Brain tissue expression of CLDND1 in pons

PONS - Expression summary

Protein expressionⁱ

No data

RNA expressionⁱ

HPA Brain:	866.3	nTPM
FANTOM5:	838.4	Scaled Tags Per Million

Macaque:	376.7	nTPM
Mouse:	45.8	nTPM
Rat:	58.8	nTPM
Pig:	79.3	nTPM

PONS - SINGLE NUCLEI RNA EXPRESSIONⁱ RNA expression in the single nuclei cluster types identified in this brain region visualized by a UMAP plot (top) and a bar chart (to the right). - UMAP PLOT visualizes the cells in each cluster; where each dot corresponds to a cell. For each individual cell, mouseover reveals read count and which cluster the cell belongs to. Hovering over a cluster name will highlight the corresponding cluster in the bar chart two the right. There are 2 options for color schemes: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster. There are 3 options for cell intensities: 1) Intensity, which color the individual cells according to % of max (log2(read_count+1)/log2(max(read_count)+1)100) in five different bins (<1%,<25%,<50%,<75%,≥75%) 2) Interval, which color the individual cells according to fixed interval of read count (0,1,2-4,5-9,>10) 3) Hexagon, which color the hexagon on average read count of all cells inside the hexagon - The BAR CHART* shows RNA expression (nTPM) in each cluster type. Hovering over the cluster name reveals nTPM value and number of included cells. Hovering over a bar highlights the corresponding cluster in the UMAP plot above. Color-coding can be toggled on the top of the page, between 2 options: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster.

SINGLE NUCLEI BRAIN - PONS, NEURONSⁱ

Cell type color

Cluster color

Colored according to cell type group

Read count filter: 0

Cluster		Cell type
	c-1	Excitatory (VGLUT1/2)
	c-2	Excitatory (VGLUT1) ETV1+ Z...
	c-3	Excitatory (VGLUT1/2)
	c-4	Excitatory (VGLUT1) ETV1+ Z...
	c-5	Excitatory (VGLUT1/2)
	c-6	Excitatory (VGLUT1/2)
	c-7	Excitatory (VGLUT1/2)
	c-8	Inhibitory (GAD1/2) SLC6A5+
	c-9	Excitatory (VGLUT2)
	c-10	Excitatory (VGLUT1/2)
	c-11	Excitatory (VGLUT1/2)
	c-12	Unassigned
	c-13	Inhibitory (GAD1/2) RORB+ K
	c-14	Inhibitory (GAD1/2) SST+
	c-15	Excitatory (VGLUT1) ETV1+ Z...
	c-16	Excitatory (VGLUT2)
	c-17	Excitatory (VGLUT1/2)
	c-18	Inhibitory (GAD1/2)
	c-19	Inhibitory (GAD1) PENK+ SST
	c-20	Excitatory (VGLUT2) FOXP2+
	c-21	Excitatory (VGLUT2) LMX1A+
	c-22	Excitatory (VGLUT2) MEIS2+
	c-23	Inhibitory (GAD1/2) SLC6A5+...
	c-24	Inhibitory (GAD1/2) SLC6A5+...
	c-25	Serotonergic SLC6A4+ SLC18A...
	c-26	Inhibitory (GAD1/2) PVALB+ ...
	c-27	Excitatory (VGLUT2)
	c-28	(VGLUT3) PENK+
	c-29	MEIS2+
	c-30	LMX1A+
	c-31	Inhibitory (GAD1/2) TAC1+
	c-32	Excitatory (VGLUT2) PVALB+
	c-33	Inhibitory (GAD1/2) PVALB+ ...
	c-34	Inhibitory (GAD1/2)
	c-35	Excitatory (VGLUT2) SST+ ME...
	c-36	LC Noradrenergic SLC6A2+ SL...
	c-37	Excitatory (VGLUT2) CRH+ FO...
	c-38	Inhibitory (GAD1/2) PVALB+ ...
	c-39	Excitatory (VGLUT2)
	c-40	Excitatory (VGLUT2) PVALB+
Show allShow less

This data was generated by Siletti K et al. (2023), re-processed by HPA (see methods) and simplified for global overview

SINGLE NUCLEI BRAIN - PONS, NON-NEURONALⁱ

Cell type color

Cluster color

Colored according to cell type group

Read count filter: 0

Cluster		Cell type
	c-1	Oligodendrocytes
	c-2	Oligodendrocytes
	c-3	Oligodendrocyte progenitor ...
	c-4	Oligodendrocytes
	c-5	Oligodendrocytes
	c-6	Oligodendrocytes
	c-7	Microglia
	c-8	Astrocytes
	c-9	Oligodendrocytes
	c-10	Astrocytes (CD44+)
	c-11	Oligodendrocytes
	c-12	Fibroblasts
	c-13	Vascular endothelial cells
	c-14	Pericytes
	c-15	Ependymal cells
	c-16	Lymphocytes
	c-17	Macrophages
	c-18	Microglia (SPP1+ HIF1A+)
	c-19	Bergmann glia
	c-20	Immature oligodendrocytes
	c-21	Oligodendrocyte progenitor ...
	c-22	Vascular smooth muscle cell
	c-23	Monocytes
	c-24	Immature oligodendrocytes
	c-25	Fibroblasts (BNC2+ KCNMA1+ ...
	c-26	Choroid plexus epithelial c...
	c-27	Macrophage Microglia double
	c-28	OPC & lymphocytes doublets
Show allShow less

This data was generated by Siletti K et al. (2023), re-processed by HPA (see methods) and simplified for global overview

PONS - HPA Brain Stereo-seq

PONS - HPA Brain RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	866.3

Sample id

Sample description

nTPM

Anterior cochlear nucleus, ventral
nTPM: 807.5

2188	Female, age 91, both hemispheres	1009.5
2090	Male, age 80, both hemispheres	930.6
2301	Female, age 85, both hemispheres	862.1
1984	Male, age 76, both hemispheres	427.7

Dorsal cochlear nucleus
nTPM: 672.3

2187	Female, age 91, both hemispheres	808.5
2378	Male, age 80, both hemispheres	764.1
2370	Male, age 61, both hemispheres	610.6
2058	Male, age 76, both hemispheres	607.2
2802	Male, age 74, right hemisphere	571.3

Dorsal tegmental nucleus
nTPM: 570.3

2083	Male, age 80, both hemispheres	828.0
2326	Male, age 74, both hemispheres	622.6
1936	Male, age 76, left hemisphere	434.0
2358	Male, age 61, both hemispheres	396.6

Dorsolateral tegmental area
nTPM: 627.3

2751	Female, age 85, both hemispheres	967.7
2654	Male, age 80, both hemispheres	835.9
2337	Male, age 61, both hemispheres	608.9
2360	Male, age 74, both hemispheres	433.1
2141	Male, age 76, both hemispheres	291.0

Kolliker-Fuse nucleus
nTPM: 703.4

2793	Female, age 91, left hemisphere	999.2
2163	Male, age 80, both hemispheres	589.1
2315	Male, age 76, right hemisphere	522.1

Lateral lemniscal nuclei
nTPM: 634.0

2320	Female, age 91, left hemisphere	780.6
2746	Female, age 85, left hemisphere	679.6
2036	Male, age 80, both hemispheres	646.3
2169	Male, age 76, both hemispheres	553.2
2453	Male, age 74, right hemisphere	510.4

Lateral parabrachial nucleus
nTPM: 796.7

2792	Male, age 76, both hemispheres	1288.2
2013	Male, age 80, both hemispheres	803.8
2139	Female, age 85, right hemisphere	551.5
2790	Male, age 61, both hemispheres	543.4

Lateral vestibular nucleus
nTPM: 612.3

2311	Male, age 80, both hemispheres	721.1
2184	Male, age 76, both hemispheres	503.5

Locus coeruleus
nTPM: 339.2

2162	Male, age 80, both hemispheres	434.0
2720	Male, age 74, both hemispheres	396.3
2317	Female, age 72, unknown	368.3
2123	Female, age 91, both hemispheres	324.1
2788	Male, age 74, unknown	317.2
2014	Male, age 55, unknown	310.7
1980	Male, age 76, both hemispheres	223.9

Medial parabrachial nucleus
nTPM: 704.9

2170	Female, age 91, both hemispheres	934.7
2463	Female, age 85, right hemisphere	805.0
2854	Male, age 80, both hemispheres	719.6
2786	Male, age 76, both hemispheres	577.9
2156	Male, age 61, both hemispheres	487.3

Medial periolivary nuclei
nTPM: 657.8

2081	Male, age 80, both hemispheres	798.2
2791	Male, age 74, right hemisphere	733.9
2458	Female, age 91, both hemispheres	719.8
2063	Male, age 76, both hemispheres	647.8
2171	Female, age 85, both hemispheres	389.4

Motor facial nucleus
nTPM: 661.0

2126	Male, age 61, both hemispheres	843.0
2697	Female, age 85, both hemispheres	791.2
2365	Male, age 74, right hemisphere	747.3
2795	Female, age 91, both hemispheres	600.7
2062	Male, age 76, both hemispheres	502.4
2327	Male, age 80, both hemispheres	481.6

Motor trigeminal nucleus
nTPM: 595.1

2321	Female, age 91, both hemispheres	679.3
2560	Male, age 74, both hemispheres	667.1
2309	Male, age 76, both hemispheres	604.9
2079	Male, age 80, both hemispheres	522.1
2335	Male, age 61, both hemispheres	501.9

Nuclei of the trapezoid body
nTPM: 571.3

2368	Female, age 91, both hemispheres	697.5
2166	Male, age 80, both hemispheres	673.7
1983	Male, age 76, both hemispheres	570.5
2159	Male, age 61, both hemispheres	567.0
2735	Female, age 85, both hemispheres	347.7

Nucleus raphe magnus
nTPM: 548.4

2459	Female, age 91, both hemispheres	719.8
2051	Male, age 76, both hemispheres	697.6
2328	Male, age 80, both hemispheres	635.8
2455	Male, age 74, both hemispheres	561.6
2160	Male, age 61, both hemispheres	388.1
2172	Female, age 85, both hemispheres	287.3

Paramedian reticular nucleus
nTPM: 725.0

2052	Male, age 76, both hemispheres	858.9
2057	Male, age 80, both hemispheres	813.6
2050	Female, age 85, both hemispheres	634.0
2313	Male, age 61, both hemispheres	593.3

Pedunculopontine tegmental nucleus
nTPM: 554.6

2334	Male, age 80, both hemispheres	629.2
2338	Male, age 61, both hemispheres	547.6
1921	Female, age 85, both hemispheres	487.0

Pontine nuclei
nTPM: 693.4

2454	Male, age 74, left hemisphere	1044.9
2319	Female, age 91, both hemispheres	896.9
2109	Female, age 72, unknown	798.0
2115	Male, age 80, left hemisphere	651.2
1968	Male, age 76, left hemisphere	624.5
1863	Male, age 55, unknown	610.3
2727	Male, age 61, right hemisphere	548.2
2787	Female, age 85, both hemispheres	373.0

Pontine raphe nucleus
nTPM: 426.5

2853	Male, age 76, midline	431.7
2122	Female, age 85, midline	421.4

Posteroventral cochlear nucleus
nTPM: 866.3

2135	Female, age 91, both hemispheres	1174.7
2341	Male, age 80, both hemispheres	1066.1
2070	Male, age 76, both hemispheres	839.5
2371	Male, age 61, both hemispheres	746.2
2752	Female, age 85, both hemispheres	505.0

Principal sensory trigeminal nucleus
nTPM: 586.7

2367	Female, age 91, left hemisphere	932.9
2324	Male, age 76, both hemispheres	481.0
2008	Male, age 80, left hemisphere	467.0
2158	Male, age 61, both hemispheres	465.9

Reticular pontine nucleus, caudal
nTPM: 719.4

2457	Female, age 91, both hemispheres	838.7
2559	Male, age 74, both hemispheres	836.4
2092	Male, age 76, both hemispheres	791.0
2332	Male, age 80, right hemisphere	411.3

Reticular pontine nucleus, oral
nTPM: 826.8

2361	Male, age 74, both hemispheres	991.4
2366	Female, age 91, both hemispheres	938.8
1939	Male, age 80, both hemispheres	819.0
2167	Male, age 76, both hemispheres	710.9
2012	Female, age 85, both hemispheres	674.0

Reticulotegmental nucleus
nTPM: 511.5

2322	Female, age 91, both hemispheres	627.0
2333	Male, age 80, both hemispheres	561.3
2452	Male, age 74, both hemispheres	540.9
2325	Male, age 76, both hemispheres	316.8

Spinal trigeminal nucleus, oral
nTPM: 528.9

1978	Male, age 76, both hemispheres	582.9
2164	Male, age 80, both hemispheres	576.7
2737	Female, age 85, both hemispheres	427.0

Subcoeruleus area
nTPM: 634.0

2369	Female, age 85, left hemisphere	1138.9
1958	Male, age 80, both hemispheres	606.1
2089	Male, age 76, left hemisphere	535.0
2451	Male, age 74, both hemispheres	460.7
2323	Female, age 91, left hemisphere	429.3

Superior olive
nTPM: 728.2

2020	Male, age 76, both hemispheres	941.9
2364	Male, age 74, right hemisphere	837.1
2329	Male, age 80, right hemisphere	635.3
2561	Female, age 91, both hemispheres	625.1
1875	Female, age 85, both hemispheres	601.7

Ventral periolivary nuclei
nTPM: 638.2

2023	Male, age 76, both hemispheres	1061.1
2165	Male, age 80, both hemispheres	548.9
2794	Female, age 91, left hemisphere	487.1
2130	Female, age 85, both hemispheres	455.9

Ventrolateral tegmental area, A5 NE cell group
nTPM: 705.1

2456	Female, age 91, both hemispheres	806.0
1959	Male, age 76, both hemispheres	756.6
2840	Female, age 85, both hemispheres	725.1
2359	Male, age 61, both hemispheres	714.3
2161	Male, age 80, both hemispheres	656.5
2449	Male, age 74, both hemispheres	571.7

PONS - FANTOM5 CAGEⁱ

Max subtype Scaled Tags Per Millionⁱ Max subtype Scaled Tags Per Million is the value for the subtype with the largest average Scaled Tags Per Million across the subtype samples.	838.4

FANTOM5 sample id

Sample description

Scaled Tags Per Million

Locus coeruleus
Scaled Tags Per Million: 710.2

FF:10165-103B3	76 years, female	857.6
FF:10182-103D2	60 years, female	562.8

Pons
Scaled Tags Per Million: 838.4

FF:10033-101E6

18-54 years, mixed

838.4

PONS - Macaque RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	376.7

Macaque sample

Sample description

nTPM

Pons
nTPM: 376.7

Samples: 2

Max nTPM: 422.6
Min nTPM: 330.8

Sample A		422.6
Sample B		330.8

PONS - Pig RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	79.3

Pig sample

Sample description

nTPM

Pons
nTPM: 79.3

Samples: 3

Max nTPM: 91.6
Min nTPM: 66.9

Sample A	Female	66.9
Sample B	Female	79.4
Sample C	Male	91.6

PONS - Mouse RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	45.8

Mouse sample

Sample description

nTPM

Pons
nTPM: 45.8

Samples: 4

Max nTPM: 51.9
Min nTPM: 41.4

Sample A		51.9
Sample B		41.4
Sample C		45.4
Sample D		44.5

PONS - Rat RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	58.8

Rat sample

Sample description

nTPM

Pons
nTPM: 58.9

Samples: 4

Max nTPM: 60.9
Min nTPM: 55.5

Sample A		55.5
Sample A		58.4
Sample A		60.9
Sample A		60.6