Cluster composition

Functions

Category	Name	IntersectionWithQuery	PValue	GenesInTerm	GenesInQuery	GenesInTermInQuery	ID
GeneOntologyMolecularFunction	protein kinase binding	SOX9 ILK SLC22A8 CADPS ZBTB4 CEACAM3 TAOK1 PKN1 STK11IP	5.07e-04	873	54	9	GO:0019901
GeneOntologyMolecularFunction	pre-mRNA intronic binding	SOX9 RBM20	6.40e-04	14	54	2	GO:0097157
GeneOntologyMolecularFunction	RNA 7-methylguanosine cap binding	GEMIN5 CYFIP2	6.40e-04	14	54	2	GO:0000340
GeneOntologyMolecularFunction	N6-methyladenosine-containing RNA reader activity	YTHDF1 YTHDF3	7.37e-04	15	54	2	GO:1990247
GeneOntologyCellularComponent	P-body	YTHDF1 XRN1 YTHDF3 SAMD4A	1.51e-04	102	55	4	GO:0000932
Domain	YTH	YTHDF1 YTHDF3	7.27e-05	5	51	2	PS50882
Domain	YTH_domain	YTHDF1 YTHDF3	7.27e-05	5	51	2	IPR007275
Domain	YTH	YTHDF1 YTHDF3	7.27e-05	5	51	2	PF04146
Domain	zf-DHHC	ZDHHC16 ZDHHC19	1.78e-03	23	51	2	PF01529
Domain	DHHC	ZDHHC16 ZDHHC19	2.11e-03	25	51	2	PS50216
Domain	Znf_DHHC_palmitoyltrfase	ZDHHC16 ZDHHC19	2.11e-03	25	51	2	IPR001594
Domain	ZnF_U1	ZFR2 RBM20	2.83e-03	29	51	2	SM00451
Domain	Znf_U1	ZFR2 RBM20	2.83e-03	29	51	2	IPR003604
Domain	C2	CADPS SYT17 PKN1	6.22e-03	137	51	3	SM00239
Domain	C2	CADPS SYT17 PKN1	6.86e-03	142	51	3	PS50004
Domain	C2_dom	CADPS SYT17 PKN1	1.02e-02	164	51	3	IPR000008
Pubmed	Cytoplasmic m6A reader YTHDF3 promotes mRNA translation.	YTHDF1 YTHDF3	2.55e-06	2	56	2	28106076
Pubmed	Deletion of YTHDF1 (not YTHDF3) reduced brain and gut damage after traumatic brain injury.	YTHDF1 YTHDF3	2.55e-06	2	56	2	39081030
Pubmed	SIK3 is essential for chondrocyte hypertrophy during skeletal development in mice.	SOX9 EPAS1 SP7	2.65e-06	17	56	3	22318228
Pubmed	YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA.	YTHDF1 YTHDF3	7.63e-06	3	56	2	28106072
Pubmed	YTHDF2 suppresses the plasmablast genetic program and promotes germinal center formation.	YTHDF1 YTHDF3	7.63e-06	3	56	2	35508130
Pubmed	A Unified Model for the Function of YTHDF Proteins in Regulating m6A-Modified mRNA.	YTHDF1 YTHDF3	7.63e-06	3	56	2	32492408
Pubmed	Expression of master regulatory genes controlling skeletal development in benign cartilage and bone forming tumors.	SOX9 SP7	7.63e-06	3	56	2	21078438
Pubmed	Sox9 and Hif-2α regulate TUBB3 gene expression and affect ovarian cancer aggressiveness.	SOX9 EPAS1	7.63e-06	3	56	2	24661907
Pubmed	m6A enhances the phase separation potential of mRNA.	YTHDF1 YTHDF3	7.63e-06	3	56	2	31292544
Pubmed	Comprehensive Analysis of YTH Domain Family in Lung Adenocarcinoma: Expression Profile, Association with Prognostic Value, and Immune Infiltration.	YTHDF1 YTHDF3	7.63e-06	3	56	2	34497675
Pubmed	m6A-binding YTHDF proteins promote stress granule formation.	YTHDF1 YTHDF3	7.63e-06	3	56	2	32451507
Pubmed	An immunohistochemistry study of Sox9, Runx2, and Osterix expression in the mandibular cartilages of newborn mouse.	SOX9 SP7	7.63e-06	3	56	2	23762831
Pubmed	N(6)-methyladenosine of HIV-1 RNA regulates viral infection and HIV-1 Gag protein expression.	YTHDF1 YTHDF3	7.63e-06	3	56	2	27371828
Pubmed	Osteo-chondroprogenitor cells are derived from Sox9 expressing precursors.	SOX9 SP7	1.52e-05	4	56	2	16203988
Pubmed	N6-methyladenosine-dependent regulation of messenger RNA stability.	YTHDF1 YTHDF3	1.52e-05	4	56	2	24284625
Pubmed	Mettl14-mediated m6A modification ensures the cell-cycle progression of late-born retinal progenitor cells.	YTHDF1 SOX9 YTHDF3	2.49e-05	35	56	3	37269288
Pubmed	Context-dependent functional compensation between Ythdf m6A reader proteins.	YTHDF1 YTHDF3	2.54e-05	5	56	2	32943573
Pubmed	Transcriptional mechanisms in osteoblast differentiation and bone formation.	SOX9 SP7	2.54e-05	5	56	2	12902164
Pubmed	Effects of reduced connexin43 function on skull development in the Cx43I130T/+ mutant mouse that models oculodentodigital dysplasia.	SOX9 SP7	3.80e-05	6	56	2	32320893
Pubmed	Hypoxia promotes the differentiated human articular chondrocyte phenotype through SOX9-dependent and -independent pathways.	SOX9 EPAS1	3.80e-05	6	56	2	18077449
Pubmed	An in situ hybridization study of Runx2, Osterix, and Sox9 in the anlagen of mouse mandibular condylar cartilage in the early stages of embryogenesis.	SOX9 SP7	3.80e-05	6	56	2	18624832
Pubmed	Hox11 expressing regional skeletal stem cells are progenitors for osteoblasts, chondrocytes and adipocytes throughout life.	SOX9 SP7	3.80e-05	6	56	2	31320650
Pubmed	Sox9 is required for determination of the chondrogenic cell lineage in the cranial neural crest.	SOX9 SP7	5.32e-05	7	56	2	12878728
Pubmed	A PTHrP Gradient Drives Mandibular Condylar Chondrogenesis via Runx2.	SOX9 SP7	5.32e-05	7	56	2	38058151
Pubmed	Mice with an anterior cleft of the palate survive neonatal lethality.	SOX9 SP7	7.09e-05	8	56	2	18393307
Pubmed	Early onset of Runx2 expression caused craniosynostosis, ectopic bone formation, and limb defects.	SOX9 SP7	7.09e-05	8	56	2	21807129
Pubmed	A vertebral skeletal stem cell lineage driving metastasis.	HIVEP3 SP7	7.09e-05	8	56	2	37704733
Pubmed	Constitutive nuclear expression of dentin matrix protein 1 fails to rescue the Dmp1-null phenotype.	SOX9 SP7	7.09e-05	8	56	2	24917674
Pubmed	Sex specific retinoic acid signaling is required for the initiation of urogenital sinus bud development.	SOX9 CYP1B1	7.09e-05	8	56	2	25261715
Pubmed	PRC2 Is Dispensable in Vivo for β-Catenin-Mediated Repression of Chondrogenesis in the Mouse Embryonic Cranial Mesenchyme.	SOX9 SP7	7.09e-05	8	56	2	29223978
Pubmed	AP-1 family members act with Sox9 to promote chondrocyte hypertrophy.	SOX9 SP7	7.09e-05	8	56	2	27471255
Pubmed	Suppressing Mitochondrial Respiration Is Critical for Hypoxia Tolerance in the Fetal Growth Plate.	SOX9 EPAS1	7.09e-05	8	56	2	31105007
Pubmed	COUP-TFII is required for morphogenesis of the neural crest-derived tympanic ring.	SOX9 SP7	9.10e-05	9	56	2	28959031
Pubmed	Chondrocyte-specific ablation of Osterix leads to impaired endochondral ossification.	SOX9 SP7	9.10e-05	9	56	2	22290230
Pubmed	Midface and upper airway dysgenesis in FGFR2-related craniosynostosis involves multiple tissue-specific and cell cycle effects.	SOX9 SP7	9.10e-05	9	56	2	30228104
Pubmed	Loss of VHL in mesenchymal progenitors of the limb bud alters multiple steps of endochondral bone development.	SOX9 EPAS1	1.14e-04	10	56	2	24972088
Pubmed	Core Binding Factor β Plays a Critical Role During Chondrocyte Differentiation.	SOX9 SP7	1.14e-04	10	56	2	26058470
Pubmed	A unique stylopod patterning mechanism by Shox2-controlled osteogenesis.	SOX9 SP7	1.14e-04	10	56	2	27287812
Pubmed	Foxp1/2/4 regulate endochondral ossification as a suppresser complex.	SOX9 SP7	1.39e-04	11	56	2	25527076
Pubmed	Twist1 mediates repression of chondrogenesis by β-catenin to promote cranial bone progenitor specification.	SOX9 SP7	1.39e-04	11	56	2	23095887
Pubmed	Canonical Wnt/beta-catenin signaling prevents osteoblasts from differentiating into chondrocytes.	SOX9 SP7	1.39e-04	11	56	2	15866163
Pubmed	Shox2-deficiency leads to dysplasia and ankylosis of the temporomandibular joint in mice.	SOX9 SP7	1.39e-04	11	56	2	18514492
Pubmed	Critical roles of the TGF-beta type I receptor ALK5 in perichondrial formation and function, cartilage integrity, and osteoblast differentiation during growth plate development.	SOX9 SP7	1.39e-04	11	56	2	19501582
Pubmed	EBF2 regulates osteoblast-dependent differentiation of osteoclasts.	SOX9 SP7	1.66e-04	12	56	2	16326388
Pubmed	Transient and lineage-restricted requirement of Ebf3 for sternum ossification.	SOX9 SP7	1.66e-04	12	56	2	32398354
Pubmed	Deficiency of Fam20b-Catalyzed Glycosaminoglycan Chain Synthesis in Neural Crest Leads to Cleft Palate.	SOX9 SP7	1.66e-04	12	56	2	37298583
Pubmed	Proximity labeling reveals dynamic changes in the SQSTM1 protein network.	PDLIM3 SEC16A XRN1 PKN1 EPN1	1.71e-04	322	56	5	39098523
Pubmed	Hypomorphic and dominant-negative impact of truncated SOX9 dysregulates Hedgehog-Wnt signaling, causing campomelia.	SOX9 SP7	1.96e-04	13	56	2	36584300
Pubmed	Mesenchyme-specific overexpression of nucleolar protein 66 in mice inhibits skeletal growth and bone formation.	SOX9 SP7	1.96e-04	13	56	2	25746793
Pubmed	Smad4 deficiency impairs chondrocyte hypertrophy via the Runx2 transcription factor in mouse skeletal development.	SOX9 SP7	1.96e-04	13	56	2	29735531
Pubmed	Gene expression changes in the secondary palate and mandible of Prdm16(-/-) mice.	SOX9 SP7	1.96e-04	13	56	2	23149718
Pubmed	Signaling Cascades Governing Cdc42-Mediated Chondrogenic Differentiation and Mensenchymal Condensation.	SOX9 SP7	1.96e-04	13	56	2	26739452
Pubmed	Meis2 controls skeletal formation in the hyoid region.	SOX9 SP7	1.96e-04	13	56	2	36247013
Pubmed	Exome capture reveals ZNF423 and CEP164 mutations, linking renal ciliopathies to DNA damage response signaling.	DVL3 NPHP4	1.96e-04	13	56	2	22863007
Pubmed	PRP19 transforms into a sensor of RPA-ssDNA after DNA damage and drives ATR activation via a ubiquitin-mediated circuitry.	YTHDF1 CHTF18 XRN1 GEMIN5 YTHDF3	2.20e-04	340	56	5	24332808
Pubmed	Conditional deletion of Bmp2 in cranial neural crest cells recapitulates Pierre Robin sequence in mice.	SOX9 SP7	2.29e-04	14	56	2	30413887
Pubmed	Genetic analysis of the roles of BMP2, BMP4, and BMP7 in limb patterning and skeletogenesis.	SOX9 SP7	2.29e-04	14	56	2	17194222
Pubmed	Hox11 genes are required for regional patterning and integration of muscle, tendon and bone.	SOX9 SP7	2.29e-04	14	56	2	24154528
Pubmed	The KMT2D Kabuki syndrome histone methylase controls neural crest cell differentiation and facial morphology.	SOX9 SP7	2.29e-04	14	56	2	32541010
Pubmed	The novel zinc finger-containing transcription factor osterix is required for osteoblast differentiation and bone formation.	SOX9 SP7	2.29e-04	14	56	2	11792318
Pubmed	A deep proteomics perspective on CRM1-mediated nuclear export and nucleocytoplasmic partitioning.	YTHDF1 SEC16A XRN1 DVL3 WDR81 EPN1 YTHDF3 SAMD4A	2.45e-04	1038	56	8	26673895
Pubmed	Kindlin-2 controls TGF-β signalling and Sox9 expression to regulate chondrogenesis.	SOX9 ILK	2.64e-04	15	56	2	26151572
Pubmed	Cbfb2 Isoform Dominates More Potent Cbfb1 and Is Required for Skeletal Development.	SOX9 SP7	2.64e-04	15	56	2	26890219
Pubmed	Inhibition of miR338 rescues cleidocranial dysplasia in Runx2 mutant mice partially via the Hif1a-Vegfa axis.	SOX9 SP7	2.64e-04	15	56	2	36599929
Pubmed	Dlx5-augmentation in neural crest cells reveals early development and differentiation potential of mouse apical head mesenchyme.	SOX9 SP7	2.64e-04	15	56	2	33483579
Pubmed	Disruption of the ERK/MAPK pathway in neural crest cells as a potential cause of Pierre Robin sequence.	SOX9 SP7	2.64e-04	15	56	2	26395480
Pubmed	Rap1b Is an Effector of Axin2 Regulating Crosstalk of Signaling Pathways During Skeletal Development.	SOX9 SP7	2.64e-04	15	56	2	28520221
Pubmed	Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture.	PDXDC1 SOX9 SP7	2.87e-04	79	56	3	22504420
Pubmed	Sox9 in mouse urogenital sinus epithelium mediates elongation of prostatic buds and expression of genes involved in epithelial cell migration.	SOX9 EPAS1	3.01e-04	16	56	2	31669249
Pubmed	Enpp1 inhibits ectopic joint calcification and maintains articular chondrocytes by repressing hedgehog signaling.	SOX9 SP7	3.01e-04	16	56	2	30111653
Pubmed	Lkb1/Stk11 regulation of mTOR signaling controls the transition of chondrocyte fates and suppresses skeletal tumor formation.	SOX9 SP7	3.01e-04	16	56	2	24218567
Pubmed	The WTX tumor suppressor regulates mesenchymal progenitor cell fate specification.	SOX9 SP7	3.01e-04	16	56	2	21571217
Pubmed	Dysregulated PDGFRα signaling alters coronal suture morphogenesis and leads to craniosynostosis through endochondral ossification.	SOX9 SP7	3.01e-04	16	56	2	28947535
Pubmed	Loss of Foxc1 and Foxc2 function in chondroprogenitor cells disrupts endochondral ossification.	SOX9 SP7	3.41e-04	17	56	2	34331943
Pubmed	Disrupted tenogenesis in masseter as a potential cause of micrognathia.	SOX9 SP7	3.41e-04	17	56	2	36257937
Pubmed	FGF8 Signaling Alters the Osteogenic Cell Fate in the Hard Palate.	SOX9 SP7	3.41e-04	17	56	2	29342370
Pubmed	Cbfb regulates bone development by stabilizing Runx family proteins.	SOX9 SP7	3.41e-04	17	56	2	25262822
Pubmed	Loss of bone sialoprotein leads to impaired endochondral bone development and mineralization.	SOX9 SP7	3.41e-04	17	56	2	25464126
Pubmed	Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries.	WDR81 GEMIN5 ZC3H18	3.56e-04	85	56	3	15449545
Pubmed	Nell1-deficient mice have reduced expression of extracellular matrix proteins causing cranial and vertebral defects.	SOX9 SYT17 PAPLN SP7	3.71e-04	210	56	4	16537572
Pubmed	A dual-activity topoisomerase complex regulates mRNA translation and turnover.	HIVEP3 ZBTB4 SEC16A GEMIN5 PAPLN PKN1 NPHP4 STK11IP	3.72e-04	1105	56	8	35748872
Pubmed	SOXC Transcription Factors Induce Cartilage Growth Plate Formation in Mouse Embryos by Promoting Noncanonical WNT Signaling.	SOX9 SP7	3.83e-04	18	56	2	25761772
Pubmed	Fibronectin isoforms promote postnatal skeletal development.	SOX9 SP7	3.83e-04	18	56	2	39159790
Pubmed	Expression of a Constitutively Active Form of Hck in Chondrocytes Activates Wnt and Hedgehog Signaling Pathways, and Induces Chondrocyte Proliferation in Mice.	SOX9 SP7	4.28e-04	19	56	2	32290615
Pubmed	Overexpression of Fgf18 in cranial neural crest cells recapitulates Pierre Robin sequence in mice.	SOX9 SP7	4.28e-04	19	56	2	38694818
Pubmed	Segmental variations in trabecular bone density and microstructure of the spine in senescence-accelerated mouse (SAMP6): a murine model for senile osteoporosis.	SOX9 SP7	4.28e-04	19	56	2	22342532
Pubmed	m6A regulation of cortical and retinal neurogenesis is mediated by the redundant m6A readers YTHDFs.	YTHDF1 YTHDF3	4.28e-04	19	56	2	36039295
Pubmed	Wnt/beta-catenin signaling in mesenchymal progenitors controls osteoblast and chondrocyte differentiation during vertebrate skeletogenesis.	SOX9 SP7	4.28e-04	19	56	2	15866164
Pubmed	Animal Models of Congenital Cardiomyopathies Associated With Mutations in Z-Line Proteins.	ILK PDLIM3	4.28e-04	19	56	2	27171814
Pubmed	The metalloproteinase-proteoglycans ADAMTS7 and ADAMTS12 provide an innate, tendon-specific protective mechanism against heterotopic ossification.	SOX9 SP7	4.28e-04	19	56	2	29618652
Pubmed	Zfhx4 regulates endochondral ossification as the transcriptional platform of Osterix in mice.	SOX9 SP7	4.28e-04	19	56	2	34732852
Pubmed	Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation.	SEC16A XRN1 DVL3 GEMIN5 RBM20	5.65e-04	418	56	5	34709266
Pubmed	Mechanical load regulates bone growth via periosteal Osteocrin.	SOX9 SP7	5.76e-04	22	56	2	34260913
Pubmed	Renal developmental defects resulting from in utero hypoxia are associated with suppression of ureteric β-catenin signaling.	REN EPAS1	5.76e-04	22	56	2	25587709
Pubmed	Extracellular signal-regulated kinase 1 (ERK1) and ERK2 play essential roles in osteoblast differentiation and in supporting osteoclastogenesis.	SOX9 SP7	5.76e-04	22	56	2	19737917
Pubmed	Neural crest cells require Meis2 for patterning the mandibular arch via the Sonic hedgehog pathway.	SOX9 SP7	6.30e-04	23	56	2	32616504
Pubmed	The G protein-coupled receptor Gpr161 regulates forelimb formation, limb patterning and skeletal morphogenesis in a primary cilium-dependent manner.	SOX9 SP7	6.30e-04	23	56	2	29222391
Pubmed	Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.	ZFR2 FSTL4 SAMD4A	6.42e-04	104	56	3	10470851
Pubmed	Piezo1/2 mediate mechanotransduction essential for bone formation through concerted activation of NFAT-YAP1-ß-catenin.	SOX9 SP7	6.87e-04	24	56	2	32186512
Pubmed	Mycn deficiency underlies the development of orofacial clefts in mice and humans.	SOX9 SP7	6.87e-04	24	56	2	34590686
Interaction	FUBP3 interactions	YTHDF1 SEC16A XRN1 ZC3H18 RBM20 YTHDF3 SP7	1.21e-05	297	53	7	int:FUBP3
GeneFamily	Zinc fingers DHHC-type\|Ankyrin repeat domain containing	ZDHHC16 ZDHHC19	8.17e-04	24	32	2	76
Coexpression	GSE24671_CTRL_VS_SENDAI_VIRUS_INFECTED_MOUSE_SPLENOCYTES_DN	ZFR2 ZBTB4 SEC16A TAOK1 ZC3H18 EPN1	3.78e-06	199	55	6	M9443
ToppCell	renal_cortex_nuclei-CKD+DKD_normotensive-Immune-Myeloid-Granulocytic-Mast_Cell\|CKD+DKD_normotensive / Celltypes from Cells and Nuclei per compartment and clinical group	CADPS LRRC4B MRPL32 CARNS1	5.38e-05	161	57	4	c54010d88f1ecb6e0235bb66084876a4d5bf1ecd
ToppCell	renal_cortex_nuclei-CKD+DKD_normotensive-Immune-Myeloid-Granulocytic\|CKD+DKD_normotensive / Celltypes from Cells and Nuclei per compartment and clinical group	CADPS CEACAM3 LRRC4B CARNS1	6.65e-05	170	57	4	be2a34c70665d8d11332b1a70eda03d77cb7f7dd
ToppCell	3'-GW_trimst-2-LargeIntestine-Epithelial-neuro-epithelial-EC_cells_(TAC1+)\|GW_trimst-2 / Celltypes from developing, pediatric, Crohn's, & adult GI tract	PRAC2 VENTX CADPS AMER3	8.29e-05	180	57	4	d553aba594f5304f1c09ff9c6d49b64cd7ee7850
ToppCell	facs\|World / Large_Intestine_Pancreas_Liver - method, tissue, subtissue, age, lineage, cell ontology and free annotation	PDXDC1 SOX9 DVL3 PLSCR1	8.66e-05	182	57	4	08f775135b451be709f5fc8e1cbcf63425794a2e
ToppCell	Calu_3-infected\|Calu_3 / Cell line, Condition and Strain	SOX9 XRN1 TAOK1 PLSCR1	8.84e-05	183	57	4	8f7f5000645f24f20a8d7700c4df1f8953a1780b
ToppCell	Primary_Visual_cortex_(V1C)-Non-neuronal-Macroglial-Astro-Astrocyte-Astro_L1-6_FGFR3_ETNPPL\|Primary_Visual_cortex_(V1C) / Sample groups (6 Anatomical region groups), with 5 level hierarchy of cell types	SOX9 PGGHG SYT17 PAPLN	9.41e-05	186	57	4	73cf266aeecd3cc15e8cb6094588a393bca8fbe6
ToppCell	facs-Brain_Non-Myeloid-Hippocampus-24m-Neuronal-neuron\|Brain_Non-Myeloid / Brain_Non-Myeloid_Brain_Myeloid - method, tissue, subtissue, age, lineage, cell ontology and free annotation	CADPS SYT17 EPN1 CYFIP2	9.61e-05	187	57	4	e04a84989d624378141042768383b9c846901f2d
ToppCell	facs-Brain_Non-Myeloid-Hippocampus-24m-Neuronal-nan\|Brain_Non-Myeloid / Brain_Non-Myeloid_Brain_Myeloid - method, tissue, subtissue, age, lineage, cell ontology and free annotation	CADPS SYT17 EPN1 CYFIP2	9.61e-05	187	57	4	24cc03c748e15f7ef0e6509ca5a6ca583fb9c573
ToppCell	facs-Brain_Non-Myeloid-Hippocampus-24m-Neuronal\|Brain_Non-Myeloid / Brain_Non-Myeloid_Brain_Myeloid - method, tissue, subtissue, age, lineage, cell ontology and free annotation	CADPS SYT17 EPN1 CYFIP2	9.61e-05	187	57	4	2f153b203fe79f206319603cf94d3a03ab49a05d
ToppCell	LA-03._Atrial_Cardiomyocyte\|World / Chamber and Cluster_Paper	PDLIM3 CADPS RBM20 SAMD4A	9.81e-05	188	57	4	6d249fe92d51a19da19ec14bb2262d394255d577
ToppCell	TCGA-Breast-Primary_Tumor-Breast_Carcinoma-Infiltrating_Lobular_Carcinoma-6\|TCGA-Breast / Sample_Type by Project: Shred V9	VENTX WDR81 PAPLN LRRC4B	9.81e-05	188	57	4	c90669b51e1902fe7726555290c91c92a911df83
ToppCell	3'-GW_trimst-1-LargeIntestine-Mesenchymal-Pericytes-angiogenic_pericyte\|GW_trimst-1 / Celltypes from developing, pediatric, Crohn's, & adult GI tract	CADPS RBM20 EPAS1 CYFIP2	1.00e-04	189	57	4	d0c7549be4f77520c23dddf4f94d0fcad0081e37
ToppCell	LPS-IL1RA-Stromal_mesenchymal-Matrix_Fibroblast-Activated_MatrixFB\|LPS-IL1RA / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	HIVEP3 CYP1B1 PAPLN SAMD4A	1.02e-04	190	57	4	45df8fee00f8949937863159d7aa042e72748d9b
ToppCell	LA-03._Atrial_Cardiomyocyte\|LA / Chamber and Cluster_Paper	PDLIM3 CADPS RBM20 SAMD4A	1.04e-04	191	57	4	5d1b674eb7703830b7ce8bbeac3363cabd0e6ae9
ToppCell	(1)_Osterolineage_cells-(10)_OLC-1\|(1)_Osterolineage_cells / Cell class and subclass of bone marrow stroma cells in homeostatis	CYP1B1 EPAS1 CYFIP2 SP7	1.04e-04	191	57	4	78ad7c555409ce1391bce406bc0f3ef575329ece
ToppCell	renal_medulla_nuclei-Adult_normal_reference-Mesenchymal-Myocytic_interstitial_cell\|Adult_normal_reference / Celltypes from Cells and Nuclei per compartment and clinical group	PDLIM3 CADPS LRRC4B RBM20	1.06e-04	192	57	4	24e2f15f5767a97eb3b389922bcfd7b13805e1ce
ToppCell	LPS_only-Stromal_mesenchymal-Matrix_Fibroblast-Activated_MatrixFB\|LPS_only / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	HIVEP3 CYP1B1 PAPLN SAMD4A	1.06e-04	192	57	4	df1545670370fb1010c567cd059c2783eab315f7
ToppCell	3'-Child04-06-SmallIntestine-Mesenchymal-stromal_related-FDC\|Child04-06 / Celltypes from developing, pediatric, Crohn's, & adult GI tract	CYP1B1 PDLIM3 PAPLN EPAS1	1.11e-04	194	57	4	f9fbb043411546d8c9e0321a64165d411f44aeb7
ToppCell	RA-03._Atrial_Cardiomyocyte\|World / Chamber and Cluster_Paper	PDLIM3 CADPS RBM20 SAMD4A	1.11e-04	194	57	4	89812fb164065041357bb37a3c2d87028ec3de4e
ToppCell	(0)_Myeloid-(00)_Monocyte-(001)_CD16+_Monocyte\|(00)_Monocyte / immune cells in Peripheral Blood (logTPM normalization)	SYT17 CEACAM3 PKN1 CYFIP2	1.11e-04	194	57	4	89cb262e04d7105012e957e0add44c73de6c1ed0
ToppCell	(0)_Myeloid-(001)_CD16+_Monocyte\|(0)_Myeloid / immune cells in Peripheral Blood (logTPM normalization)	SYT17 CEACAM3 PKN1 CYFIP2	1.11e-04	194	57	4	4240d0b3cf264f51dcf0cb4d0a18641d85d38638
ToppCell	E17.5-Mesenchymal-myocytic_cell\|E17.5 / developmental_time, Lineage, Cell group, Cell type, Cell type_cellcyc-phase	CYP1B1 ILK PDLIM3 SAMD4A	1.13e-04	195	57	4	01a750d660993017af00736215cbcff2de5909c1
ToppCell	COVID-19_Mild-Non-classical_Monocyte\|COVID-19_Mild / Disease condition and Cell class	SYT17 CEACAM3 PKN1 CYFIP2	1.13e-04	195	57	4	dd00facd20a661ef23fa7fd9a02ee377b8f2d1b9
ToppCell	droplet-Pancreas-PANCREAS-30m-Epithelial-pancreatic_B_cell\|Pancreas / Large_Intestine_Pancreas_Liver - method, tissue, subtissue, age, lineage, cell ontology and free annotation	CADPS SEC16A XRN1 CYFIP2	1.13e-04	195	57	4	7796ea9247f4c63762f0de8490fed08b9717fa23
ToppCell	COVID-19_Mild-Non-classical_Monocyte-\|COVID-19_Mild / Disease condition and Cell class	SYT17 CEACAM3 PKN1 CYFIP2	1.13e-04	195	57	4	0295d9897830987eec74f51178e14fb0a83723dc
ToppCell	Control-Non-classical_Monocyte-\|Control / Disease condition and Cell class	SYT17 CEACAM3 PKN1 CYFIP2	1.15e-04	196	57	4	b17ab094cdc7050c2997e24ed474779b5d6f6146
ToppCell	Control-Non-classical_Monocyte\|Control / Disease condition and Cell class	SYT17 CEACAM3 PKN1 CYFIP2	1.15e-04	196	57	4	404064ccfe2cb73df7a7f88aa65d86b97dcef9d4
ToppCell	Non-neuronal-Non-dividing-Radial_Glia-tRG-25\|World / Primary Cells by Cluster	SOX9 PDLIM3 RBM20 SAMD4A	1.17e-04	197	57	4	9d4ffa3680f92c91d0a081f9a8ec5ebfec6bdcf6
ToppCell	Non-neuronal-Non-dividing-Radial_Glia-tRG\|World / Primary Cells by Cluster	SOX9 PDLIM3 RBM20 SAMD4A	1.17e-04	197	57	4	61749ccafeb938c310cff1de5ff924a1c794325a
ToppCell	E16.5-Mesenchymal-Mesenchymal_myocytic-Myofibroblast_airway\|E16.5 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	CYP1B1 ILK PDLIM3 SAMD4A	1.20e-04	198	57	4	63f7d25201613bd3404c28fb936954190bca91d3
ToppCell	E16.5-Mesenchymal-Mesenchymal_myocytic-Myofibroblast_airway-ASMC\|E16.5 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	CYP1B1 ILK PDLIM3 SAMD4A	1.20e-04	198	57	4	a73534b6ca202c277a70a52281d5b97a3e6cb8ef
ToppCell	E16.5-Mesenchymal-Mesenchymal_myocytic-Myofibroblast_airway-ASMC-ASMC_mature\|E16.5 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	CYP1B1 ILK PDLIM3 SAMD4A	1.20e-04	198	57	4	d1e1bdd36c84e1bac21ba137f018defe98456a8c
Computational	Genes upregulated in subsets of cells of a given type within various tumors	HIVEP3 CADPS SAMD4A	2.03e-04	50	25	3	GAVISH_3CA_MALIGNANT_METAPROGRAM_16_MES_GLIOMA
Disease	central nervous system disease (implicated_via_orthology)	GEMIN5 TAOK1	3.60e-04	16	52	2	DOID:331 (implicated_via_orthology)
Disease	response to methotrexate, neurotoxicity	PKN1 ZDHHC19	5.11e-04	19	52	2	EFO_0011057, GO_0031427
Disease	disease of metabolism (implicated_via_orthology)	YTHDF1 YTHDF3	6.26e-04	21	52	2	DOID:0014667 (implicated_via_orthology)
Disease	longitudinal BMI measurement, response to amisulpride	FSTL4 PAK6	1.20e-03	29	52	2	EFO_0005937, EFO_0010718
Disease	QRS duration	PDXDC1 ZBTB4 RBM20 EPAS1	1.89e-03	298	52	4	EFO_0005055
Disease	airway imaging measurement	HIVEP3 SAMD4A	2.06e-03	38	52	2	EFO_0007627
Disease	Influenza	SLC22A8 PLSCR1	3.82e-03	52	52	2	C0021400

Protein segments in the cluster

Peptide	Gene	Start	Entry
PPAAWPPRQDMGSGL	AMER3	691	Q8N944
PMAPGVQGSLLHVPW	CHTF18	196	Q8WVB6
MGGRSNTQWPPDPPL	EPAS1	631	Q99814
HLWDGNPPMAPPNPR	GVINP1	1671	Q7Z2Y8
SPAWLMKVPAPGQPG	CARNS1	6	A5YM72
LAPLPHPGAAPWPMA	DVL3	521	Q92997
AGPRKGPLSPAWMPA	POLM	126	Q9NP87
PDLTAGPMWPPPHNQ	RBM20	331	Q5T481
PLGIPQMPTFSAPSW	CADPS	1036	Q9ULU8
PSPMSLSPAWPGHPD	ESPNL	366	Q6ZVH7
TPAGHKQMPWPEPQS	PAK6	151	Q9NQU5
DSGMPSPLPQPHGWG	KIAA1614	1156	Q5VZ46
QPVGAAGVPWMPAPQ	PLSCR1	76	O15162
TMTPGPWLGLPAVPA	PDXDC1	296	Q6P996
TMTPGPWLGLPAVPA	PDXDC2P	296	Q6P474
GPQQEVHMLWTPAPP	PGGHG	171	Q32M88
PIWRGPPPTNGVMHV	CYFIP2	1131	Q96F07
SAPKAPGSPWMVPGD	KIF25-AS1	76	Q9Y6Z4
PPWHTFPGAPVGMLG	NPHP4	1151	O75161
PMPHPEGIWGINNQP	C6orf15	231	Q6UXA7
PAGPAQPWGGTHRIM	FSTL4	781	Q6MZW2
PAPHPTLITHWMPYG	ILK	261	Q13418
MGPPSASPHRECIPW	CEACAM3	1	P40198
PTTDPWGGPAPMAAA	EPN1	271	Q9Y6I3
PGVGNIHSGATPPWM	CENATAC	231	Q86UT8
MGTSLSPNDPWPLNP	CYP1B1	1	Q16678
PPHNASTGPWVLPMG	SLC22A8	51	Q8TCC7
STGPWVLPMGPNGKP	SLC22A8	56	Q8TCC7
PLPPGRMSWPHGALL	LRRC4B	11	Q9NT99
HTSLGLSPMGPPLPW	STK11IP	331	Q8N1F8
PPWGPALAVQGPAMF	MRPL32	41	Q9BYC8
GPFPAQTPPWLMASR	SYT17	51	Q9BSW7
QPMRVARGGPWTPNP	PRDM15	116	P57071
IHAMDIPPPTGPTWA	REN	366	P00797
PQPWGHPSGPMQGVP	TAOK1	941	Q7L7X3
MPQTVILPGPAPWGF	PDLIM3	1	Q53GG5
LPETIPWNPTPSMGG	PKN1	336	Q16512
AGHVWMSKQQAPPPP	SOX9	331	P48436
PPPPIKHNMNIGTWD	YTHDF3	266	Q7Z739
SPWAQGMQPPLPVPH	TEX13D	211	A0A0J9YY54
PHAPPDWAQPLLMGR	ZFR2	556	Q9UPR6
SPSLPQPGLQMPGQW	SEC16A	201	O15027
HTPASNPWMPLGPQE	PAPLN	551	O95428
PGNTPTPWWDMHPGG	SP7	151	Q8TDD2
PAWPSDPLGTPMHPS	STPG3	346	Q8N7X2
DPLGTPMHPSGWPTL	STPG3	351	Q8N7X2
EHPIPPPSWMGQNSF	TEX52	136	A6NCN8
LAWGPPVPPMSLGGE	GEMIN5	476	Q8TEQ6
MPGLPWLGPAPLGSV	HIVEP3	1936	Q5T1R4
HLFGSMPWGPSVPVP	XRN1	1561	Q8IZH2
MPWGPSVPVPGKPFH	XRN1	1566	Q8IZH2
GGDAWVPPTPAPMAT	ZBTB4	181	Q9P1Z0
LSGAGPIHLPMPWPN	PRAC2	36	D3DTV9
SHLPHGNGMSWEPPP	ZDHHC16	351	Q969W1
GPDWTSMPNLHPPMS	ZDHHC19	271	Q8WVZ1
TPPMNVPNQPLGHGW	SAMD4A	256	Q9UPU9
VEPTMPGTGPEWDPH	WDR81	1531	Q562E7
WAPLSGPQALMLPPG	VENTX	186	O95231
FPAGMCPHPANPTWA	nan	121	Q6ZTC4
PPPPIKHNMDIGTWD	YTHDF1	261	Q9BYJ9
HPLMPANPWGGPVVD	ZC3H18	271	Q86VM9