Brain tissue expression of RIMS2 in thalamus

THALAMUS - Expression summary

Mouse brain, Intensity
Thalamusⁱ

83.245

RNA expressionⁱ

HPA Brain:	75.0	nTPM
FANTOM5:	44.7	Scaled Tags Per Million

Macaque:	95.8	nTPM
Mouse:	93.2	nTPM
Rat:	62.0	nTPM
Pig:	137.6	nTPM

THALAMUS - 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 - THALAMUS, NEURONSⁱ

Cell type color

Cluster color

Colored according to cell type group

Read count filter: 0

Cluster		Cell type
	c-1	Unassigned
	c-2	Inhibitory (GAD1/2) RORB+ K
	c-3	Inhibitory (GAD1/2) RORB+ K
	c-4	Inhibitory (GAD1/2) RORB+ K
	c-5	Inhibitory (GAD1/2) RORB+ K
	c-6	Excitatory (VGLUT2) CALB2+
	c-7	Inhibitory (GAD1/2) RORB+ K
	c-8	Inhibitory (GAD1/2) RORB+ K
	c-9	Excitatory (VGLUT2) PVALB+ ...
	c-10	Inhibitory (GAD1/2) RORB+ K
	c-11	Inhibitory (GAD1/2) RORB+ K
	c-12	Posterior thalamic Excitato...
	c-13	Inhibitory (GAD1/2) RORB+ K...
	c-14	Excitatory (VGLUT2) PVALB+
	c-15	Posterior thalamic Excitato...
	c-16	Excitatory (VGLUT2) PVALB+ ...
	c-17	Inhibitory (GAD1/2) RORB+ K
	c-18	Excitatory (VGLUT2) PVALB+ ...
	c-19	Excitatory (VGLUT2)
	c-20	Excitatory (VGLUT2) PVALB+
	c-21	Inhibitory (GAD1/2) ESR1+ S...
	c-22	Excitatory (VGLUT2) PVALB+ ...
	c-23	Posterior thalamic Excitato...
	c-24	Inhibitory (GAD1/2) ESR1+
	c-25	Inhibitory (GAD1/2) CXCL14+...
	c-26	Inhibitory (GAD1/2) PENK+ L...
	c-27	Inhibitory (GAD1/2) RORB+ K
	c-28	Epithalamic Excitatory (VGL...
	c-29	Excitatory (VGLUT2)
	c-30	Excitatory (VGLUT2) PVALB+ ...
	c-31	Excitatory (VGLUT2)
	c-32	Excitatory (VGLUT2) PVALB+
	c-33	Inhibitory (GAD1/2) RORB+ K
	c-34	Excitatory (VGLUT2) PVALB+ ...
	c-35	Inhibitory (GAD1/2) SST+
	c-36	Cholinergic Excitatory (VGL...
	c-37	Excitatory (VGLUT2)
	c-38	Excitatory (VGLUT2)
	c-39	Excitatory (VGLUT2)
	c-40	Inhibitory (GAD1/2) CXCL14+...
	c-41	Inhibitory (GAD1/2) RXFP1+ ...
	c-42	Excitatory (VGLUT2)
	c-43	Excitatory (VGLUT2)
	c-44	Inhibitory (GAD1/2) ETV1+ T...
	c-45	Excitatory (VGLUT2) CALB2+
	c-46	Inhibitory (GAD1/2) RORB+ K
	c-47	Excitatory (VGLUT1)
	c-48	Inhibitory (GAD1/2) TAC1+
	c-49	Excitatory (VGLUT2) NOS1+
	c-50	Parvocellular CRH+ AVP+ OXT
	c-51	Excitatory (VGLUT1) ETV1+ Z...
	c-52	Unassigned
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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 - THALAMUS, 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	Oligodendrocytes
	c-4	Oligodendrocytes
	c-5	Oligodendrocytes
	c-6	Oligodendrocyte progenitor ...
	c-7	Oligodendrocytes
	c-8	Microglia
	c-9	Oligodendrocytes
	c-10	Astrocytes
	c-11	Astrocytes
	c-12	Astrocytes (CD44+)
	c-13	Oligodendrocytes
	c-14	Fibroblasts
	c-15	Oligodendrocytes
	c-16	Pericytes
	c-17	Vascular endothelial cells
	c-18	Ependymal cells
	c-19	Lymphocytes
	c-20	Astrocytes (GABRB1+ GABRA2+
	c-21	Vascular smooth muscle cell
	c-22	Macrophages
	c-23	Oligodendrocyte progenitor ...
	c-24	Fibroblasts (BNC2+)
	c-25	Monocytes
	c-26	Immature oligodendrocytes
	c-27	Choroid plexus epithelial c...
	c-28	Oligodendrocyte progenitor ...
	c-29	OPCs & Fibroblast doublets
	c-30	Leukocytes
	c-31	Oligodendrocyte progenitor ...
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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

THALAMUS - Mouse brain profileⁱ Protein expression in mouse brain using immunofluorescence is reported as fluorescence intensity. , antibody CAB079049
Thalamus mean intensity	83.245
	intensityⁱ Protein expression in mouse brain using immunofluorescence is reported as mean fluorescence intensity.	FRONT BACK
Medial geniculate nucleus	43.054
Parafascicular thalamic nucleus	26.943
Pregeniculate nucleus	69.354
Stria terminalis	65.310
Zona incerta	50.430
Anterodorsal thalamic nucleus	36.813
Reticular thalamic nucleus	2.834
Vental anterior thalamic nucleus	18.121
Medial habenular nucleus	34.306
Laterodorsal thalamic area	33.592
Paraventricular thalamic nucleus	70.710
Central medial thalamic area	52.015
Ventral lateral thalamic area	-
Ventral medial thalamic area	24.470
Lateral habenulal nucleus	24.164
Ventral posterior thalamus	19.098
Anterior pretactal nucleus	18.567
Retromammillary nucleus	66.788

THALAMUS - 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.	75.0

Sample id

Sample description

nTPM

Anterior thalamic nucleus, ventral
nTPM: 47.1

2032	Female, age 42, unknown	62.2
2497	Male, age 66, unknown	51.0
2396	Male, age 61, right hemisphere	28.2

Centromedial thalamic nucleus
nTPM: 59.9

2401	Male, age 76, right hemisphere	90.7
2279	Female, age 85, left hemisphere	29.2

Habenula
nTPM: 73.6

1957	Male, age 80, both hemispheres	86.3
2203	Male, age 61, left hemisphere	83.1
2276	Male, age 66, unknown	71.4
2252	Male, age 62, unknown	53.5

Lateral geniculate body
nTPM: 60.8

2857	Male, age 74, right hemisphere	110.0
2106	Female, age 67, right hemisphere	85.9
1953	Male, age 62, unknown	69.7
2399	Male, age 61, left hemisphere	61.6
2035	Female, age 72, unknown	58.7
2575	Female, age 94, right hemisphere	46.0
2659	Male, age 66, unknown	30.0
2841	Male, age 80, both hemispheres	24.7

Lateral thalamic nuclei
nTPM: 57.9

1903	Male, age 76, left hemisphere	86.8
2661	Female, age 72, unknown	67.5
2573	Female, age 94, left hemisphere	54.8
2765	Female, age 67, both hemispheres	45.0
2577	Male, age 74, both hemispheres	35.5

Medial dorsal thalamic nucleus
nTPM: 75.0

2498	Male, age 66, unknown	97.8
2283	Male, age 80, right hemisphere	94.6
2576	Male, age 74, both hemispheres	88.4
2572	Female, age 94, right hemisphere	85.6
1859	Male, age 76, both hemispheres	85.1
2026	Male, age 62, unknown	79.4
1971	Male, age 61, right hemisphere	70.4
2492	Male, age 75, right hemisphere	68.6
2402	Female, age 67, both hemispheres	68.3
1930	Female, age 42, unknown	67.1
2660	Female, age 72, unknown	60.3
2039	Female, age 72, unknown	55.3
1810	Male, age 48, unknown	53.7

Medial geniculate body
nTPM: 68.1

2657	Male, age 74, right hemisphere	90.4
2650	Female, age 94, left hemisphere	85.5
1811	Female, age 42, unknown	84.9
2207	Male, age 80, right hemisphere	77.3
2049	Male, age 76, both hemispheres	61.1
2217	Female, age 72, unknown	49.8
2571	Male, age 75, right hemisphere	27.9

Nucleus reuniens
nTPM: 35.6

2212	Female, age 67, left hemisphere	54.1
2205	Male, age 80, left hemisphere	33.2
2210	Female, age 85, left hemisphere	19.4

Nucleus rhomboideus
nTPM: 44.6

2206	Male, age 80, both hemispheres	89.4
2213	Female, age 67, left hemisphere	25.7
2280	Female, age 85, left hemisphere	18.6

Posterior thalamic nucleus
nTPM: 69.6

2655	Male, age 74, right hemisphere	109.0
2495	Female, age 67, right hemisphere	66.2
2266	Male, age 76, right hemisphere	63.8
2649	Female, age 94, both hemispheres	39.4

Pulvinar
nTPM: 73.4

2724	Male, age 74, right hemisphere	95.5
2214	Male, age 76, right hemisphere	83.2
2496	Female, age 67, right hemisphere	80.0
2582	Female, age 72, unknown	76.7
1929	Male, age 48, unknown	69.3
1972	Male, age 62, unknown	67.9
2499	Male, age 66, unknown	67.0
1932	Male, age 80, right hemisphere	65.3
2398	Male, age 61, left hemisphere	64.9
1899	Female, age 42, unknown	64.1

Subthalamic nucleus
nTPM: 28.8

2406	Female, age 72, unknown	44.2
2275	Male, age 66, unknown	33.6
2216	Male, age 48, unknown	32.7
2779	Female, age 42, unknown	28.9
2282	Male, age 61, both hemispheres	25.5
2658	Male, age 74, both hemispheres	24.6
2124	Male, age 62, unknown	22.8
2056	Female, age 72, unknown	18.0

Ventral posterolateral thalamic nucleus
nTPM: 57.0

2197	Male, age 80, both hemispheres	87.9
2740	Male, age 76, right hemisphere	68.3
2581	Female, age 72, unknown	53.0
2397	Male, age 61, right hemisphere	50.1
2578	Male, age 74, both hemispheres	45.2
2570	Male, age 75, right hemisphere	37.4

Ventral posteromedial thalamic nucleus
nTPM: 62.4

2758	Male, age 80, both hemispheres	89.3
2127	Male, age 76, right hemisphere	72.3
2202	Male, age 61, left hemisphere	69.3
2653	Male, age 74, both hemispheres	43.0
2281	Male, age 75, right hemisphere	37.8

Ventral thalamic nuclei
nTPM: 55.5

1860	Male, age 76, both hemispheres	74.7
1912	Female, age 42, unknown	72.5
2285	Male, age 62, unknown	70.8
2204	Male, age 80, both hemispheres	66.4
1845	Male, age 48, unknown	64.8
2858	Female, age 72, unknown	47.8
2291	Female, age 72, unknown	40.9
2580	Male, age 66, unknown	35.3
2652	Male, age 74, left hemisphere	26.5

Zona incerta
nTPM: 39.9

2208	Male, age 80, right hemisphere	66.4
2663	Female, age 72, unknown	53.7
2215	Male, age 66, unknown	30.8
2403	Male, age 62, unknown	27.3
2822	Male, age 74, right hemisphere	21.4

THALAMUS - 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.	44.7

FANTOM5 sample id

Sample description

Scaled Tags Per Million

Thalamus
Scaled Tags Per Million: 44.7

FF:10154-103A1

76 years, female

44.7

THALAMUS - Macaque RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	95.8

Macaque sample

Sample description

nTPM

Habenula
nTPM: 95.5

Samples: 1

Max nTPM: 95.5
Min nTPM: 95.5

Sample A

95.5

Lateral thalamic nuclei
nTPM: 44.3

Samples: 2

Max nTPM: 47.7
Min nTPM: 40.8

Sample A		40.8
Sample B		47.7

Thalamus
nTPM: 95.9

Samples: 2

Max nTPM: 110.9
Min nTPM: 80.8

Sample A		110.9
Sample B		80.8

THALAMUS - Pig RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	137.6

Pig sample

Sample description

nTPM

Thalamus
nTPM: 137.7

Samples: 3

Max nTPM: 198.4
Min nTPM: 59.2

Sample A	Female	155.4
Sample C	Male	198.4
Sample D	Male	59.2

THALAMUS - Mouse RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	93.2

Mouse sample

Sample description

nTPM

Thalamus
nTPM: 93.1

Samples: 4

Max nTPM: 98.2
Min nTPM: 86.4

Sample A		90.6
Sample B		97.4
Sample C		86.4
Sample D		98.2

THALAMUS - Rat RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	62.0

Rat sample

Sample description

nTPM

Thalamus
nTPM: 62.0

Samples: 4

Max nTPM: 64.5
Min nTPM: 59.9

Sample A		63.2
Sample A		59.9
Sample A		64.5
Sample A		60.5