Tissue Summaries: renal medulla (TS22-TS28)

Tissue Summary: renal medulla (TS22-TS28)

About

renal medulla description

The adult kidney can be divided morphologically into two main parts: the cortex and the medulla. The medulla corresponds to the central or inner part of the kidney and can be further divided into the outer medulla, with outer and inner regions, and the inner medulla (or papilla).

View development tree
includes	loop of Henle
	medullary collecting duct
	renal medullary interstitium
	immature loop of Henle
	renal medullary vasculature

View renal medulla in GUDMAP Development Tutorials

In Situ Data

Validated Anchor/Marker Genes

Anchors (6)

Anchor genes are defined as genes whose expression is restricted to one temporospatial anatomical compartment. These have been selected by microarray analyses followed by validation using section in-situ hybridisation.

Gene Symbol	Gene MGI ID	Anchor Of	Stage	Also Marker of	GUDMAP ID	Reference
*AI836003*	MGI:2146066	medullary collecting duct (EMAP:28063)	TS23		GUDMAP:13573	Thiagarajan et al. (2011)
*Clmn*	MGI:2136957	medullary collecting duct (EMAP:28063)	TS23		GUDMAP:13648	Thiagarajan et al. (2011)
*Fam129a*	MGI:2137237	medullary collecting duct (EMAP:28063)	TS23		GUDMAP:11305	Thiagarajan et al. (2011)
*Gsdmc4*	MGI:1921798	medullary collecting duct (EMAP:28063)	TS23		GUDMAP:11309	Thiagarajan et al. (2011)
*Umod*	MGI:102674	immature loop of Henle (EMAP:30864)	TS23	renal proximal convoluted tubule (EMAP:29502) distal straight tubule (EMAP:29505) distal convoluted tubule (EMAP:29508) loop of Henle, inner medullary portion (EMAP:29583) thin ascending limb (EMAP:29585) loop of Henle (EMAP:29666) distal straight tubule (EMAP:29672) loop of Henle (EMAP:29680) premacula segment of distal straight tubule (EMAP:29684)	GUDMAP:9104	Thiagarajan et al. (2011)
*Upk3a*	MGI:98914	medullary collecting duct (EMAP:28063)	TS23	pelvic urothelial lining (EMAP:28079)	GUDMAP:9904	Thiagarajan et al. (2011)

Markers (20)

Marker genes are defined as genes which display a regional or enriched expression pattern and may be useful in identifying one or more particular temporospatial compartment(s). These have been selected by microarray analyses followed by validation using section in-situ hybridisation.

Gene Symbol	Gene MGI ID	Marker Of	Stage	Also Marker Of	GUDMAP ID	Reference
*0610005C13Rik*	MGI:1918911	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) renal proximal convoluted tubule (EMAP:29502) renal proximal straight tubule (EMAP:29662)	GUDMAP:13955	Thiagarajan et al. (2011)
*2310046K01Rik*	MGI:1916948	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005)	GUDMAP:10780	Thiagarajan et al. (2011)
*Aadac*	MGI:1915008	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:9034	Thiagarajan et al. (2011)
*Acaa1b*	MGI:3605455	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005) renal proximal convoluted tubule (EMAP:29502) segment 2 of proximal tubule (EMAP:29660)	GUDMAP:9040	Thiagarajan et al. (2011)
*Aldh1l1*	MGI:1340024	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) early distal tubule (EMAP:28009)	GUDMAP:13954	Thiagarajan et al. (2011)
*Ambp*	MGI:88002	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005)	GUDMAP:13579	Thiagarajan et al. (2011)
*Cgref1*	MGI:1915817	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005) renal proximal convoluted tubule (EMAP:29502) renal proximal straight tubule (EMAP:29662)	GUDMAP:9173	Thiagarajan et al. (2011)
*Cideb*	MGI:1270844	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:9166	Thiagarajan et al. (2011)
*Clic6*	MGI:2146607	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005)	GUDMAP:9149	Thiagarajan et al. (2011)
*Fbp2*	MGI:95491	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005)	GUDMAP:13581	Thiagarajan et al. (2011)
*Gpd1*	MGI:95679	immature loop of Henle (EMAP:30864)	TS23	capillary loop renal corpuscle (EMAP:27909) maturing renal corpuscle (EMAP:27945) cortical renal tubule (EMAP:27999) renal proximal convoluted tubule (EMAP:29502)	GUDMAP:9047	Thiagarajan et al. (2011)
*Gyk*	MGI:106594	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) early distal tubule (EMAP:28009) renal proximal convoluted tubule (EMAP:29502) renal proximal straight tubule (EMAP:29662)	GUDMAP:9155	Thiagarajan et al. (2011)
*Hdc*	MGI:96062	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005) renal proximal convoluted tubule (EMAP:29502)	GUDMAP:9164	Thiagarajan et al. (2011)
*Kcnj1*	MGI:1927248	immature loop of Henle (EMAP:30864)	TS23	early distal tubule (EMAP:28009)	GUDMAP:20762	Thiagarajan et al. (2011)
*Myo15b*	MGI:2685534	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:9038	Thiagarajan et al. (2011)
*Napsa*	MGI:109365	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) renal proximal straight tubule (EMAP:29662)	GUDMAP:10917	Thiagarajan et al. (2011)
*Pipox*	MGI:1197006	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:10786	Thiagarajan et al. (2011)
*Ppp1r3c*	MGI:1858229	medullary collecting duct (EMAP:28063)	TS23	cortical collecting duct (EMAP:28132)	GUDMAP:11318	Thiagarajan et al. (2011)
*Pter*	MGI:107372	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) renal proximal convoluted tubule (EMAP:29502) renal proximal straight tubule (EMAP:29662)	GUDMAP:8210	Thiagarajan et al. (2011)
*Serpina10*	MGI:2667725	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005)	GUDMAP:9131	Thiagarajan et al. (2011)
*Sigirr*	MGI:1344402	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) early distal tubule (EMAP:28009)	GUDMAP:10776	Thiagarajan et al. (2011)
*Slc23a1*	MGI:1341903	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) renal proximal straight tubule (EMAP:29662)	GUDMAP:9176	Thiagarajan et al. (2011)
*Slc6a13*	MGI:95629	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:9168	Thiagarajan et al. (2011)
*Susd2*	MGI:1918983	immature loop of Henle (EMAP:30864)	TS23	capillary loop renal corpuscle (EMAP:27909) maturing renal corpuscle (EMAP:27945) cortical renal tubule (EMAP:27999)	GUDMAP:9170	Thiagarajan et al. (2011)
*Susd3*	MGI:1913579	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:13582	Thiagarajan et al. (2011)
*Tmem72*	MGI:2442707	immature loop of Henle (EMAP:30864)	TS23	early distal tubule (EMAP:28009)	GUDMAP:20769	Thiagarajan et al. (2011)
*Ttc36*	MGI:2384760	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:13583 GUDMAP:13704	Thiagarajan et al. (2011)
*Ttr*	MGI:98865	immature loop of Henle (EMAP:30864)	TS23	early proximal tubule (EMAP:28005) renal proximal straight tubule (EMAP:29662)	GUDMAP:11016	Thiagarajan et al. (2011)
*Umod*	MGI:102674	loop of Henle (EMAP:29666) distal straight tubule (EMAP:29672) loop of Henle (EMAP:29680) premacula segment of distal straight tubule (EMAP:29684) loop of Henle, inner medullary portion (EMAP:29583) thin ascending limb (EMAP:29585)	TS28	renal proximal convoluted tubule (EMAP:29502) distal straight tubule (EMAP:29505) distal convoluted tubule (EMAP:29508) immature loop of Henle (EMAP:30864)	GUDMAP:10911:GUDMAP:10912	Thiagarajan et al. (2011)
*Unc5cl*	MGI:1923839	immature loop of Henle (EMAP:30864)	TS23	cortical renal tubule (EMAP:27999) early proximal tubule (EMAP:28005)	GUDMAP:13938	Thiagarajan et al. (2011)
*Upk1b*	MGI:98912	medullary collecting duct (EMAP:28063)	TS23		GUDMAP:13577	Thiagarajan et al. (2011)

Genelists

Published Genelists

Published genelists from Microarray Analysis. Click on the number of probes to go to heatmap view

List Name	Description	Entities	Genes	Submitted By	Refs
UQ Medullary Collecting Duct E15.5	Anchor genes specific to key renal compartments: Medullary Collecting Duct E15.5	16 probesets	15	Kylie Georgas, Rathi Thiagarajan	Thiagarajan et al. (2011)
Medullary Collecting Duct 15.5dpc	Brunskill et al.: Ureteric Tip Region 15.5dpc	411 probesets	303	Bruce Aronow, Eric Brunskill	Brunskill et al. (2008)
UQ Renal Medullary Interstitium E15.5	Anchor genes specific to key renal compartments: Renal Medullary Interstitium E15.5	49 probesets	49	Kylie Georgas, Rathi Thiagarajan	Thiagarajan et al. (2011)

Non-Published Genelists

Non-published genelists from Microarray Analysis. Click on the number of probes to go to heatmap view

List Name	Description	Entities	Genes	Submitted By	Refs
kidney_adult_RenalCapsule_100		100 probesets	100	Bruce Aronow
kidney_adult_RenalCapsule_1000		1000 probesets	848	Bruce Aronow
kidney_adult_RenalCapsule_200		200 probesets	196	Bruce Aronow
kidney_adult_RenalCapsule_500		500 probesets	450	Bruce Aronow
kidney_adult_RenalCapsule_k1_100		6 probesets	6	Bruce Aronow
kidney_adult_RenalCapsule_k1_1000		104 probesets	34	Bruce Aronow
kidney_adult_RenalCapsule_k1_200		36 probesets	35	Bruce Aronow
kidney_adult_RenalCapsule_k1_500		295 probesets	255	Bruce Aronow
kidney_adult_RenalCapsule_k2_100		14 probesets	14	Bruce Aronow
kidney_adult_RenalCapsule_k2_1000		447 probesets	391	Bruce Aronow
kidney_adult_RenalCapsule_k2_200		13 probesets	13	Bruce Aronow
kidney_adult_RenalCapsule_k2_500		33 probesets	31	Bruce Aronow
kidney_adult_RenalCapsule_k3_100		7 probesets	7	Bruce Aronow
kidney_adult_RenalCapsule_k3_1000		89 probesets	86	Bruce Aronow
kidney_adult_RenalCapsule_k3_200		117 probesets	116	Bruce Aronow
kidney_adult_RenalCapsule_k3_500		31 probesets	31	Bruce Aronow
kidney_adult_RenalCapsule_k4_100		6 probesets	6	Bruce Aronow
kidney_adult_RenalCapsule_k4_1000		160 probesets	149	Bruce Aronow
kidney_adult_RenalCapsule_k4_200		12 probesets	12	Bruce Aronow
kidney_adult_RenalCapsule_k4_500		84 probesets	80	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_100		100 probesets	97	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_1000		1000 probesets	920	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_200		200 probesets	195	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_500		500 probesets	458	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k1_100		27 probesets	26	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k1_1000		66 probesets	66	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k1_200		13 probesets	13	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k1_500		23 probesets	23	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k2_100		16 probesets	16	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k2_1000		352 probesets	333	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k2_200		9 probesets	9	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k2_500		188 probesets	184	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k3_100		6 probesets	6	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k3_1000		87 probesets	85	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k3_200		55 probesets	55	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k3_500		152 probesets	127	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k4_100		40 probesets	40	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k4_1000		270 probesets	237	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k4_200		47 probesets	44	Bruce Aronow
kidney_adult_RenMedVasc_Tie2_k4_500		27 probesets	27	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_100		100 probesets	88	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_1000		1000 probesets	841	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_200		200 probesets	175	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_500		500 probesets	424	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k1_100		14 probesets	12	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k1_1000		277 probesets	235	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k1_200		24 probesets	23	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k1_500		59 probesets	53	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k2_100		25 probesets	23	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k2_1000		123 probesets	108	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k2_200		38 probesets	34	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k2_500		113 probesets	99	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k3_100		8 probesets	8	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k3_1000		204 probesets	179	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k3_200		48 probesets	45	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k3_500		137 probesets	126	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k4_100		31 probesets	25	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k4_1000		307 probesets	280	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k4_200		8 probesets	7	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k4_500		29 probesets	27	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k5_100		22 probesets	22	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k5_1000		89 probesets	82	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k5_200		82 probesets	73	Bruce Aronow
DevelopingKidney_e15.5_Medullary collecting duct_emap-28063_k5_500		162 probesets	138	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_100		100 probesets	91	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_1000		1000 probesets	876	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_200		200 probesets	178	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_500		500 probesets	450	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k1_100		10 probesets	9	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k1_1000		152 probesets	137	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k1_200		103 probesets	90	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k1_500		45 probesets	40	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k2_100		18 probesets	17	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k2_1000		384 probesets	327	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k2_200		17 probesets	15	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k2_500		42 probesets	40	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k3_100		10 probesets	9	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k3_1000		115 probesets	106	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k3_200		46 probesets	45	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k3_500		128 probesets	123	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k4_100		10 probesets	8	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k4_1000		118 probesets	104	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k4_200		12 probesets	11	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k4_500		238 probesets	209	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k5_100		52 probesets	48	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k5_1000		231 probesets	215	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k5_200		22 probesets	19	Bruce Aronow
DevelopingKidney_e15.5_Pelvic Mesenchyme_emap-8241_k5_500		47 probesets	42	Bruce Aronow


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