Brain tissue expression of SCD in pons - The Human Protein Atlas

PONS - Expression summary

Protein expressionⁱ

No data

RNA expressionⁱ

HPA Brain:	1090.1	nTPM
FANTOM5:	467.7	Scaled Tags Per Million

Macaque:	311.5	nTPM
Mouse:	0.4	nTPM
Rat:	1952.7	nTPM
Pig:	276.2	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+
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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
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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.	1090.1

Sample id

Sample description

nTPM

Anterior cochlear nucleus, ventral
nTPM: 1075.5

2188	Female, age 91, both hemispheres	1387.2
2301	Female, age 85, both hemispheres	1328.5
2090	Male, age 80, both hemispheres	1027.9
1984	Male, age 76, both hemispheres	558.5

Dorsal cochlear nucleus
nTPM: 848.1

2187	Female, age 91, both hemispheres	1167.2
2378	Male, age 80, both hemispheres	866.5
2802	Male, age 74, right hemisphere	825.2
2058	Male, age 76, both hemispheres	707.2
2370	Male, age 61, both hemispheres	674.2

Dorsal tegmental nucleus
nTPM: 791.8

2083	Male, age 80, both hemispheres	1002.3
2326	Male, age 74, both hemispheres	842.6
1936	Male, age 76, left hemisphere	677.6
2358	Male, age 61, both hemispheres	644.6

Dorsolateral tegmental area
nTPM: 819.5

2751	Female, age 85, both hemispheres	1324.8
2654	Male, age 80, both hemispheres	970.5
2337	Male, age 61, both hemispheres	697.5
2360	Male, age 74, both hemispheres	595.9
2141	Male, age 76, both hemispheres	508.7

Kolliker-Fuse nucleus
nTPM: 954.0

2793	Female, age 91, left hemisphere	1305.1
2315	Male, age 76, right hemisphere	780.2
2163	Male, age 80, both hemispheres	776.7

Lateral lemniscal nuclei
nTPM: 823.9

2320	Female, age 91, left hemisphere	1106.5
2036	Male, age 80, both hemispheres	914.4
2169	Male, age 76, both hemispheres	784.9
2746	Female, age 85, left hemisphere	673.2
2453	Male, age 74, right hemisphere	640.7

Lateral parabrachial nucleus
nTPM: 1090.1

2792	Male, age 76, both hemispheres	1480.1
2790	Male, age 61, both hemispheres	1224.1
2013	Male, age 80, both hemispheres	903.3
2139	Female, age 85, right hemisphere	753.0

Lateral vestibular nucleus
nTPM: 885.8

2311	Male, age 80, both hemispheres	1041.8
2184	Male, age 76, both hemispheres	729.9

Locus coeruleus
nTPM: 677.5

2720	Male, age 74, both hemispheres	856.4
2317	Female, age 72, unknown	751.0
2162	Male, age 80, both hemispheres	742.1
2014	Male, age 55, unknown	731.2
2123	Female, age 91, both hemispheres	631.9
2788	Male, age 74, unknown	545.9
1980	Male, age 76, both hemispheres	483.8

Medial parabrachial nucleus
nTPM: 979.2

2170	Female, age 91, both hemispheres	1223.6
2463	Female, age 85, right hemisphere	1070.8
2156	Male, age 61, both hemispheres	909.2
2854	Male, age 80, both hemispheres	874.3
2786	Male, age 76, both hemispheres	818.3

Medial periolivary nuclei
nTPM: 784.4

2458	Female, age 91, both hemispheres	988.1
2081	Male, age 80, both hemispheres	852.7
2791	Male, age 74, right hemisphere	810.8
2063	Male, age 76, both hemispheres	794.0
2171	Female, age 85, both hemispheres	476.6

Motor facial nucleus
nTPM: 810.4

2795	Female, age 91, both hemispheres	947.7
2697	Female, age 85, both hemispheres	878.4
2126	Male, age 61, both hemispheres	847.6
2365	Male, age 74, right hemisphere	828.7
2327	Male, age 80, both hemispheres	682.7
2062	Male, age 76, both hemispheres	677.2

Motor trigeminal nucleus
nTPM: 760.7

2321	Female, age 91, both hemispheres	1005.7
2560	Male, age 74, both hemispheres	798.1
2309	Male, age 76, both hemispheres	720.1
2079	Male, age 80, both hemispheres	692.2
2335	Male, age 61, both hemispheres	587.1

Nuclei of the trapezoid body
nTPM: 764.1

2368	Female, age 91, both hemispheres	1038.2
2166	Male, age 80, both hemispheres	854.2
1983	Male, age 76, both hemispheres	747.2
2159	Male, age 61, both hemispheres	678.0
2735	Female, age 85, both hemispheres	503.2

Nucleus raphe magnus
nTPM: 677.2

2459	Female, age 91, both hemispheres	941.8
2328	Male, age 80, both hemispheres	790.9
2051	Male, age 76, both hemispheres	766.9
2455	Male, age 74, both hemispheres	688.6
2160	Male, age 61, both hemispheres	479.9
2172	Female, age 85, both hemispheres	395.4

Paramedian reticular nucleus
nTPM: 846.8

2052	Male, age 76, both hemispheres	916.3
2057	Male, age 80, both hemispheres	913.1
2050	Female, age 85, both hemispheres	781.1
2313	Male, age 61, both hemispheres	776.5

Pedunculopontine tegmental nucleus
nTPM: 774.7

2334	Male, age 80, both hemispheres	972.1
1921	Female, age 85, both hemispheres	713.6
2338	Male, age 61, both hemispheres	638.3

Pontine nuclei
nTPM: 834.4

2319	Female, age 91, both hemispheres	1102.4
2454	Male, age 74, left hemisphere	1065.8
2109	Female, age 72, unknown	1013.8
1863	Male, age 55, unknown	909.5
1968	Male, age 76, left hemisphere	848.6
2115	Male, age 80, left hemisphere	669.0
2727	Male, age 61, right hemisphere	551.4
2787	Female, age 85, both hemispheres	515.1

Pontine raphe nucleus
nTPM: 713.0

2853	Male, age 76, midline	729.2
2122	Female, age 85, midline	696.7

Posteroventral cochlear nucleus
nTPM: 1088.4

2135	Female, age 91, both hemispheres	1497.7
2341	Male, age 80, both hemispheres	1433.3
2070	Male, age 76, both hemispheres	947.0
2371	Male, age 61, both hemispheres	891.7
2752	Female, age 85, both hemispheres	672.3

Principal sensory trigeminal nucleus
nTPM: 757.6

2367	Female, age 91, left hemisphere	1091.0
2008	Male, age 80, left hemisphere	706.0
2324	Male, age 76, both hemispheres	698.9
2158	Male, age 61, both hemispheres	534.6

Reticular pontine nucleus, caudal
nTPM: 952.1

2457	Female, age 91, both hemispheres	1254.4
2092	Male, age 76, both hemispheres	971.8
2559	Male, age 74, both hemispheres	911.1
2332	Male, age 80, right hemisphere	671.3

Reticular pontine nucleus, oral
nTPM: 961.6

2366	Female, age 91, both hemispheres	1214.4
2361	Male, age 74, both hemispheres	935.1
1939	Male, age 80, both hemispheres	912.2
2012	Female, age 85, both hemispheres	904.5
2167	Male, age 76, both hemispheres	841.7

Reticulotegmental nucleus
nTPM: 747.6

2322	Female, age 91, both hemispheres	951.6
2333	Male, age 80, both hemispheres	772.6
2452	Male, age 74, both hemispheres	739.2
2325	Male, age 76, both hemispheres	527.0

Spinal trigeminal nucleus, oral
nTPM: 696.0

2164	Male, age 80, both hemispheres	748.3
1978	Male, age 76, both hemispheres	729.6
2737	Female, age 85, both hemispheres	609.9

Subcoeruleus area
nTPM: 882.8

2369	Female, age 85, left hemisphere	1510.0
2089	Male, age 76, left hemisphere	795.5
1958	Male, age 80, both hemispheres	784.4
2451	Male, age 74, both hemispheres	713.5
2323	Female, age 91, left hemisphere	610.4

Superior olive
nTPM: 871.2

2020	Male, age 76, both hemispheres	1085.6
2329	Male, age 80, right hemisphere	830.9
2561	Female, age 91, both hemispheres	829.1
2364	Male, age 74, right hemisphere	824.8
1875	Female, age 85, both hemispheres	785.6

Ventral periolivary nuclei
nTPM: 819.7

2023	Male, age 76, both hemispheres	1228.0
2794	Female, age 91, left hemisphere	754.3
2165	Male, age 80, both hemispheres	733.4
2130	Female, age 85, both hemispheres	563.1

Ventrolateral tegmental area, A5 NE cell group
nTPM: 844.0

2456	Female, age 91, both hemispheres	1076.8
1959	Male, age 76, both hemispheres	918.9
2359	Male, age 61, both hemispheres	874.6
2840	Female, age 85, both hemispheres	782.8
2161	Male, age 80, both hemispheres	748.0
2449	Male, age 74, both hemispheres	662.6

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.	467.7

FANTOM5 sample id

Sample description

Scaled Tags Per Million

Locus coeruleus
Scaled Tags Per Million: 467.7

FF:10182-103D2	60 years, female	584.2
FF:10165-103B3	76 years, female	351.2

Pons
Scaled Tags Per Million: 444.7

FF:10033-101E6

18-54 years, mixed

444.7

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.	311.5

Macaque sample

Sample description

nTPM

Pons
nTPM: 311.5

Samples: 2

Max nTPM: 366.5
Min nTPM: 256.4

Sample A		366.5
Sample B		256.4

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.	276.2

Pig sample

Sample description

nTPM

Pons
nTPM: 276.2

Samples: 3

Max nTPM: 332.0
Min nTPM: 225.6

Sample A	Female	225.6
Sample B	Female	271.0
Sample C	Male	332.0

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.	0.4

Mouse sample

Sample description

nTPM

Pons
nTPM: 594.0

Samples: 4

Max nTPM: 701.8
Min nTPM: 518.3

Sample A		701.8
Sample B		518.3
Sample C		597.1
Sample D		558.7

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.	1952.7

Rat sample

Sample description

nTPM

Pons
nTPM: 0.7

Samples: 4

Max nTPM: 0.9
Min nTPM: 0.6

Sample A		0.7
Sample A		0.7
Sample A		0.6
Sample A		0.9