Selected genes up- or down-regulated (≥ 4-fold; q < .005) in primary HRS cells over B-NHLs
| Gene classes and specific genes . | Fold change . | Description . |
|---|---|---|
| Apoptosis | ||
| BIK (BCL2-interacting killer) | 13.4 ↓ | BH3-only proapoptotic molecule |
| HRK (harakiri, BCL2 interacting protein ) | 4.3 ↓ | BH3-only proapoptotic molecule |
| PACAP/MGC29506 (proapoptotic caspase adaptor protein) | 10.6 ↓ | Proapoptotic molecule binding to caspase-2 and -9 |
| CYFIP2 (cytoplasmic FMR1 interacting protein 2) | 4.5 ↓ | p53-target gene inducing caspase-activation and apoptosis |
| Oncogenic signaling pathways | ||
| RASAL1 (RAS protein activator-like 1) | 10.8 ↓ | Inhibits RAS by enhancing its GTPase activity; tumor suppressor methylated in various cancers |
| DOK3 (docking protein 3) | 6.9 ↓ | Inhibits RAS by sequestering the adaptor GRB2 away from SOS (a guanine-exchange factor of RAS) |
| BTG2 (BTG family, member 2) | 4.6 ↓ | p53 target inhibiting cell cycle progression and suppressing RAS-induced transformation |
| INPP5D (inositol polyphosphate-5-phosphatase) | 4.2 ↓ | Inhibits AKT by dephosphorylating PI3P; tumor suppressor in hematologic neoplasms |
| RHEBL1 (Ras homolog enriched in brain-like 1) | 4.1 ↑ | Activates mTOR signaling and enhances NF-κB transcriptional activity |
| NLRP4 (NLR family, pyrin domain containing 4) | 9.5 ↓ | Suppresses NF-κB induction by a variety of stimuli |
| AIM2 (absent in melanoma 2) | 4 ↓ | Tumor suppressor and inhibitor of NF-κB induction |
| Interaction with the extracellular matrix | ||
| MMP12 (matrix metallopeptidase 12) | 17 ↑ | Important for tissue remodeling in various inflammatory and neoplastic disorders |
| LAYN (layilin) | 12.8 ↑ | Cell surface receptor of hyaluronan |
| CTTN (cortactin) | 5.8 ↑ | Crucial component of invadopodia in cancer cells |
| Others | ||
| ODZ2 (odz, odd Oz/ten-m homolog 2) | 33.2 ↑ | Transcriptional regulator translocated to the IgH locus in MALT lymphomas |
| IER3 (immediate early response 3) | 6 ↑ | Can potentiate ERK activation, and acquire an antiapoptotic function on phosphorylation by ERK |
| STAG3 (stromal antigen 3) | 6.2 ↓ | Component of the cohesin complex important for chromosomal stability |
| CENPV (centromere protein V) | 5.4 ↓ | Required for centromere organization, chromosome alignment, and cytokinesis |
| TUBB2B (tubulin, β 2B) | 15.3 ↑ | Tubulin heterodimers containing the tubulin β-2 isoform are the most sensitive to vinblastin |
| TUBB2A (tubulin, β 2A) | 5.2 ↑ | Tubulin heterodimers containing the tubulin β-2 isoform are the most sensitive to vinblastin |
| DNASE1L3 (deoxyribonuclease I-like 3) | 4.2 ↑ | Endonuclease sensitizing cancer cells to the topoisomerase II inhibitor etoposide |
| Gene classes and specific genes . | Fold change . | Description . |
|---|---|---|
| Apoptosis | ||
| BIK (BCL2-interacting killer) | 13.4 ↓ | BH3-only proapoptotic molecule |
| HRK (harakiri, BCL2 interacting protein ) | 4.3 ↓ | BH3-only proapoptotic molecule |
| PACAP/MGC29506 (proapoptotic caspase adaptor protein) | 10.6 ↓ | Proapoptotic molecule binding to caspase-2 and -9 |
| CYFIP2 (cytoplasmic FMR1 interacting protein 2) | 4.5 ↓ | p53-target gene inducing caspase-activation and apoptosis |
| Oncogenic signaling pathways | ||
| RASAL1 (RAS protein activator-like 1) | 10.8 ↓ | Inhibits RAS by enhancing its GTPase activity; tumor suppressor methylated in various cancers |
| DOK3 (docking protein 3) | 6.9 ↓ | Inhibits RAS by sequestering the adaptor GRB2 away from SOS (a guanine-exchange factor of RAS) |
| BTG2 (BTG family, member 2) | 4.6 ↓ | p53 target inhibiting cell cycle progression and suppressing RAS-induced transformation |
| INPP5D (inositol polyphosphate-5-phosphatase) | 4.2 ↓ | Inhibits AKT by dephosphorylating PI3P; tumor suppressor in hematologic neoplasms |
| RHEBL1 (Ras homolog enriched in brain-like 1) | 4.1 ↑ | Activates mTOR signaling and enhances NF-κB transcriptional activity |
| NLRP4 (NLR family, pyrin domain containing 4) | 9.5 ↓ | Suppresses NF-κB induction by a variety of stimuli |
| AIM2 (absent in melanoma 2) | 4 ↓ | Tumor suppressor and inhibitor of NF-κB induction |
| Interaction with the extracellular matrix | ||
| MMP12 (matrix metallopeptidase 12) | 17 ↑ | Important for tissue remodeling in various inflammatory and neoplastic disorders |
| LAYN (layilin) | 12.8 ↑ | Cell surface receptor of hyaluronan |
| CTTN (cortactin) | 5.8 ↑ | Crucial component of invadopodia in cancer cells |
| Others | ||
| ODZ2 (odz, odd Oz/ten-m homolog 2) | 33.2 ↑ | Transcriptional regulator translocated to the IgH locus in MALT lymphomas |
| IER3 (immediate early response 3) | 6 ↑ | Can potentiate ERK activation, and acquire an antiapoptotic function on phosphorylation by ERK |
| STAG3 (stromal antigen 3) | 6.2 ↓ | Component of the cohesin complex important for chromosomal stability |
| CENPV (centromere protein V) | 5.4 ↓ | Required for centromere organization, chromosome alignment, and cytokinesis |
| TUBB2B (tubulin, β 2B) | 15.3 ↑ | Tubulin heterodimers containing the tubulin β-2 isoform are the most sensitive to vinblastin |
| TUBB2A (tubulin, β 2A) | 5.2 ↑ | Tubulin heterodimers containing the tubulin β-2 isoform are the most sensitive to vinblastin |
| DNASE1L3 (deoxyribonuclease I-like 3) | 4.2 ↑ | Endonuclease sensitizing cancer cells to the topoisomerase II inhibitor etoposide |