0.013514 | 0.098 |
KEGG_SPLICEOSOME | 32 | 0.002012 | 0.01617 | 0.128 |
KEGG_OOCYTE_MEIOSIS | 30 | 0 | 0.02404 | 0.199 |
KEGG_P53_SIGNALING_PATHWAY | 26 | 0 | 0.027815 | 0.247 |
KEGG_HUNTINGTONS_DISEASE | 30 | 0.004098 | 0.032137 | 0.3 |
KEGG_WNT_SIGNALING_PATHWAY | 21 | 0.045726 | 0.138961 | 0.804 |
KEGG_PURINE_METABOLISM | 26 | 0.047431 | 0.150692 | 0.844 |
KEGG_GAP_JUNCTION | 17 | 0.15251 | 0.155502 | 0.877 |
KEGG_TGF_BETA_SIGNALING_PATHWAY | 15 | 0.393214 | 0.318836 | 0.995 |
KEGG_SMALL_CELL_LUNG_CANCER | 15 | 0.55144 | 0.400925 | 0.999 |
KEGG_REGULATION_OF_ACTIN_CYTOSKELETON | 25 | 0.517578 | 0.687552 | 1 |
KEGG_TIGHT_JUNCTION | 16 | 0.787018 | 0.687305 | 1 |
KEGG_PATHWAYS_IN_CANCER | 52 | 0.229814 | 0.731651 | 1 |
KEGG_ALZHEIMERS_DISEASE | 38 | 0.433663 | 0.706543 | 1 |
Differential expression of genes between tumors staining positive or negative for IGFBP2
Probe | Gene name | Accession no. | Fold change IGFBP2 +/ IGFBP2- |
---|---|---|---|
A_23_P161940 | SCGB2A2 | NM_002411 | 4.2566 |
A_23_P8702 | PIP | NM_002652 | 2.8894 |
A_24_P137501 | SFRP2 | NM_003013 | 2.4919 |
A_23_P312300 | SCGB2A1 | NM_002407 | 2.4797 |
A_24_P347431 | FOXA1 | NM_004496 | 2.4462 |
A_23_P372234 | CA12 | NM_001218 | 2.3044 |
A_23_P393099 | TFF3 | NM_003226 | 2.2590 |
A_23_P215328 | SFRP4 | NM_003014 | 2.2567 |
A_23_P213745 | CXCL14 | NM_004887 | 2.1824 |
A_23_P413641 | PREX1 | NM_020820 | 2.1719 |
A_23_P99063 | LUM | NM_002345 | 2.1563 |
A_23_P75056 | GATA3 | NM_001002295 | 2.0939 |
A_24_P322771 | TFF1 | NM_003225 | 2.0888 |
A_23_P119943 | IGFBP2 | NM_000597 | 2.0290 |
A_23_P161659 | SYT13 | NM_020826 | 1.9984 |
A_23_P329768 | GREB1 | NM_014668 | 1.9528 |
A_23_P105212 | THRSP | NM_003251 | 1.9163 |
A_23_P95594 | NAT1 | NM_000662 | 1.9107 |
A_24_P264943 | COMP | NM_000095 | 1.8625 |
A_23_P89431 | CCL2 | NM_002982 | 1.8472 |
A_32_P133072 | SPON1 | NM_006108 | 1.8374 |
A_23_P33196 | COL5A2 | NM_000393 | 1.8357 |
A_23_P2920 | SERPINA3 | NM_001085 | 1.8217 |
A_23_P22970 | PIK3R3 | NM_003629 | 1.7963 |
A_23_P165778 | MLPH | NM_024101 | 1.7915 |
A_32_P184464 | ROPN1 | NM_017578 | −3.5588 |
A_23_P328545 | GABRP | NM_014211 | −2.9846 |
A_23_P66137 | SOX8 | NM_014587 | −2.7293 |
A_24_P417407 | ROPN1B | NM_001012337 | −2.5309 |
A_23_P53176 | FOLR1 | NM_016725 | −2.3657 |
A_23_P56197 | CRLF1 | NM_004750 | −2.2530 |
A_23_P369343 | KLK8 | NM_144505 | −2.2248 |
A_24_P236251 | DLK1 | NM_003836 | −2.1531 |
A_23_P78248 | KRT23 | NM_015515 | −2.1320 |
A_23_P47484 | GLYATL2 | NM_145016 | −2.1208 |
A_23_P10127 | SFRP1 | NM_003012 | −2.0505 |
A_23_P40108 | COL9A3 | NM_001853 | −2.0500 |
A_23_P47616 | FOLH1 | NM_004476 | −1.8461 |
A_23_P50815 | TTYH1 | NM_020659 | −1.7817 |
A_23_P137173 | TMSL8 | NM_021992 | −1.7054 |
A_23_P110234 | CSN1S1 | NM_001890 | −1.6859 |
A_23_P216448 | NFIB | NM_005596 | −1.6243 |
A_23_P78980 | B3GNT3 | NM_014256 | −1.5946 |
A_24_P924484 | K03200 | K03200 | −1.5836 |
A_32_P157391 | PSMAL | NM_153696 | −1.4833 |
A_23_P110837 | IRX4 | NM_016358 | −1.4820 |
A_23_P43157 | MYBL1 | X66087 | −1.4800 |
A_23_P59960 | CRISPLD1 | NM_031461 | −1.4630 |
A_23_P422212 | SLC35F3 | NM_173508 | −1.4618 |
A_23_P37205 | NDRG2 | NM_201535 | −1.4531 |
NAME | SIZE | NOM p-val | FDR q-val | FWER p-val |
---|---|---|---|---|
KEGG_MAPK_SIGNALING_PATHWAY | 43 | 0 | 0 | 0 |
KEGG_LEISHMANIA_INFECTION | 20 | 0 | 0 | 0 |
KEGG_CYTOKINE_CYTOKINE_RECEPTOR_INTERACTION | 35 | 0 | 0.007717 | 0.013 |
KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS | 19 | 0.001976 | 0.006687 | 0.015 |
KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY | 19 | 0.00211 | 0.016915 | 0.045 |
KEGG_FOCAL_ADHESION | 30 | 0.007619 | 0.025984 | 0.084 |
KEGG_COMPLEMENT_AND_COAGULATION_CASCADES | 16 | 0.015968 | 0.023016 | 0.087 |
KEGG_ECM_RECEPTOR_INTERACTION | 15 | 0.002053 | 0.022288 | 0.096 |
KEGG_CHEMOKINE_SIGNALING_PATHWAY | 32 | 0.008403 | 0.020502 | 0.1 |
KEGG_APOPTOSIS | 20 | 0.008584 | 0.018452 | 0.1 |
KEGG_VIRAL_MYOCARDITIS | 17 | 0.005906 | 0.017723 | 0.105 |
KEGG_NATURAL_KILLER_CELL_MEDIATED_CYTOTOXICITY | 27 | 0.028902 | 0.037213 | 0.228 |
KEGG_GNRH_SIGNALING_PATHWAY | 19 | 0.044444 | 0.113272 | 0.563 |
KEGG_CELL_ADHESION_MOLECULES_CAMS | 26 | 0.095808 | 0.195608 | 0.805 |
KEGG_ALZHEIMERS_DISEASE | 24 | 0.087302 | 0.183226 | 0.805 |
KEGG_PATHWAYS_IN_CANCER | 48 | 0.098 | 0.185527 | 0.831 |
KEGG_AXON_GUIDANCE | 17 | 0.11553 | 0.176978 | 0.834 |
KEGG_NEUROACTIVE_LIGAND_RECEPTOR_INTERACTION | 24 | 0.136538 | 0.210733 | 0.893 |
KEGG_DILATED_CARDIOMYOPATHY | 15 | 0.165339 | 0.237117 | 0.925 |
KEGG_NEUROTROPHIN_SIGNALING_PATHWAY | 19 | 0.168932 | 0.240447 | 0.932 |
KEGG_MELANOGENESIS | 15 | 0.252033 | 0.367091 | 0.99 |
KEGG_LYSOSOME | 18 | 0.329389 | 0.436596 | 0.996 |
KEGG_CALCIUM_SIGNALING_PATHWAY | 19 | 0.367886 | 0.427407 | 0.996 |
KEGG_WNT_SIGNALING_PATHWAY | 24 | 0.361616 | 0.414545 | 0.996 |
KEGG_ENDOCYTOSIS | 20 | 0.365503 | 0.423908 | 0.998 |
KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION | 15 | 0.419958 | 0.454951 | 0.999 |
KEGG_HUNTINGTONS_DISEASE | 18 | 0.568465 | 0.60777 | 1 |
KEGG_REGULATION_OF_ACTIN_CYTOSKELETON | 29 | 0.74269 | 0.769736 | 1 |
KEGG_PURINE_METABOLISM | 20 | 0.933054 | 0.931545 | 1 |
Common genes differentially expressed in breast tumors and cell lines based on IGFBP2 expression
Probe | Gene symbol | Accession no. |
---|---|---|
A_23_P119943 | IGFBP2 | NM_000597 |
A_23_P118392 | RASD1 | NM_016084 |
A_23_P211631 | FBLN1 | NM_006486 |
A_23_P53126 | LMO2 | NM_005574 |
A_23_P22433 | RP2 | NM_006915 |
A_23_P252306 | ID1 | NM_002165 |
A_24_P119745 | FN1 | NM_212482 |
A_23_P70307 | SMOC2 | NM_022138 |
A_23_P170986 | TMCC1 | NM_001017395 |
A_32_P140139 | F13A1 | NM_000129 |
A_23_P204850 | RB1 | NM_000321 |
A_32_P216004 | KCTD9 | AF130091 |
A_23_P83939 | SYAP1 | NM_032796 |
A_23_P259438 | DCK | NM_000788 |
A_32_P28284 | TPM4 | NM_003290 |
A_23_P42257 | IER3 | NM_003897 |
A_32_P152348 | HIST1H2BD | BQ683489 |
A_32_P66881 | TLR4 | NM_138554 |
A_32_P89709 | TPM1 | NM_001018004 |
A_23_P380848 | TXNL5 | NM_032731 |
A_24_P106297 | AMACR | NM_014324 |
A_23_P401055 | SOX2 | NM_003106 |
A_23_P89799 | ACAA2 | NM_006111 |
A_23_P500799 | CASP6 | NM_001226 |
A_23_P134237 | RARRES2 | NM_002889 |
A_23_P113952 | AY227436 | AY227436 |
A_23_P88095 | TBC1D4 | NM_014832 |
A_23_P369343 | KLK8 | NM_144505 |
A_23_P371039 | NTSR1 | NM_002531 |
A_24_P844917 | AF222023 | AF222023 |
A_23_P90601 | STEAP3 | NM_182915 |
A_24_P57047 | DLL3 | NM_203486 |
A_23_P363426 | SRP46 | NM_032102 |
A_23_P204751 | ACCN2 | NM_020039 |
A_23_P11262 | F8A1 | NM_012151 |
A_23_P376591 | CLYBL | NM_206808 |
A_23_P80773 | SRPRB | NM_021203 |
A_23_P253221 | ARHGEF4 | NM_032995 |
A_24_P163237 | STOX2 | NM_020225 |
A_23_P8240 | FAM50B | NM_012135 |
A_23_P67529 | KCNN4 | NM_002250 |
A_24_P411186 | BCL11A | NM_022893 |
A_23_P358597 | POPDC3 | NM_022361 |
A_23_P78518 | CEACAM19 | AK128234 |
A_23_P91702 | EIF3S7 | NM_003753 |
A_23_P415558 | ZNF212 | NM_012256 |
A_24_P414269 | ALG3 | NM_005787 |
A_23_P130764 | KCNJ14 | NM_170720 |
A_24_P152635 | TXNDC14 | NM_015959 |
A_23_P82478 | PUS7 | NM_019042 |
β-catenin expression is regulated by IGFBP2 in breast cancer cells
IGFBP2 and β-catenin staining together correlates with the lymph node metastasis in human breast cancer
S. No.
|
Case No.
|
IGFBP2
|
β-catenin
|
Nodal status
|
---|---|---|---|---|
1
| 160 | + | + | + |
2
| 159 | + | + | - |
3
| 157 | + | + | - |
4
| 171 | + | + | + |
5
| 150 | + | - | + |
6
| 151 | - | + | + |
7
| 180 | + | + | - |
8
| 176 | + | + | + |
9
| 174 | + | + | + |
10
| 168 | + | + | + |
11
| 165 | + | + | + |
12
| 162 | + | + | - |
13
| 149 | + | + | + |
14
| 148 | + | + | + |
15
| 143 | + | + | + |
16
| 142 | + | + | + |
17
| 140 | + | + | + |
18
| 138 | + | + | - |
19
| 137 | + | + | - |
20
| 134 | + | + | + |
21
| 133 | + | + | - |
22
| 132 | + | + | - |
23
| 130 | + | + | + |
24
| 70 | + | + | + |
25
| 94 | - | - | - |
26
| 87 | + | + | + |
27
| 49 | + | + | + |
28
| 63 | + | + | + |
29
| 117 | + | + | + |
30
| 108 | - | + | + |
31
| 96 | - | - | - |
32
| 85 | - | + | - |
33
| 77 | - | - | + |
34
| 48 | - | + | + |
35
| 57 | - | + | + |
36
| 78 | - | + | + |
37
| 30 | - | - | - |
38
| 31 | - | - | - |