| BARX2 | | BARX homeobox 2 | CAB033311
| | | 7 out of 66 cell types | |
| BATF | B-ATF BATF1 SFA-2 | basic leucine zipper transcription factor, ATF-like | | | | | |
| BATF2 | MGC20410 | basic leucine zipper transcription factor, ATF-like 2 | | | | | |
| BATF3 | JDP1 JUNDM1 SNFT | basic leucine zipper transcription factor, ATF-like 3 | | | | | |
| BAZ1A | ACF1 hACF1 WALp1 WCRF180 | bromodomain adjacent to zinc finger domain, 1A | HPA002730
| | | 52 out of 65 cell types | Endoplasmic reticulum |
| BAZ2A | KIAA0314 TIP5 WALp3 | bromodomain adjacent to zinc finger domain, 2A | HPA005782
| | | 22 out of 65 cell types | |
| BAZ2B | WALp4 | bromodomain adjacent to zinc finger domain, 2B | HPA019819
| | | 53 out of 65 cell types | |
| BCL11A | BCL11A-L BCL11A-S BCL11A-XL CTIP1 EVI9 HBFQTL5 ZNF856 | B-cell CLL/lymphoma 11A (zinc finger protein) | CAB014891
| | | 62 out of 64 cell types | |
| BCL11B | CTIP-2 CTIP2 hRIT1-alpha ZNF856B | B-cell CLL/lymphoma 11B (zinc finger protein) | | | | | |
| BCL6 | BCL5 BCL6A LAZ3 ZBTB27 ZNF51 | B-cell CLL/lymphoma 6 | CAB000307 HPA004899
|
| Reliability Medium | 14 out of 65 cell types | Nucleus but not nucleoli |
| BCL6B | BAZF ZBTB28 ZNF62 | B-cell CLL/lymphoma 6, member B | | | | | |
| BDP1 | HSA238520 KIAA1241 KIAA1689 TAF3B1 TFC5 TFIIIB150 TFIIIB90 TFNR | B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB | | | | | |
| BHLHA15 | bHLHa15 BHLHB8 MIST1 | basic helix-loop-helix family, member a15 | | | | | |
| BHLHA9 | bHLHa9 BHLHF42 | basic helix-loop-helix family, member a9 | | | | | |
| BHLHE22 | Beta3 BHLHB5 bHLHe22 CAGL85 TNRC20 | basic helix-loop-helix family, member e22 | | | | | |
| BHLHE23 | bA305P22.3 Beta4 BHLHB4 bHLHe23 | basic helix-loop-helix family, member e23 | HPA030575
| | | 56 out of 65 cell types | Nucleus |
| BHLHE40 | BHLHB2 bHLHe40 DEC1 STRA13 | basic helix-loop-helix family, member e40 | HPA028921
| | | 52 out of 62 cell types | Nucleus Golgi apparatus Nucleoli |
| BHLHE41 | BHLHB3 bHLHe41 DEC2 SHARP-1 SHARP1 | basic helix-loop-helix family, member e41 | | | | | |
| BLOC1S1 | BLOS1 GCN5L1 | biogenesis of lysosomal organelles complex-1, subunit 1 | HPA021381
| | | 52 out of 65 cell types | |
| BNC1 | BNC HsT19447 | basonuclin 1 | | | | | |
| BNC2 | BSN2 FLJ20043 | basonuclin 2 | HPA018525
| | | 35 out of 65 cell types | Nucleus Cytoplasm Plasma membrane |
| BPTF | FAC1 FALZ NURF301 | bromodomain PHD finger transcription factor | HPA029069
| | | 32 out of 65 cell types | Nucleus but not nucleoli |
| BSX | BSX1 | brain-specific homeobox | HPA015654
| | | 63 out of 64 cell types | Nucleus |
| C11orf9 | Ndt80 | chromosome 11 open reading frame 9 | HPA018310
| | | 40 out of 66 cell types | Nucleus but not nucleoli Cytoplasm Golgi apparatus |
| CAMTA1 | KIAA0833 | calmodulin binding transcription activator 1 | HPA036343
| | | 41 out of 65 cell types | Cytoplasm Nucleus |
| CAMTA2 | KIAA0909 | calmodulin binding transcription activator 2 | | | | | |
| CARHSP1 | CRHSP-24 CSDC1 | calcium regulated heat stable protein 1, 24kDa | | | | | |
| CDC5L | CDC5 CEF1 hCDC5 PCDC5RP | CDC5 cell division cycle 5-like (S. pombe) | HPA006302 HPA011361 CAB012275
|
| Reliability High | 66 out of 66 cell types | Nucleus |
| CDX1 | | caudal type homeobox 1 | | | | | |
| CDX2 | CDX3 | caudal type homeobox 2 | CAB002221
| | | 5 out of 65 cell types | |
| CDX4 | | caudal type homeobox 4 | | | | | |
| CEBPB | C/EBP-beta CRP2 IL6DBP LAP NFIL6 TCF5 | CCAAT/enhancer binding protein (C/EBP), beta | CAB004213
| | | 55 out of 64 cell types | |
| CEBPE | CRP1 | CCAAT/enhancer binding protein (C/EBP), epsilon | HPA002928 CAB005113
|
| Reliability High | 4 out of 66 cell types | Nucleus but not nucleoli |
| CEBPG | GPE1BP IG/EBP-1 | CCAAT/enhancer binding protein (C/EBP), gamma | HPA012024
| | | 41 out of 65 cell types | Nucleus but not nucleoli |
| CERS2 | FLJ10243 LASS2 SP260 | ceramide synthase 2 | HPA027262
| | | 52 out of 66 cell types | Nuclear membrane Endoplasmic reticulum |
| CERS3 | LASS3 MGC27091 | ceramide synthase 3 | HPA006092 HPA024356
|
| Reliability Very low | 55 out of 64 cell types | Nucleus but not nucleoli Cytoplasm |
| CERS4 | FLJ12089 LASS4 Trh1 | ceramide synthase 4 | CAB033734
| | | 49 out of 64 cell types | |
| CERS5 | FLJ25304 LASS5 MGC45411 Trh4 | ceramide synthase 5 | HPA026589
| | | 52 out of 63 cell types | Nucleoli Nucleus |
| CERS6 | LASS6 | ceramide synthase 6 | HPA044683
| | | 37 out of 63 cell types | Nucleus Cytoplasm |
| CLOCK | bHLHe8 KAT13D KIAA0334 | clock homolog (mouse) | HPA001867 HPA027565
|
| Reliability High | 65 out of 65 cell types | Nucleus but not nucleoli Vesicles |
| CNOT1 | AD-005 CDC39 KIAA1007 NOT1 NOT1H | CCR4-NOT transcription complex, subunit 1 | | | | | |
| CREB1 | | cAMP responsive element binding protein 1 | CAB003803 HPA019150
|
| Reliability High | 66 out of 66 cell types | Nucleus but not nucleoli |
| CREB3 | Luman LZIP | cAMP responsive element binding protein 3 | | | | | |
| CREB3L1 | OASIS | cAMP responsive element binding protein 3-like 1 | HPA024069 CAB026151
|
| Reliability High | 51 out of 64 cell types | Cytoplasm Nucleus |
| CREB3L2 | BBF2H7 TCAG_1951439 | cAMP responsive element binding protein 3-like 2 | HPA015068
| | | 35 out of 65 cell types | Cytoskeleton (Microtubules) |
| CREB3L3 | CREB-H | cAMP responsive element binding protein 3-like 3 | | | | | |
| CREB3L4 | AIbZIP ATCE1 CREB3 CREB4 hJAL | cAMP responsive element binding protein 3-like 4 | HPA038122
| | | 52 out of 64 cell types | Nucleus but not nucleoli Nuclear membrane Mitochondria |
| CREB5 | CRE-BPA H_GS165L15.1 | cAMP responsive element binding protein 5 | | | | | |
| CREBBP | CBP KAT3A RSTS RTS | CREB binding protein | CAB004212
| | | 59 out of 63 cell types | |
| CREBL2 | | cAMP responsive element binding protein-like 2 | HPA043738
| | | 60 out of 65 cell types | Mitochondria Nucleus but not nucleoli Cytoplasm |