Thymocytes are T cell precursors which develop in the thymus. The processes of beta-selection, positive selection and negative selection shape thymocytes into a peripheral pool of T cells that are able to respond to foreign pathogens and are immunologically tolerant towards self antigens.
Thymocytes are classified into a number of distinct maturational stages based on the expression of cell surface markers. The earliest thymocyte stage is the double negative stage (negative for both CD4 and CD8), which more recently has been better described as Lineage-negative, and which can be divided into four substages. The next major stage is the double positive stage (positive for both CD4 and CD8). The final stage in maturation is the single positive stage (positive for either CD4 or CD8).
3F10
recognized an antigen expressed both on 
				thymocytes and non-lymphoid cells in the thymus.
				
				PMID: 10929055
20 alpha SDH
can be used as an enzymatic marker to 
				distinguish between subpopulations of activated T cells, which 
				have not been previously detected by the conventional surface 
				markers.
				
				PMID: 3501744
CD1
a family of thymocyte differentiation 
				antigens which consist of heavy chains with mol. wts between 43 
				and 49 kd binding to beta 2 microglobulin.
				
				PMID: 2583117
immature (CD4+8+ double-positive) cortical 
				thymocytes are the source of CD1 presentation for positive 
				selection of NK1+ T cells.
				
				PMID: 7500054
CD1+ thymocytes, under appropriate 
				stimulations, display some of the functional capabilities of 
				mature T cells.
				
				PMID: 1696526
represents a family of MHC-related molecules, 
				was analyzed on various human immature and mature thymocyte 
				subpopulations.
				
				PMID: 2467935
the CD1 surface marker delineates human 
				thymocyte precursors and their products which lack, or possess, 
				functional potential in vitro, on both alpha beta and gamma 
				delta lineages.
				
				PMID: 2484962
CD1 gene family encodes at least three 
				proteins: CD1a, CD1b, and CD1c, which are coexpressed on 
				cortical thymocytes and a number of T cell leukemias.
				
				PMID: 2701945
a family of at least three components, CD1a, 
				CD1b, and CD1c, that are characteristic of the cortical stage of 
				thymocyte maturation.
				
				PMID: 2447586
expressed on cortical thymocytes as well as 
				on some lymphoid neoplasias.
				
				PMID: 3093894
CD1a
expressed at high levels on mature (CD4+8-3+ 
				and CD4-8+3+) human thymocytes, is therefore a useful marker of 
				post-selection, post-thymic T-cell maturation.
				
				PMID: 7688345
CD2
a thymocyte marker.
				
				PMID: 8629279
CD4
Expressed on thymocyte subpopulations.
				
				PMID: 2783435
play a decisive role in the differentiation 
				of thymocytes.
				
				PMID: 2525172
T cell surface 
				glycoprotein.
				
				PMID: 7904343
CD5
a phenotype characteristic of immature CD4-8+ 
				thymocytes.
				
				PMID: 1840416
CD8
Expressed on thymocyte subpopulations.
				
				PMID: 2783435
Murine T cell surface antigen.
				
				PMID: 1799373
expression on the surface of developing 
				thymocytes is essential for the positive selection and 
				maturation of CD8 single positive T cells.
				
				PMID: 8757613
CD25
a 
				marker for CD4+ thymocytes that prevent autoimmune diabetes in 
				rats, but peripheral T cells with this function are found in 
				both CD25+ and CD25- subpopulations. 
				
				PMID: 10975823
CD26
may play a role in thymic differentiation and 
				maturation via the differential engagement of the CD3 pathway.
				
				PMID: 1717577
also known as dipeptidyl peptidase IV (DPP 
				IV) is a transmembrane 110- to 120-kDa serine aminopeptidase 
				glycoprotein with multiple functions, including cellular 
				trafficking through extracellular matrix, and costimulatory 
				potential during T cell activation, and is an influence upon T 
				cell differentiation during their maturation in the thymus.
				
				PMID: 9714693
ontogenically controlled during T cell 
				maturation and may play a role in thymic deletion of emerging 
				clones.
				
				PMID: 8900475
CD45RA
				detected in all thymocyte subsets defined by CD4 and CD8 by 
				using three-colour flow cytometry. 
				
				PMID: 2279733
CD53
a 
				thymocyte selection marker whose induction requires a lower 
				affinity TCR-MHC interaction than CD69, but is up-regulated with 
				slower kinetics. 
				
				PMID: 11867561
CD69
transiently expressed on activated mature T 
				cells and on thymocytes that are undergoing positive or negative 
				selection in the thymus.
				
				PMID: 12039905
				discriminates MHC-dependent and -independent stages of thymocyte 
				positive selection. 
				
				PMID: 10201918
CD71 
a marker of immature, proliferating T cells.
				
				PMID: 7994765
CD150
detected in T cells and in most thymocyte 
				subsets, except CD4-8- cells. Surprisingly, the CD4-8- 
				thymocytes of CD3gammadeltanull mice, but not of Ragnull or 
				severe combined immunodeficiency mice, expressed CD150.
				
				PMID: 11486275
CTX (cortical thymocyte-specific antigen of 
			Xenopus)
a recently discovered T cell antigen whose 
				expression is restricted to Xenopus cortical thymocytes, can 
				serve as a differentiation surface marker of a population of 
				immature thymocytes that appears to be the equivalent of the 
				mammalian CD4/CD8 double-positive subset.
				
				PMID: 10323202
a novel developmentally regulated type-I 
				transmembrane protein is expressed specifically by a large 
				fraction of cortical thymocytes in the amphibian Xenopus.
				
				PMID: 8625968
cortical thymocyte marker of Xenopus.
				
				PMID: 15330258,
				
				PMID: 15199966
a surface antigen whose expression in larval 
				and adult Xenopus is primarily restricted to MHC class 
				I-negative immature cortical thymocytes.
				
				PMID: 11246072
a cortical thymocyte marker in Xenopus, is an 
				immunoglobulin superfamily (Igsf) member comprising one variable 
				and one constant C2-type Igsf domain, a transmembrane segment 
				and a cytoplasmic tail.
				
				PMID: 9862345
a developmentally regulated type I 
				transmembrane protein of the immunoglobulin superfamily which, 
				in the amphibian Xenopus, is exclusively expressed by a large 
				fraction of cortical thymocytes and by different cell lines 
				derived from independent spontaneous thymic tumors.
				
				PMID: 9281372
a new Xenopus Ig superfamily molecule present on some cortical thymocytes and lymphoid tumor cells. PMID: 9188846
GIX 
The GIX antigen expressed on the thymocytes 
				of GIX+ mice is a type-specific constituent of glycoprotein 
				gp70, which forms the major envelope component of murine 
				leukemia virus.
				
				PMID: 182895
found on the thymocytes of some (GIX+) 
				strains of mice, where its expression is controlled by two 
				mendelian genes, Gv-1 and Gv-2.
				
				PMID: 180539
Granzymes
The data suggest that (a) granzyme B is a 
				pro-thymocyte marker for all T/NK lineage cells; (b) granzyme A 
				transcripts are associated with thymocytes with the potential to 
				develop into the CD8+ lineage; and (c) granzyme A enzymatic 
				activity is only expressed in the most mature CD4-CD8+ stage, 
				suggesting that granzyme proteins are not involved in early 
				stages of thymocyte development.
				
				PMID: 7836927
H-2
synthesis, initially most rapid in the mature 
				cells, continued to be made at the highest rate in this 
				thymocyte population.
				
				PMID: 7218802
H-2D
expressed brightly on all subcapsular large 
				cells, dimly on cortical small cells, and brightly on all 
				migrants, cortisone-resistant thymocytes (CRT), and peripheral T 
				cells.
				
				PMID: 6154739
HBA-71
a 
				new differentiation marker of human thymocytes. 
				
				PMID: 2606935
recognizes a Ewing's sarcoma associated 
				antigen, which is also highly expressed on the cell surface of 
				human cortical thymocytes and islets of Langerhans among normal 
				tissues.
				
				PMID: 1656551
In immunohistochemical staining the HBA-71 reacted with the cell surface of human cortical thymocytes. PMID: 2606935
ICT-1 antigen (thymocyte differentiation antigen)
expressed in 50-70% of total thymocytes, but 
				not in resting or PHA-activated peripheral blood T-cells and 
				bone marrow cells.
				
				PMID: 7545548
IL-7
a critical component of thymopoiesis in 
				animals and has recently been shown to play an important role in 
				T cell homeostasis.
				
				PMID: 12847229
Immature thymocyte antigen-1 (IMT-1)
a 
				novel thymocyte marker discriminating pre- and post-selected 
				thymocytes. 
				
				PMID: 9701033
expressed on not only immature thymocytes of 
				alpha beta T-cell lineage but also on those of gamma delta 
				T-cell lineage.
				
				PMID: 10233677
expressed during the late double negative 
				(DN) stage as well as the early double positive (DP) stage of 
				thymocyte maturation and suggest the possible involvement of 
				IMT-1 in thymocyte differentiation.
				
				PMID: 7608536
J11d (heat-stable 
			antigen)
marks immaturity in thymocyte differentiation 
				pathways.
				
				PMID: 8078424
immature thymocyte marker.
				
				PMID: 1533011
found in structurally heterogeneous forms on 
				the surfaces of many types of murine hemopoietic cells. The 
				extinction of expression of these antigens is associated with 
				thymocyte maturation and Ig class switching in B cells, as well 
				as terminal differentiation of macrophages.
				
				PMID: 2118158
JL1
a 120 kDa cell surface glycoprotein, is a 
				unique protein specifically expressed by immature double 
				positive (DP) human thymocytes which are in the process of 
				positive and negative selections through the interaction between 
				thymocyte and antigen-presenting cells (APCs).
				
				PMID: 10672935
LFA-1 (lymphocyte function associated antigen-1) 
			beta
the beta-chain for 
				LFA-1 is encoded on human chromosome 21, suggesting that trisomy 
				21 thymocytes may overexpress this adhesion molecule.
				
				PMID: 8099939
an accessory molecule important in T-cell 
				activation, is involved in thymocyte-epithelial cell binding, 
				and contributes to the maturation of CD4-CD8- thymocytes to the 
				CD4+CD8+ stage.
				
				PMID: 7927501
Ly-1/Ly-2
Ly-1 plays a critical 
				role in thymocyte proliferation, perhaps by serving as an IL 
				1-receptor.
				
				PMID: 3876939
Ly-2/3
The major labeled thymocyte membrane protein 
				consisting of disulfide-bonded subunits was identified as the 
				Ly-2/3 antigen.
				
				PMID: 6270681
Ly-24 and Ly6C
Use of the markers Ly-24, Ly6C, and 6B2 
				allows a subdivision of such progenitor thymocytes.
				
				PMID: 3257224
M241
produced which binds to a human cell surface 
				molecule with properties similar to the murine thymus leukemia 
				(TL) antigen. This human TL-like antigen was found on thymocytes 
				and some T cell lines derived from patients with acute 
				lymphocytic leukemia, but was not found on peripheral blood 
				lymphocytes or B cell lines.
				
				PMID: 6754387
MRC OX-2
a membrane glycoprotein of about 45,000 Mr 
				present on rat neurons, thymocytes, B cells, follicular 
				dendritic cells, endothelium and smooth muscle.
				
				PMID: 2880589
recognises antigens present on rat thymocytes, 
				brain, follicular dendritic cells in lymphoid organs, vascular 
				endothelium, some smooth muscle and B-lymphocytes.
				
				PMID: 6129975
Peanut agglutinin (PNA) receptor
can 
				be use to identify thymocyte subpopulations in the mouse. 
				
				PMID: 6988508
Sca-1/Sca-2 (stem cell antigen)
Both Sca-1 and Sca-2 were expressed on a 
				sub-population of CD4-CD8- thymocytes, and this subpopulation 
				was entirely contained within the Ly-1lo progenitor fraction of 
				cells. Sca-1 expression by a phenotypically mature subset of 
				CD4+CD8- thymocytes was also noted. Conversely, Sca-2 expression 
				was observed on a phenotypically immature or nonmature 
				subpopulation of CD4-CD8- thymocytes. Thus, expression of Sca-1 
				is observed throughout T cell ontogeny, whereas Sca-2 is 
				expressed by some subsets of thymocytes, including at least one 
				half of thymic blasts, but not by mature peripheral T 
				lymphocytes.
				
				PMID: 2460547
T3 (OKT 3)
mature thymocyte 
				marker.
				
				PMID: 3102134,
				
				PMID: 3092215
T6 (OKT 6)
immature thymocyte 
				marker.
				
				PMID: 2970972,
				
				PMID: 3102134,
				
				PMID: 3092215
can be detected on human cortical thymocytes 
				and on dendritic cells in the skin by monoclonal antibodies.
				
				PMID: 3084948
The human beta 2-microglobulin 
				(beta-2m)-associated human thymocyte differentiation antigen.
				
				PMID: 6190941
the human homologue of the murine thymus 
				leukemia antigen (TL).
				
				PMID: 7033376,
				
				PMID: 7013988
TAP (T 
			cell-activating protein)
expressed on a small subset (10 to 20%) of 
				thymocytes which is distinct from its expression on a majority 
				(70%) of peripheral T lymphocytes.
				
				PMID: 2426356
THAM (thymocyte-activating molecule)
				highly expressed on CD4-CD8- murine thymocytes. 
				
				PMID: 2461984
Thy-1
distribution at the surface of isolated mouse 
				thymocyte microdomains.
				
				PMID: 9284329
				triggers mouse thymocyte apoptosis through a bcl-2-resistant 
				mechanism. 
				
				PMID: 7906706
the thymocyte Thy-1 would physiologically 
				mediate cell-to-cell interactions among special subsets of 
				lymphocytes under thymic influence.
				
				PMID: 6141204
Thy-1.1
a 
				marker for thymocyte maturation in transgenic mice. 
				
				PMID: 1348881
Thy-2
a minor cell-surface component which is 
				present on the majority of thymocytes.
				
				PMID: 7009417
Thymic 
			shared antigen-1 (TSA-1)
a 
				novel thymocyte marker discriminating immature from mature 
				thymocyte subsets. 
				
				PMID: 1531995
expression level is the highest in most 
				immature CD4- CD8- thymocytes, high in CD4+ CD8+ thymocytes, but 
				barely detectable in mature CD4+ CD8- or CD4- CD8- thymocytes 
				and peripheral T cells.
				
				PMID: 8642345
a novel mouse thymocyte marker, may play a 
				role during positive selection and the transition from CD4+CD8+ 
				thymocytes to the mature CD4+CD8- and CD4-CD8+ subsets.
				
				PMID: 8258699
TL antigens (thymus leukaemia antigens)
observed in the DP thymocytes of SCID-bg mice 
				but not in their CD4-CD8- double negative (DN) fraction.
				
				PMID: 9429895
encoded in the T region by T3 and T18 genes, 
				is expressed primarily by intestinal epithelial cells and 
				thymocytes.
				
				PMID: 7741975
class I glycoproteins which are expressed on 
				thymocytes and which are coded by the Tla region of the major 
				histocompatibility complex of the mouse.
				
				PMID: 2427440
TL3
expressed on 70 to 80% of subcapsular and 
				cortical thymocytes, 30 to 40% of CRT, is undetectable on 
				migrants but can be seen at low levels on 10 to 20% of spleen 
				and lymph node T cells.
				
				PMID: 6154739
Other Thymocyte Markers
				
				Thymocyte subpopulations: an experimental review, including flow 
				cytometric cross-correlations between the major murine thymocyte 
				markers (Peanut agglutinin (PNA) receptor, Thy 1, H-2, 
				TL, Ly 1 and Ly 2).
				
				
				PMID: 6362104
The topographical relationships of Thy-1, 
				Ly-1, Ly-2, and T200 were examined on the murine thymocyte.
				
				PMID: 6131095
T1, 4, 5, 6, and 8, was 
				expressed by a majority of thymocytes irrespective of the age of 
				the fetal donor.
				
				PMID: 6607929