S-LDSC

I applied stratified linkage disequilibrium score regression (S-LDSC)¹ to summary statistics from DECODE's meta-GWAS of seropositive rheumatoid arthritis (RA)².

Reference Data Sources

I used the standard reference datasets prepared by the authors of the S-LDSC method.

• The GTEx Project
• The Franke lab dataset
• The Roadmap Epigenetic Project and the ENCODE project.
• The Corces et al. ATAC-seq dataset of 13 blood cell types.
• The ImmGen Project
• The Cahoy Mouse Central Nervous System Dataset

Results

GTEx and Franke lab tissue expression data

The plot and expandable table below show the results of S-LDSC applied to the seropositive RA GWAS using the GTEx and Franke lab gene expression reference datasets. In the plot, the x-axis corresponds to cell type, while the y-axis corresponds to \(-\log_{10}(p)\). Points are colored according to tissue category. Large points indicate cell/tissue types deemed significant by the Benjamini-Hochberg procedure at an FDR of 0.01³.

Fullscreen Plot ⤢

GTEx and Franke lab tissue expression — full results

Name	Coefficient	Coefficient_P_value	Reject Null
A10.549.400.Lymph.Nodes	4.78301e-08	2.88832e-10	True
A02.835.583.443.800.800.Synovial.Fluid	5.61776e-08	4.1454e-10	True
A10.549.Lymphoid.Tissue	5.09553e-08	1.4429e-09	True
A15.145.229.Blood.Cells	5.39084e-08	3.53591e-09	True
A15.382.520.604.800.Palatine.Tonsil	4.58904e-08	6.88516e-09	True
A15.145.Blood	5.18866e-08	3.88883e-08	True
A15.145.229.637.555.Leukocytes..Mononuclear	4.70032e-08	7.27727e-08	True
A15.382.490.555.567.Lymphocytes	5.31016e-08	8.98424e-08	True
Cells_EBV-transformed_lymphocytes	3.85731e-08	1.17022e-07	True
A15.382.520.604.700.Spleen	4.38225e-08	2.94242e-07	True
Spleen	4.01534e-08	7.59653e-07	True
A11.118.637.Leukocytes	3.99064e-08	2.98073e-06	True
A11.118.637.555.567.569.T.Lymphocytes	4.28379e-08	5.86293e-06	True
A15.382.Immune.System	3.11616e-08	2.41566e-05	True
A11.118.637.555.567.569.200.700.T.Lymphocytes..Regulatory	3.40158e-08	0.000116436	True
A15.382.490.555.567.622.Lymphocytes..Null	2.91292e-08	0.000188076	True
Whole_Blood	2.63539e-08	0.000282555	True
A15.145.229.637.555.567.569.200.CD4.Positive.T.Lymphocytes	3.28474e-08	0.000285318	True
Small_Intestine_Terminal_Ileum	3.29219e-08	0.000294411	True
A11.118.637.555.567.562.440.Precursor.Cells..B.Lymphoid	2.6957e-08	0.000312111	True
A15.382.490.555.567.537.Killer.Cells..Natural	2.89377e-08	0.000361234	True
A15.382.812.260.Dendritic.Cells	2.4363e-08	0.000563658	True
A15.378.316.580.Monocytes	2.46663e-08	0.000965774	True
A15.378.316.Bone.Marrow.Cells	2.46823e-08	0.00119493	False
A15.382.680.Phagocytes	2.29214e-08	0.00133012	False
Lung	2.51828e-08	0.00161822	False
A15.382.812.Mononuclear.Phagocyte.System	2.13119e-08	0.00354912	False
A15.382.812.522.Macrophages	1.86586e-08	0.00634752	False
A11.627.340.360.Granulocyte.Precursor.Cells	1.97038e-08	0.0101205	False
A15.145.300.Fetal.Blood	1.88718e-08	0.0121389	False
Fallopian_Tube	1.27707e-08	0.0153763	False
A11.118.637.555.567.562.B.Lymphocytes	1.46486e-08	0.0268492	False
A08.186.211.730.317.357.352.435.Hypothalamo.Hypophyseal.System	1.3067e-08	0.0373848	False
A14.724.Pharynx	1.08131e-08	0.0537772	False
A03.556.249.124.Ileum	1.18221e-08	0.0559436	False
A03.556.124.684.Intestine..Small	1.0055e-08	0.0633954	False
A11.627.624.249.Monocyte.Macrophage.Precursor.Cells	1.06135e-08	0.0724936	False
A15.382.490.315.583.Neutrophils	1.01531e-08	0.0803957	False
A07.231.908.670.874.Umbilical.Veins	9.82467e-09	0.0933527	False
A03.556.249.249.356.668.Colon..Sigmoid	8.54092e-09	0.0970435	False
A15.145.846.Serum	8.87353e-09	0.105894	False
A03.556.500.760.464.Parotid.Gland	8.23378e-09	0.109483	False
Cervix_Endocervix	6.75116e-09	0.109778	False
Nerve_Tibial	6.22042e-09	0.113131	False
Ovary	6.63295e-09	0.127853	False
Bladder	5.76442e-09	0.131755	False
A06.407.312.782.Testis	5.93694e-09	0.137824	False
Uterus	6.97354e-09	0.146559	False
A11.436.275.Endothelial.Cells	7.84482e-09	0.163705	False
A07.231.908.Veins	7.0781e-09	0.171416	False
Pituitary	5.57796e-09	0.17469	False
Thyroid	6.85462e-09	0.176454	False
A11.443.Erythroid.Cells	6.07666e-09	0.185434	False
A07.231.Blood.Vessels	6.9292e-09	0.203886	False
Adipose_Visceral_(Omentum)	4.24553e-09	0.220912	False
A11.872.378.Hematopoietic.Stem.Cells	5.49141e-09	0.250679	False
A11.872.653.Neural.Stem.Cells	6.36347e-09	0.256976	False
A08.186.211.730.317.357.Hypothalamus	4.49585e-09	0.257722	False
A11.872.700.500.Induced.Pluripotent.Stem.Cells	3.64398e-09	0.270818	False
A11.872.378.590.635.Granulocyte.Macrophage.Progenitor.Cells	4.49502e-09	0.273602	False
A03.556.500.760.Salivary.Glands	4.43248e-09	0.276189	False
A11.872.378.590.817.Megakaryocyte.Erythroid.Progenitor.Cells	4.0025e-09	0.290492	False
A02.165.Cartilage	3.41914e-09	0.290722	False
A11.627.635.Myeloid.Progenitor.Cells	4.2755e-09	0.303358	False
Adipose_Subcutaneous	2.52621e-09	0.315338	False
A08.186.211.730.885.287.500.571.735.Visual.Cortex	2.13019e-09	0.32238	False
A11.872.040.Adult.Stem.Cells	2.48681e-09	0.346012	False
Skin_Not_Sun_Exposed_(Suprapubic)	2.50739e-09	0.352125	False
A11.872.Stem.Cells	2.84445e-09	0.356808	False
Skin_Sun_Exposed_(Lower_leg)	2.3274e-09	0.367907	False
A10.615.Membranes	2.56044e-09	0.371383	False
Colon_Transverse	2.69894e-09	0.373832	False
A08.186.211.730.885.287.249.487.Corpus.Striatum	1.63837e-09	0.375358	False
A03.556.124.Intestines	2.04267e-09	0.381638	False
A03.556.124.369.Intestinal.Mucosa	2.6756e-09	0.386199	False
A02.835.583.443.800.Synovial.Membrane	1.58666e-09	0.399483	False
A08.186.211.730.885.287.500.270.Frontal.Lobe	1.1894e-09	0.399639	False
A03.556.124.526.767.Rectum	1.6251e-09	0.400694	False
Prostate	1.58951e-09	0.401982	False
A11.436.Epithelial.Cells	1.6809e-09	0.402409	False
A03.556.249.249.356.Colon	1.70565e-09	0.407474	False
A03.556.249.249.209.Cecum	1.4354e-09	0.417463	False
A11.329.Connective.Tissue.Cells	1.18953e-09	0.432041	False
A11.872.190.Embryonic.Stem.Cells	9.0008e-10	0.44649	False
A09.371.729.Retina	7.5738e-10	0.454398	False
A15.145.229.637.555.567.562.725.Plasma.Cells	6.86638e-10	0.462936	False
Cervix_Ectocervix	4.24654e-10	0.466049	False
A11.329.372.600.Macrophages..Alveolar	5.31446e-10	0.466282	False
A10.336.707.Prostate	2.66414e-10	0.482011	False
A03.734.414.Islets.of.Langerhans	-3.5091e-10	0.51899	False
Testis	-2.73571e-10	0.52064	False
A11.329.629.Osteoblasts	-4.49919e-10	0.528733	False
Breast_Mammary_Tissue	-5.3451e-10	0.536038	False
Brain_Cerebellum	-4.44593e-10	0.537362	False
A11.436.348.Hepatocytes	-8.33971e-10	0.541412	False
A10.615.550.Mucous.Membrane	-1.43561e-09	0.565919	False
A08.186.211.730.885.287.249.Basal.Ganglia	-1.1185e-09	0.585835	False
Brain_Nucleus_accumbens_(basal_ganglia)	-1.19859e-09	0.605442	False
A15.145.229.188.Blood.Platelets	-1.71684e-09	0.605921	False
A05.360.444.Genitalia..Male	-1.75674e-09	0.61997	False
A10.272.Epithelium	-2.77776e-09	0.6241	False
A04.531.520.Nasal.Mucosa	-2.99809e-09	0.631815	False
A10.272.497.Epidermis	-2.75833e-09	0.658387	False
A05.360.319.679.256.Cervix.Uteri	-2.89323e-09	0.663822	False
Minor_Salivary_Gland	-3.03524e-09	0.666504	False
Esophagus_Mucosa	-2.88942e-09	0.668455	False
Cells_Transformed_fibroblasts	-2.46132e-09	0.671224	False
A03.556.Gastrointestinal.Tract	-3.26488e-09	0.678799	False
Artery_Coronary	-2.77662e-09	0.693867	False
A03.556.875.875.Stomach	-3.52486e-09	0.708275	False
Artery_Tibial	-2.76136e-09	0.709963	False
Esophagus_Muscularis	-3.06399e-09	0.713832	False
A04.411.Lung	-4.29076e-09	0.714165	False
A05.810.890.Urinary.Bladder	-4.56654e-09	0.714843	False
A08.186.211.730.885.287.500.Cerebral.Cortex	-3.04468e-09	0.72572	False
Adrenal_Gland	-3.82612e-09	0.729952	False
A08.186.211.730.885.287.500.670.Parietal.Lobe	-3.27285e-09	0.733384	False
A05.360.319.679.Uterus	-4.20422e-09	0.738888	False
A05.360.319.679.490.Endometrium	-4.14997e-09	0.748602	False
A14.549.885.Tongue	-4.76555e-09	0.757095	False
Brain_Amygdala	-3.26876e-09	0.763139	False
A08.186.211.730.317.Diencephalon	-4.8536e-09	0.764872	False
A11.436.294.064.Glucagon.Secreting.Cells	-5.34469e-09	0.766829	False
A14.724.557.Nasopharynx	-4.5977e-09	0.768327	False
A07.231.114.Arteries	-5.30451e-09	0.778939	False
A06.407.Endocrine.Glands	-5.01417e-09	0.781347	False
A02.835.232.834.151.Cervical.Vertebrae	-4.9046e-09	0.790382	False
A10.165.450.300.Cicatrix	-4.42946e-09	0.790677	False
A10.165.450.300.425.Keloid	-4.64542e-09	0.803738	False
Brain_Hypothalamus	-3.85634e-09	0.80528	False
Brain_Substantia_nigra	-3.78437e-09	0.807558	False
A06.407.312.Gonads	-5.3577e-09	0.807943	False
A11.329.171.Chondrocytes	-5.57967e-09	0.810399	False
A06.407.900.Thyroid.Gland	-5.12887e-09	0.810759	False
A11.620.520.Myocytes..Smooth.Muscle	-5.82596e-09	0.81124	False
Stomach	-7.35151e-09	0.815672	False
Brain_Frontal_Cortex_(BA9)	-4.07315e-09	0.817339	False
A10.690.467.Muscle..Smooth	-6.22434e-09	0.817682	False
Pancreas	-5.08527e-09	0.822664	False
A08.186.211.464.710.225.Entorhinal.Cortex	-4.54772e-09	0.823495	False
Esophagus_Gastroesophageal_Junction	-4.91351e-09	0.835385	False
Brain_Anterior_cingulate_cortex_(BA24)	-4.3871e-09	0.835758	False
A14.549.167.646.Periodontium	-7.67217e-09	0.842584	False
Liver	-6.61472e-09	0.847788	False
A08.186.211.865.428.Metencephalon	-5.10753e-09	0.853573	False
Colon_Sigmoid	-6.01492e-09	0.866864	False
Brain_Cerebellar_Hemisphere	-4.86268e-09	0.867368	False
A08.186.211.132.810.428.200.Cerebellum	-5.87188e-09	0.878702	False
Brain_Caudate_(basal_ganglia)	-5.20785e-09	0.880599	False
A08.186.211.Brain	-6.06119e-09	0.887502	False
A08.186.211.464.Limbic.System	-6.13229e-09	0.889215	False
A10.165.114.830.500.750.Subcutaneous.Fat..Abdominal	-7.44543e-09	0.891534	False
A03.556.875.Upper.Gastrointestinal.Tract	-7.87765e-09	0.89157	False
A10.165.114.830.750.Subcutaneous.Fat	-7.48511e-09	0.892084	False
A05.360.Genitalia	-6.94296e-09	0.892752	False
Brain_Putamen_(basal_ganglia)	-5.56474e-09	0.892789	False
A11.329.114.Adipocytes	-8.13057e-09	0.89751	False
Kidney_Cortex	-7.53109e-09	0.900857	False
A05.360.490.Germ.Cells	-8.2612e-09	0.908914	False
Artery_Aorta	-8.00467e-09	0.910686	False
Brain_Cortex	-5.90841e-09	0.913344	False
Brain_Hippocampus	-5.99902e-09	0.913829	False
A05.360.444.492.362.Foreskin	-7.07452e-09	0.915242	False
A05.360.319.114.373.Fallopian.Tubes	-8.48348e-09	0.916553	False
Vagina	-6.94167e-09	0.918239	False
Heart_Left_Ventricle	-7.71037e-09	0.918403	False
A11.436.397.Keratinocytes	-1.10464e-08	0.924268	False
Muscle_Skeletal	-8.23075e-09	0.925065	False
A11.872.580.Mesenchymal.Stem.Cells	-8.60509e-09	0.925627	False
A14.549.167.Dentition	-9.47988e-09	0.926393	False
A02.633.567.850.Quadriceps.Muscle	-9.20704e-09	0.927251	False
A11.329.228.Fibroblasts	-8.35116e-09	0.933367	False
A17.815.Skin	-8.86249e-09	0.935268	False
A08.186.211.132.Brain.Stem	-7.51652e-09	0.941035	False
A06.407.071.Adrenal.Glands	-8.92949e-09	0.944333	False
A05.360.319.Genitalia..Female	-1.01725e-08	0.948308	False
A03.556.875.500.Esophagus	-1.38382e-08	0.950417	False
A11.329.830.Stromal.Cells	-9.79858e-09	0.952621	False
A08.186.211.653.Mesencephalon	-9.80902e-09	0.954697	False
A07.541.358.Heart.Atria	-8.97169e-09	0.956274	False
A08.186.211.464.405.Hippocampus	-8.14601e-09	0.956834	False
A05.360.319.114.630.Ovary	-1.03697e-08	0.960128	False
Heart_Atrial_Appendage	-8.61566e-09	0.962994	False
A06.407.071.140.Adrenal.Cortex	-1.01827e-08	0.964306	False
A05.360.319.887.Vulva	-1.17638e-08	0.965113	False
A07.541.358.100.Atrial.Appendage	-9.7398e-09	0.966091	False
A11.382.Endocrine.Cells	-1.12218e-08	0.967191	False
A14.549.Mouth	-1.2035e-08	0.9674	False
A10.615.550.599.Mouth.Mucosa	-1.21067e-08	0.968591	False
A05.360.319.679.690.Myometrium	-1.08339e-08	0.968983	False
A11.436.329.Granulosa.Cells	-1.08367e-08	0.972762	False
A10.690.Muscles	-1.21911e-08	0.973956	False
A03.734.Pancreas	-1.14492e-08	0.975059	False
A07.541.510.110.Aortic.Valve	-1.21086e-08	0.977639	False
A09.371.Eye	-1.30395e-08	0.981519	False
A10.615.789.Serous.Membrane	-1.32495e-08	0.983829	False
A03.620.Liver	-1.39226e-08	0.984818	False
Brain_Spinal_cord_(cervical_c-1)	-9.81557e-09	0.985412	False
A11.872.190.260.Embryoid.Bodies	-1.40633e-08	0.988577	False
A10.615.284.473.Chorion	-1.31236e-08	0.992746	False
A11.497.497.600.Oocytes	-1.49838e-08	0.99305	False
A05.810.453.324.Kidney.Cortex	-1.38436e-08	0.995311	False
A05.810.453.Kidney	-1.45585e-08	0.995429	False
A07.541.Heart	-1.53329e-08	0.998335	False
A07.541.560.Heart.Ventricles	-1.55369e-08	0.998537	False

As would be expected for an immune trait, the main significant cells/tissue are immune-related. There is one significant gut tissue type. It is unclear how to interpret this, but it may reflect the presence of immune cells in the gut.

Roadmap/ ENCODE Chromatin data

I next applied S-LDSC using the Roadmap/ ENCODE epigenetic reference dataset. The results are in the plot and expandable table below:

Fullscreen Plot ⤢

Roadmap/ ENCODE chromatin — full results

Name	Coefficient	Coefficient_P_value	Reject Null
Spleen_ENTEX__H3K27ac	2.86461e-07	1.77655e-13	True
Primary_T_cells_from_cord_blood__DNase	1.3043e-06	2.87201e-12	True
Primary_B_cells_from_peripheral_blood__DNase	8.33763e-07	3.53891e-09	True
Primary_T_helper_cells_PMA-I_stimulated__H3K4me1	3.35191e-07	5.42672e-09	True
Primary_T_helper_17_cells_PMA-I_stimulated__H3K4me1	5.26749e-07	5.6789e-09	True
Primary_T_helper_cells_PMA-I_stimulated__H3K27ac	4.33505e-07	1.87939e-08	True
Primary_T_regulatory_cells_from_peripheral_blood__H3K4me1	5.90963e-07	2.35831e-08	True
Primary_T_cells_from_peripheral_blood__DNase	9.79025e-07	3.76977e-08	True
Primary_T_helper_memory_cells_from_peripheral_blood_2__H3K4me1	3.90504e-07	5.1037e-08	True
Primary_T_helper_17_cells_PMA-I_stimulated__H3K27ac	9.97996e-07	6.05152e-08	True
Primary_T_helper_cells_from_peripheral_blood__H3K4me1	3.53622e-07	8.22673e-08	True
Primary_T_regulatory_cells_from_peripheral_blood__H3K27ac	6.52143e-07	8.35338e-08	True
Primary_T_helper_memory_cells_from_peripheral_blood_1__H3K4me1	3.75417e-07	1.42224e-07	True
Primary_T_cells_from_peripheral_blood__H3K4me1	3.8537e-07	7.6e-07	True
Primary_T_killer_naive_cells_from_peripheral_blood__H3K4me1	2.92823e-07	8.49273e-07	True
Primary_T_helper_naive_cells_from_peripheral_blood_1__H3K4me1	3.64425e-07	8.78393e-07	True
Primary_mononuclear_cells_from_peripheral_blood__H3K9ac	9.63099e-07	9.909e-07	True
Primary_T_regulatory_cells_from_peripheral_blood__H3K4me3	1.50899e-06	1.06256e-06	True
Primary_T_killer_naive_cells_from_peripheral_blood__H3K9ac	9.78603e-07	1.15934e-06	True
Primary_B_cells_from_peripheral_blood__H3K4me1	2.70302e-07	1.30774e-06	True
Primary_T_killer_memory_cells_from_peripheral_blood__H3K4me1	3.90754e-07	1.8218e-06	True
Primary_mononuclear_cells_from_peripheral_blood__H3K4me1	9.90535e-07	2.41581e-06	True
Primary_T_cells_from_peripheral_blood__H3K27ac	5.22785e-07	2.60434e-06	True
Primary_B_cells_from_cord_blood__H3K4me1	3.47919e-07	3.75844e-06	True
Primary_T_cells_effector_memory_enriched_from_peripheral_blood__H3K4me1	6.07169e-07	3.76109e-06	True
Primary_T_helper_naive_cells_from_peripheral_blood_1__H3K27ac	9.12981e-07	4.02418e-06	True
Primary_T_helper_memory_cells_from_peripheral_blood_1__H3K27ac	7.56504e-07	5.75431e-06	True
Primary_T_helper_17_cells_PMA-I_stimulated__H3K36me3	3.60509e-07	7.81145e-06	True
Primary_Natural_Killer_cells_from_peripheral_blood__H3K4me1	2.87953e-07	1.2403e-05	True
Primary_T_cells_effector_memory_enriched_from_peripheral_blood__H3K27ac	6.81269e-07	1.28124e-05	True
Primary_Natural_Killer_cells_from_peripheral_blood__DNase	8.99029e-07	1.32304e-05	True
Primary_T_helper_17_cells_PMA-I_stimulated__H3K4me3	1.70142e-06	1.42764e-05	True
Spleen_ENTEX__H3K4me3	3.49412e-07	1.7988e-05	True
Primary_T_helper_cells_from_peripheral_blood__H3K4me3	1.15419e-06	2.16175e-05	True
Primary_mononuclear_cells_from_peripheral_blood__H3K4me3	1.35829e-06	2.7167e-05	True
Primary_B_cells_from_peripheral_blood__H3K27ac	4.35159e-07	3.16822e-05	True
Primary_T_cells_from_cord_blood__H3K4me1	5.43965e-07	3.20387e-05	True
Primary_B_cells_from_peripheral_blood__H3K4me3	1.46311e-06	3.9817e-05	True
Primary_T_helper_cells_from_peripheral_blood__H3K27ac	5.98844e-07	4.91414e-05	True
Spleen_ENTEX__H3K4me1	9.39209e-07	5.45908e-05	True
Fetal_Thymus__DNase	4.51302e-07	6.32503e-05	True
Thymus__H3K27ac	6.63461e-07	6.75333e-05	True
Primary_T_helper_memory_cells_from_peripheral_blood_2__H3K4me3	1.04507e-06	6.94494e-05	True
Primary_T_helper_memory_cells_from_peripheral_blood_1__H3K4me3	9.92318e-07	7.05757e-05	True
Primary_Natural_Killer_cells_from_peripheral_blood__H3K4me3	1.29674e-06	7.07098e-05	True
Primary_T_helper_naive_cells_from_peripheral_blood__H3K9ac	9.97504e-07	7.12126e-05	True
Primary_T_helper_cells_PMA-I_stimulated__H3K4me3	8.43673e-07	7.47417e-05	True
Fetal_Thymus__H3K4me1	1.77846e-07	9.4868e-05	True
Primary_T_helper_naive_cells_from_peripheral_blood_2__H3K4me1	2.30984e-07	0.000183853	True
Primary_mononuclear_cells_from_peripheral_blood__H3K27ac	9.06291e-07	0.000202442	True
Primary_T_cells_effector_memory_enriched_from_peripheral_blood__H3K4me3	1.05356e-06	0.000214694	True
Primary_Natural_Killer_cells_from_peripheral_blood__H3K27ac	3.81869e-07	0.000220813	True
Primary_T_helper_naive_cells_from_peripheral_blood_2__H3K27ac	4.0484e-07	0.000291675	True
Primary_T_cells_from_peripheral_blood__H3K4me3	1.13823e-06	0.000306746	True
Primary_T_killer_naive_cells_from_peripheral_blood__H3K27ac	6.29767e-07	0.000373771	True
Primary_Natural_Killer_cells_from_peripheral_blood__H3K36me3	1.81965e-07	0.000399931	True
Primary_T_regulatory_cells_from_peripheral_blood__H3K36me3	1.74994e-07	0.000576689	True
Primary_T_helper_naive_cells_from_peripheral_blood_1__H3K4me3	8.13154e-07	0.000665315	True
Primary_T_helper_memory_cells_from_peripheral_blood_2__H3K27ac	3.55674e-07	0.00106124	True
Primary_T_helper_naive_cells_from_peripheral_blood_2__H3K4me3	7.04566e-07	0.00107147	True
Fetal_Thymus__H3K36me3	1.20385e-07	0.00113147	True
Primary_T_killer_memory_cells_from_peripheral_blood__H3K4me3	7.48609e-07	0.00116664	True
Fetal_Thymus__H3K4me3	6.70216e-07	0.00128122	True
Primary_T_killer_naive_cells_from_peripheral_blood__H3K4me3	8.74212e-07	0.00136933	False
Primary_T_helper_cells_PMA-I_stimulated__H3K36me3	1.59406e-07	0.00143692	False
Primary_mononuclear_cells_from_peripheral_blood__H3K36me3	1.79986e-07	0.00156117	False
Stomach_ENTEX__H3K4me3	5.68426e-07	0.00167784	False
Primary_B_cells_from_cord_blood__H3K4me3	1.2586e-06	0.00179939	False
Primary_T_cells_from_cord_blood__H3K4me3	8.29588e-07	0.00232396	False
Primary_T_cells_from_peripheral_blood__H3K36me3	1.43202e-07	0.00270661	False
Rectal_Mucosa_Donor_29__H3K9ac	5.18216e-07	0.00328863	False
Esoph-Mucosa_ENTEX__H3K36me3	2.14615e-07	0.0037478	False
Fetal_Thymus__H3K27ac	2.04802e-07	0.00434521	False
Thymus__H3K4me1	2.51203e-07	0.00531904	False
Thymus__H3K4me3	5.8819e-07	0.00583595	False
SI-Term-Ileum_ENTEX__H3K27ac	1.37907e-07	0.00691732	False
Sigmoid_Colon__H3K36me3	2.42624e-07	0.00746956	False
Lung_ENTEX__H3K4me1	1.32668e-07	0.00991471	False
Spleen_ENTEX__H3K36me3	8.02107e-08	0.0101058	False
Primary_T_helper_memory_cells_from_peripheral_blood_2__H3K36me3	2.39085e-07	0.0198713	False
Primary_B_cells_from_peripheral_blood__H3K36me3	9.32534e-08	0.021228	False
Primary_T_helper_naive_cells_from_peripheral_blood_1__H3K36me3	1.59236e-07	0.022541	False
Primary_T_killer_memory_cells_from_peripheral_blood__H3K27ac	2.70096e-07	0.0256365	False
Primary_T_helper_memory_cells_from_peripheral_blood_1__H3K36me3	1.37632e-07	0.0283283	False
Adipose_Nuclei__H3K9ac	2.89839e-07	0.0288864	False
Sigmoid_Colon__H3K27ac	1.71909e-07	0.0309342	False
SI-Term-Ileum_ENTEX__H3K4me3	2.78734e-07	0.0426044	False
Primary_T_cells_effector_memory_enriched_from_peripheral_blood__H3K36me3	1.17018e-07	0.0475016	False
Primary_hematopoietic_stem_cells_short_term_culture__H3K4me1	1.17994e-07	0.0475484	False
Spleen__H3K27ac	1.28666e-07	0.0577577	False
Primary_neutrophils_from_peripheral_blood__H3K36me3	5.78274e-08	0.059491	False
Thymus__H3K36me3	1.67059e-07	0.0608966	False
Lung_ENTEX__H3K27ac	8.0566e-08	0.0613768	False
Primary_T_helper_cells_from_peripheral_blood__H3K36me3	6.36736e-08	0.0665694	False
Fetal_Muscle_Leg__DNase	1.18239e-07	0.076278	False
Lung_ENTEX__H3K36me3	7.64601e-08	0.0778504	False
Colonic_Mucosa__H3K9ac	2.9135e-07	0.0813192	False
Primary_monocytes_from_peripheral_blood__DNase	2.24661e-07	0.0982024	False
Fetal_Lung__H3K9ac	1.81009e-07	0.0988082	False
Primary_T_killer_memory_cells_from_peripheral_blood__H3K36me3	1.30534e-07	0.0993139	False
Rectal_Mucosa_Donor_29__H3K27ac	1.09001e-07	0.101496	False
Spleen__H3K4me3	1.96213e-07	0.103456	False
Spleen__H3K36me3	7.85397e-08	0.103739	False
Esoph-Mucosa_ENTEX__H3K4me3	2.04445e-07	0.110375	False
Colonic_Mucosa__H3K36me3	9.59012e-08	0.118304	False
Vagina_ENTEX__H3K4me3	2.32913e-07	0.120459	False
Colon-TV_ENTEX__H3K4me3	2.74085e-07	0.123954	False
Primary_T_killer_naive_cells_from_peripheral_blood__H3K36me3	1.11385e-07	0.124089	False
Rectal_Mucosa_Donor_29__H3K36me3	8.99513e-08	0.131216	False
Brain_Dorsolateral_Prefrontal_Cortex__H3K9ac	1.6614e-07	0.137861	False
Primary_monocytes_from_peripheral_blood__H3K36me3	4.13227e-08	0.138583	False
Primary_B_cells_from_cord_blood__H3K36me3	2.16775e-07	0.1389	False
Mammary_ENTEX__H3K27ac	4.99137e-08	0.13993	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Male__DNase	1.77251e-07	0.142248	False
Uterus_ENTEX__H3K27ac	4.88077e-08	0.158299	False
Duodenum_Mucosa__H3K9ac	1.51305e-07	0.158918	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Female__DNase	1.42309e-07	0.164193	False
Primary_neutrophils_from_peripheral_blood__H3K4me3	1.73748e-07	0.171389	False
Small_Intestine__H3K4me3	2.58805e-07	0.172034	False
Stomach_ENTEX__H3K27ac	4.44686e-08	0.187503	False
Spleen__H3K4me1	8.23384e-08	0.187644	False
Small_Intestine__H3K36me3	1.55258e-07	0.192889	False
Rectal_Mucosa_Donor_29__H3K4me3	1.32559e-07	0.193805	False
Breast_Myoepithelial_Primary_Cells__H3K9ac	1.08428e-07	0.196519	False
Liver__H3K36me3	3.37815e-08	0.198666	False
Vagina_ENTEX__H3K27ac	4.21388e-08	0.202435	False
Mammary_ENTEX__H3K4me1	1.17209e-07	0.216286	False
Ovary__DNase	8.79302e-08	0.218535	False
Rectal_Mucosa_Donor_29__H3K4me1	7.51158e-08	0.220433	False
Primary_hematopoietic_stem_cells__H3K4me1	8.85124e-08	0.23248	False
Nerve-Tibial_ENTEX__H3K4me1	3.61473e-08	0.233298	False
Rectal_Mucosa_Donor_31__H3K36me3	5.13852e-08	0.235899	False
Sigmoid_Colon__H3K4me3	1.96163e-07	0.245535	False
Primary_monocytes_from_peripheral_blood__H3K4me1	3.42354e-08	0.25576	False
Fetal_Muscle_Trunk__DNase	6.13998e-08	0.261285	False
Primary_T_helper_naive_cells_from_peripheral_blood_2__H3K36me3	3.86257e-08	0.261964	False
Colon-Sigm_ENTEX__H3K36me3	5.15697e-08	0.264936	False
Aorta_ENTEX__H3K4me1	1.54768e-08	0.286211	False
Lung_ENTEX__H3K4me3	3.09705e-07	0.28904	False
Testis_ENTEX__H3K27ac	2.15269e-08	0.291906	False
Primary_monocytes_from_peripheral_blood__H3K4me3	1.60503e-07	0.294345	False
Fetal_Lung__DNase	5.09961e-08	0.295448	False
Thyroid_gland_ENTEX__H3K4me1	1.75514e-08	0.303501	False
Duodenum_Mucosa__H3K36me3	2.92456e-08	0.303592	False
Foreskin_Melanocyte_Primary_Cells_skin01__H3K27ac	8.3688e-08	0.304822	False
Nerve-Tibial_ENTEX__H3K4me3	1.1665e-07	0.30485	False
Stomach_Mucosa__H3K36me3	6.43427e-08	0.3283	False
Nerve-Tibial_ENTEX__H3K27ac	1.52538e-08	0.328884	False
Small_Intestine__DNase	4.63945e-08	0.336114	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Male__H3K4me3	6.11981e-08	0.349875	False
Primary_hematopoietic_stem_cells_short_term_culture__H3K36me3	2.23213e-08	0.353563	False
Fetal_Muscle_Leg__H3K27ac	2.57046e-08	0.360947	False
Adrenal_gland_ENTEX__H3K36me3	1.76037e-08	0.361018	False
Colon-TV_ENTEX__H3K36me3	3.27909e-08	0.362102	False
Right_Atrium__H3K36me3	4.57105e-08	0.374075	False
Small_Intestine__H3K27ac	2.8625e-08	0.375029	False
Mammary_ENTEX__H3K4me3	5.86695e-08	0.376955	False
Brain_Substantia_Nigra__H3K9ac	3.72932e-08	0.381242	False
Mammary_ENTEX__H3K36me3	1.62854e-08	0.387218	False
Fetal_Muscle_Trunk__H3K27ac	2.06906e-08	0.393794	False
Duodenum_Mucosa__H3K4me1	1.75594e-08	0.403007	False
Primary_neutrophils_from_peripheral_blood__H3K4me1	1.30826e-08	0.403694	False
Thyroid_gland_ENTEX__H3K36me3	1.13341e-08	0.414321	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Female__H3K27ac	1.92203e-08	0.416653	False
Adipose_Nuclei__H3K27ac	1.1933e-08	0.416664	False
Primary_hematopoietic_stem_cells__H3K4me3	6.53109e-08	0.417068	False
Fetal_Intestine_Small__DNase	3.0029e-08	0.420106	False
Lung__H3K36me3	1.48896e-08	0.422283	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Female__H3K36me3	9.17219e-09	0.42297	False
Ovary_ENTEX__H3K4me3	5.39036e-08	0.431989	False
Uterus_ENTEX__H3K4me3	4.86472e-08	0.437542	False
Esophagus__H3K4me3	2.93455e-08	0.454952	False
Foreskin_Melanocyte_Primary_Cells_skin01__H3K4me3	2.99553e-08	0.457835	False
Liver__H3K9ac	8.62536e-09	0.459035	False
Artery-Coronary_ENTEX__H3K27ac	4.67133e-09	0.461935	False
Colonic_Mucosa__H3K27ac	9.21281e-09	0.463295	False
Primary_hematopoietic_stem_cells_short_term_culture__H3K4me3	1.76984e-08	0.474657	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Female__H3K4me1	2.35218e-09	0.480323	False
Placenta__H3K4me3	1.17175e-08	0.48558	False
Aorta_ENTEX__H3K27ac	8.16537e-10	0.488129	False
Fetal_Muscle_Trunk__H3K4me1	8.59708e-10	0.491932	False
Rectal_Mucosa_Donor_31__H3K9ac	1.18616e-09	0.495986	False
Artery-Coronary_ENTEX__H3K4me3	1.06229e-09	0.496087	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Male__H3K4me1	-8.51529e-11	0.50064	False
Colon-TV_ENTEX__H3K4me1	-3.9204e-09	0.510712	False
Adipose_Nuclei__H3K36me3	-2.72596e-09	0.515683	False
Primary_hematopoietic_stem_cells__H3K36me3	-5.04061e-09	0.516782	False
SI-Term-Ileum_ENTEX__H3K36me3	-1.21739e-08	0.528808	False
Placenta__H3K27ac	-6.00231e-09	0.538596	False
Colonic_Mucosa__H3K4me1	-1.34932e-08	0.54446	False
Colonic_Mucosa__H3K4me3	-3.01995e-08	0.549323	False
Stomach_ENTEX__H3K36me3	-5.90848e-09	0.552553	False
Foreskin_Melanocyte_Primary_Cells_skin01__H3K36me3	-1.44246e-08	0.561827	False
Colon-Sigm_ENTEX__H3K4me1	-5.76866e-08	0.568005	False
Skeletal_Muscle_Female__H3K9ac	-1.85517e-08	0.569917	False
Adrenal_gland_ENTEX__H3K27ac	-7.09997e-09	0.573365	False
Esoph-GJ_ENTEX__H3K4me1	-1.0249e-08	0.581786	False
Brain_Inferior_Temporal_Lobe__H3K9ac	-1.97318e-08	0.582005	False
Rectal_Smooth_Muscle__H3K9ac	-4.52499e-08	0.587649	False
liver_ENTEX__H3K36me3	-1.35651e-08	0.587842	False
Ganglion_Eminence_derived_primary_cultured_neurospheres__H3K36me3	-1.7802e-08	0.588103	False
Stomach_ENTEX__H3K4me1	-1.43235e-08	0.592336	False
Lung__H3K4me3	-6.07053e-08	0.598719	False
Primary_monocytes_from_peripheral_blood__H3K27ac	-2.43247e-08	0.599711	False
skeletal_muscle_ENTEX__H3K36me3	-9.78342e-09	0.602167	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Female__H3K4me3	-6.284e-08	0.603252	False
Aorta_ENTEX__H3K4me3	-2.61112e-08	0.615354	False
Stomach_Mucosa__H3K9ac	-4.3224e-08	0.615786	False
Brain_Angular_Gyrus__H3K9ac	-3.64721e-08	0.621601	False
Adipose_Nuclei__H3K4me1	-2.08678e-08	0.625595	False
liver_ENTEX__H3K27ac	-1.09135e-08	0.626375	False
Rectal_Mucosa_Donor_31__H3K4me3	-6.45241e-08	0.633552	False
Pancreas_ENTEX__H3K36me3	-2.02577e-08	0.641658	False
Foreskin_Fibroblast_Primary_Cells_skin02__H3K4me3	-3.00006e-08	0.644292	False
Fetal_Intestine_Small__H3K36me3	-1.18853e-08	0.658236	False
Thyroid_gland_ENTEX__H3K27ac	-1.2622e-08	0.660367	False
Primary_T_cells_from_cord_blood__H3K36me3	-3.89477e-08	0.660705	False
SI-Term-Ileum_ENTEX__H3K4me1	-3.4239e-08	0.668877	False
Primary_hematopoietic_stem_cells_G-CSF-mobilized_Male__H3K36me3	-2.04606e-08	0.674247	False
Nerve-Tibial_ENTEX__H3K36me3	-2.65538e-08	0.678564	False
Skeletal_Muscle_Male__H3K9ac	-3.85845e-08	0.686352	False
Heart-LV_ENTEX__H3K4me1	-3.81578e-08	0.693826	False
Fetal_Adrenal_Gland__H3K4me3	-1.47973e-07	0.696482	False
Foreskin_Melanocyte_Primary_Cells_skin01__H3K4me1	-6.97567e-08	0.697375	False
NHLF_Lung_Fibroblast_Primary_Cells__H3K9ac	-1.06219e-07	0.697952	False
Esoph-Mucosa_ENTEX__H3K27ac	-3.17572e-08	0.699663	False
Colon-TV_ENTEX__H3K27ac	-2.66334e-08	0.706842	False
Fetal_Intestine_Large__H3K36me3	-2.65865e-08	0.708844	False
Foreskin_Melanocyte_Primary_Cells_skin03__H3K27ac	-4.22832e-08	0.724904	False
Gastric__H3K36me3	-3.97921e-08	0.726433	False
Fetal_Muscle_Leg__H3K4me1	-2.85529e-08	0.728226	False
Ovary__H3K27ac	-5.73795e-08	0.73218	False
Esoph-Muscularis_ENTEX__H3K4me1	-2.70004e-08	0.734564	False
Brain_Substantia_Nigra__H3K27ac	-2.78879e-08	0.742116	False
Placenta_Amnion__H3K27ac	-9.66741e-08	0.745358	False
Cortex_derived_primary_cultured_neurospheres__H3K36me3	-4.31593e-08	0.746052	False
skeletal_muscle_ENTEX__H3K4me1	-1.67234e-08	0.746169	False
Pancreatic_Islets__H3K27ac	-8.4348e-08	0.747507	False
Placenta__H3K4me1	-4.11993e-08	0.748601	False
Pancreas_ENTEX__H3K4me1	-2.35422e-08	0.750956	False
Placenta_Amnion__H3K4me3	-2.11106e-07	0.751999	False
Vagina_ENTEX__H3K36me3	-1.36234e-07	0.752297	False
Esoph-Muscularis_ENTEX__H3K4me3	-1.14431e-07	0.762805	False
Foreskin_Melanocyte_Primary_Cells_skin03__H3K36me3	-2.43041e-08	0.762945	False
Brain_Substantia_Nigra__H3K36me3	-8.15835e-08	0.765267	False
Brain_Anterior_Caudate__H3K36me3	-6.02605e-08	0.767251	False
Placenta__DNase	-6.93115e-08	0.77286	False
Fetal_Lung__H3K4me1	-3.94764e-08	0.788757	False
Fetal_Stomach__DNase	-1.54232e-07	0.799783	False
Duodenum_Mucosa__H3K4me3	-1.1455e-07	0.800517	False
Brain_Germinal_Matrix__H3K36me3	-7.04713e-08	0.801401	False
Foreskin_Melanocyte_Primary_Cells_skin03__H3K4me3	-1.86965e-07	0.802099	False
Placenta__H3K36me3	-4.67474e-08	0.803857	False
Stomach_Mucosa__H3K4me3	-2.07939e-07	0.804229	False
Fetal_Brain_Male__H3K4me3	-2.95348e-07	0.805925	False
Fetal_Stomach__H3K36me3	-3.45894e-08	0.806634	False
Esophagus__H3K36me3	-6.23205e-08	0.806862	False
Skin_tissue_ENTEX__H3K4me3	-2.35787e-07	0.806886	False
Brain_Anterior_Caudate__H3K9ac	-8.94952e-08	0.810551	False
Brain_Dorsolateral_Prefrontal_Cortex__H3K36me3	-7.08153e-08	0.813241	False
Fetal_Brain_Male__DNase	-9.42147e-08	0.820091	False
Aorta__H3K36me3	-1.93996e-07	0.822083	False
Esoph-Muscularis_ENTEX__H3K36me3	-5.07201e-08	0.825353	False
Psoas_Muscle__DNase	-1.00037e-07	0.830112	False
Colon_Smooth_Muscle__H3K9ac	-1.26698e-07	0.839163	False
Fetal_Muscle_Trunk__H3K36me3	-5.82013e-08	0.839307	False
Pancreas_ENTEX__H3K4me3	-1.70957e-07	0.841366	False
Testis_ENTEX__H3K4me3	-1.31999e-07	0.850912	False
Aorta_ENTEX__H3K36me3	-4.59778e-08	0.851633	False
Artery-Tibial_ENTEX__H3K4me1	-1.40268e-07	0.854146	False
Brain_Angular_Gyrus__H3K27ac	-5.62314e-08	0.85461	False
Esoph-GJ_ENTEX__H3K4me3	-1.67552e-07	0.864045	False
Heart-Atrial_ENTEX__H3K4me1	-2.48273e-07	0.864726	False
Brain_Cingulate_Gyrus__H3K9ac	-1.39632e-07	0.866	False
Fetal_Lung__H3K36me3	-5.7882e-08	0.866089	False
Heart-LV_ENTEX__H3K36me3	-7.52051e-08	0.866316	False
Pancreatic_Islets__H3K4me1	-4.82771e-08	0.867725	False
Fetal_Intestine_Large__DNase	-1.28668e-07	0.868626	False
Brain_Cingulate_Gyrus__H3K36me3	-8.68221e-08	0.87163	False
Ovary__H3K36me3	-8.59321e-08	0.87386	False
Gastric__H3K4me3	-2.24977e-07	0.877242	False
Breast_variant_Human_Mammary_Epithelial_Cells_(vHMEC)__H3K4me3	-2.3065e-07	0.880339	False
Gastric__H3K27ac	-1.35398e-07	0.881664	False
Rectal_Mucosa_Donor_31__H3K27ac	-8.59158e-08	0.88193	False
Gastric__DNase	-1.95553e-07	0.883882	False
Osteoblast_Primary_Cells__H3K36me3	-4.43406e-08	0.884745	False
Prostate_ENTEX__H3K4me3	-3.14991e-07	0.889428	False
Heart-Atrial_ENTEX__H3K4me3	-2.50193e-07	0.890866	False
Sigmoid_Colon__H3K4me1	-2.20224e-07	0.893658	False
Skeletal_Muscle_Female__H3K36me3	-6.99642e-08	0.894292	False
Esoph-Mucosa_ENTEX__H3K4me1	-6.47653e-08	0.894996	False
Fetal_Muscle_Leg__H3K36me3	-6.68699e-08	0.89678	False
NHLF_Lung_Fibroblast_Primary_Cells__H3K36me3	-1.31824e-07	0.898334	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__H3K4me3	-3.06593e-07	0.90404	False
Right_Ventricle__H3K36me3	-9.11438e-08	0.910927	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__H3K9ac	-2.60914e-07	0.912818	False
Pancreatic_Islets__H3K9ac	-2.79438e-07	0.913975	False
Brain_Inferior_Temporal_Lobe__H3K27ac	-6.0923e-08	0.917397	False
Left_Ventricle__H3K36me3	-9.98309e-08	0.917637	False
Fetal_Intestine_Large__H3K4me1	-7.07232e-08	0.917717	False
liver_ENTEX__H3K4me1	-2.6659e-07	0.918589	False
Fetal_Stomach__H3K4me1	-7.52562e-08	0.92171	False
Brain_Dorsolateral_Prefrontal_Cortex__H3K27ac	-7.5183e-08	0.92281	False
Foreskin_Melanocyte_Primary_Cells_skin03__H3K4me1	-5.8734e-08	0.923485	False
Fetal_Intestine_Small__H3K4me1	-7.3626e-08	0.925319	False
Liver__H3K4me1	-4.84315e-08	0.925589	False
Pancreas__H3K36me3	-1.11348e-07	0.926059	False
Placenta_Amnion__H3K36me3	-7.93706e-08	0.927774	False
Skeletal_Muscle_Male__H3K36me3	-9.81221e-08	0.9278	False
Brain_Cingulate_Gyrus__H3K27ac	-7.30465e-08	0.928644	False
Rectal_Smooth_Muscle__H3K4me3	-2.76533e-07	0.930179	False
Foreskin_Melanocyte_Primary_Cells_skin01__DNase	-1.39665e-07	0.931355	False
Liver__H3K27ac	-6.38977e-08	0.932151	False
Fetal_Intestine_Small__H3K27ac	-8.82584e-08	0.932417	False
Testis_ENTEX__H3K36me3	-3.63137e-07	0.934208	False
Ovary__H3K4me3	-3.09534e-07	0.934229	False
Fetal_Muscle_Leg__H3K4me3	-3.35065e-07	0.934281	False
Breast_variant_Human_Mammary_Epithelial_Cells_(vHMEC)__H3K36me3	-5.67214e-08	0.935432	False
Artery-Tibial_ENTEX__H3K36me3	-8.51919e-08	0.939586	False
Adrenal_gland_ENTEX__H3K4me3	-2.00273e-07	0.939648	False
NHLF_Lung_Fibroblast_Primary_Cells__H3K4me3	-4.44203e-07	0.942389	False
Fetal_Kidney__H3K9ac	-3.69655e-07	0.94732	False
Brain_Inferior_Temporal_Lobe__H3K36me3	-1.12397e-07	0.947676	False
Fetal_Intestine_Small__H3K4me3	-3.35103e-07	0.948364	False
Ganglion_Eminence_derived_primary_cultured_neurospheres__H3K4me3	-3.17911e-07	0.949272	False
Fetal_Intestine_Large__H3K27ac	-8.57972e-08	0.949382	False
Stomach_Smooth_Muscle__H3K9ac	-2.55814e-07	0.95175	False
Pancreatic_Islets__H3K4me3	-4.06515e-07	0.95338	False
Brain_Substantia_Nigra__H3K4me1	-7.96845e-08	0.955393	False
Small_Intestine__H3K4me1	-2.02704e-07	0.956064	False
HMEC_Mammary_Epithelial_Primary_Cells__H3K36me3	-1.4343e-07	0.957246	False
Psoas_Muscle__H3K36me3	-2.08166e-07	0.957341	False
Brain_Hippocampus_Middle__H3K27ac	-7.91485e-08	0.958311	False
Brain_Substantia_Nigra__H3K4me3	-3.23071e-07	0.958728	False
Colon_Smooth_Muscle__H3K36me3	-1.29284e-07	0.959189	False
Lung__H3K27ac	-1.33369e-07	0.95976	False
Fetal_Lung__H3K4me3	-3.17394e-07	0.960176	False
Aorta__H3K4me1	-1.89155e-07	0.960517	False
Brain_Germinal_Matrix__H3K4me1	-1.61367e-07	0.961584	False
Rectal_Smooth_Muscle__H3K36me3	-2.19378e-07	0.962899	False
Breast_Myoepithelial_Primary_Cells__H3K36me3	-8.64677e-08	0.963767	False
Fetal_Kidney__H3K4me1	-2.61378e-07	0.965177	False
Heart-Atrial_ENTEX__H3K36me3	-9.10258e-08	0.965899	False
Brain_Cingulate_Gyrus__H3K4me3	-3.16707e-07	0.966398	False
Fetal_Brain_Female__DNase	-1.67248e-07	0.967479	False
Pancreas__DNase	-2.75469e-07	0.968101	False
Pancreas_ENTEX__H3K27ac	-7.03149e-08	0.969299	False
Aorta__H3K4me3	-4.34916e-07	0.969677	False
Duodenum_Smooth_Muscle__H3K36me3	-1.40802e-07	0.970236	False
Thyroid_gland_ENTEX__H3K4me3	-2.68001e-07	0.97067	False
Fetal_Kidney__DNase	-2.25164e-07	0.97152	False
Fetal_Brain_Female__H3K4me1	-1.30093e-07	0.971792	False
Rectal_Mucosa_Donor_31__H3K4me1	-1.27356e-07	0.971996	False
Psoas_Muscle__H3K27ac	-1.62784e-07	0.972861	False
Brain_Hippocampus_Middle__H3K4me3	-2.77263e-07	0.973302	False
liver_ENTEX__H3K4me3	-1.83263e-07	0.974116	False
Heart-LV_ENTEX__H3K4me3	-3.29474e-07	0.97475	False
Brain_Angular_Gyrus__H3K36me3	-1.85009e-07	0.975075	False
skeletal_muscle_ENTEX__H3K27ac	-4.14918e-08	0.976369	False
Adrenal_gland_ENTEX__H3K4me1	-9.78223e-08	0.977414	False
Brain_Hippocampus_Middle__H3K36me3	-1.45816e-07	0.978545	False
Placenta_Amnion__H3K4me1	-1.17957e-07	0.97889	False
Colon-Sigm_ENTEX__H3K4me3	-5.27714e-07	0.979505	False
Fetal_Adrenal_Gland__H3K4me1	-1.00636e-07	0.979572	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__H3K36me3	-2.3303e-07	0.980389	False
Fetal_Adrenal_Gland__H3K36me3	-9.80387e-08	0.980586	False
Foreskin_Fibroblast_Primary_Cells_skin01__DNase	-2.36917e-07	0.980638	False
Brain_Inferior_Temporal_Lobe__H3K4me3	-3.17052e-07	0.980678	False
Breast_Myoepithelial_Primary_Cells__H3K4me3	-3.25402e-07	0.981097	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__DNase	-2.29762e-07	0.981101	False
Ganglion_Eminence_derived_primary_cultured_neurospheres__H3K4me1	-1.49436e-07	0.982205	False
Foreskin_Keratinocyte_Primary_Cells_skin03__H3K36me3	-6.26684e-08	0.982684	False
Brain_Anterior_Caudate__H3K27ac	-1.01742e-07	0.982892	False
Foreskin_Fibroblast_Primary_Cells_skin02__DNase	-2.2756e-07	0.983562	False
Brain_Germinal_Matrix__H3K4me3	-4.42029e-07	0.985018	False
Ovary_ENTEX__H3K36me3	-4.92716e-07	0.985028	False
Pancreas__H3K4me3	-4.44441e-07	0.985473	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__H3K36me3	-1.03587e-07	0.985601	False
Fetal_Stomach__H3K4me3	-5.53495e-07	0.985901	False
Brain_Angular_Gyrus__H3K4me3	-3.97203e-07	0.986427	False
Skeletal_Muscle_Female__H3K4me3	-2.67216e-07	0.987436	False
Brain_Hippocampus_Middle__H3K4me1	-8.79985e-08	0.98757	False
Brain_Inferior_Temporal_Lobe__H3K4me1	-1.42156e-07	0.987613	False
Stomach_Mucosa__H3K4me1	-1.03507e-07	0.988151	False
Prostate_ENTEX__H3K36me3	-7.16962e-07	0.98916	False
Fetal_Adrenal_Gland__H3K27ac	-9.57184e-08	0.989263	False
Heart-LV_ENTEX__H3K27ac	-8.75203e-08	0.989631	False
Fetal_Brain_Female__H3K4me3	-4.11664e-07	0.990143	False
Breast_variant_Human_Mammary_Epithelial_Cells_(vHMEC)__DNase	-2.69293e-07	0.990263	False
Fetal_Brain_Female__H3K36me3	-1.45548e-07	0.990438	False
Skeletal_Muscle_Female__H3K27ac	-1.24492e-07	0.990552	False
Foreskin_Keratinocyte_Primary_Cells_skin02__H3K36me3	-1.18219e-07	0.991801	False
Esoph-GJ_ENTEX__H3K27ac	-1.21108e-07	0.991887	False
Ovary__H3K4me1	-1.72285e-07	0.992236	False
Right_Atrium__H3K4me3	-4.92963e-07	0.992293	False
Psoas_Muscle__H3K4me1	-2.2071e-07	0.992343	False
Fetal_Kidney__H3K4me3	-6.10908e-07	0.992544	False
Cortex_derived_primary_cultured_neurospheres__H3K4me3	-6.40129e-07	0.99278	False
Esophagus__H3K4me1	-2.22757e-07	0.992812	False
Heart-Atrial_ENTEX__H3K27ac	-8.23456e-08	0.993057	False
Brain_Dorsolateral_Prefrontal_Cortex__H3K4me1	-1.78165e-07	0.993169	False
Fetal_Brain_Male__H3K4me1	-1.05895e-07	0.993233	False
Osteoblast_Primary_Cells__H3K4me3	-3.90328e-07	0.993365	False
Right_Ventricle__H3K27ac	-1.54622e-07	0.993365	False
Brain_Anterior_Caudate__H3K4me3	-3.67141e-07	0.993784	False
Foreskin_Fibroblast_Primary_Cells_skin02__H3K4me1	-1.31956e-07	0.994102	False
Foreskin_Fibroblast_Primary_Cells_skin01__H3K4me3	-2.68174e-07	0.994438	False
Adipose_Nuclei__H3K4me3	-3.29605e-07	0.994561	False
Fetal_Adrenal_Gland__DNase	-2.70723e-07	0.994625	False
HMEC_Mammary_Epithelial_Primary_Cells__DNase	-2.63995e-07	0.99484	False
Aorta__H3K27ac	-1.9292e-07	0.995025	False
Pancreas__H3K27ac	-2.85237e-07	0.995148	False
Fetal_Muscle_Trunk__H3K4me3	-6.6557e-07	0.995278	False
Left_Ventricle__H3K4me3	-5.77163e-07	0.995411	False
Foreskin_Fibroblast_Primary_Cells_skin02__H3K36me3	-1.16646e-07	0.996082	False
Right_Ventricle__H3K4me1	-2.04052e-07	0.996134	False
Right_Atrium__H3K27ac	-2.00125e-07	0.996265	False
Brain_Angular_Gyrus__H3K4me1	-1.57753e-07	0.996424	False
Skeletal_Muscle_Male__H3K4me1	-1.43624e-07	0.996626	False
Fetal_Kidney__H3K36me3	-4.4085e-07	0.996702	False
Cortex_derived_primary_cultured_neurospheres__H3K4me1	-1.45286e-07	0.996803	False
skeletal_muscle_ENTEX__H3K4me3	-2.58908e-07	0.996832	False
HMEC_Mammary_Epithelial_Primary_Cells__H3K4me3	-5.41855e-07	0.996976	False
Osteoblast_Primary_Cells__H3K4me1	-1.20535e-07	0.997002	False
Brain_Cingulate_Gyrus__H3K4me1	-1.40237e-07	0.997197	False
Colon-Sigm_ENTEX__H3K27ac	-1.53258e-07	0.997228	False
Fetal_Intestine_Large__H3K4me3	-5.19473e-07	0.997486	False
Skeletal_Muscle_Male__H3K4me3	-4.02238e-07	0.997499	False
Fetal_Stomach__H3K27ac	-2.03371e-07	0.997516	False
Foreskin_Fibroblast_Primary_Cells_skin01__H3K36me3	-1.13261e-07	0.997733	False
Foreskin_Keratinocyte_Primary_Cells_skin02__DNase	-2.65887e-07	0.997987	False
Rectal_Smooth_Muscle__H3K27ac	-1.59822e-07	0.998277	False
Esoph-Muscularis_ENTEX__H3K27ac	-1.52851e-07	0.998353	False
Lung__H3K4me1	-2.80344e-07	0.998523	False
NHLF_Lung_Fibroblast_Primary_Cells__DNase	-3.05577e-07	0.998548	False
Duodenum_Smooth_Muscle__H3K27ac	-2.83571e-07	0.99871	False
Gastric__H3K4me1	-2.98534e-07	0.998725	False
Left_Ventricle__H3K4me1	-2.36874e-07	0.998875	False
NHLF_Lung_Fibroblast_Primary_Cells__H3K4me1	-2.6727e-07	0.998949	False
Right_Ventricle__H3K4me3	-6.1794e-07	0.999052	False
Liver__H3K4me3	-2.91345e-07	0.999209	False
Breast_Myoepithelial_Primary_Cells__H3K4me1	-1.11873e-07	0.999238	False
Foreskin_Keratinocyte_Primary_Cells_skin02__H3K4me3	-5.54011e-07	0.999415	False
Right_Atrium__H3K4me1	-3.15536e-07	0.999449	False
Stomach_Smooth_Muscle__H3K36me3	-2.47279e-07	0.999504	False
Skeletal_Muscle_Female__H3K4me1	-1.40446e-07	0.999555	False
Esophagus__H3K27ac	-2.40326e-07	0.999569	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__H3K27ac	-3.53999e-07	0.999606	False
Foreskin_Fibroblast_Primary_Cells_skin02__H3K27ac	-2.10024e-07	0.999646	False
Duodenum_Smooth_Muscle__H3K4me3	-4.03607e-07	0.999649	False
NHDF-Ad_Adult_Dermal_Fibroblast_Primary_Cells__H3K4me1	-2.35875e-07	0.999657	False
Left_Ventricle__H3K27ac	-1.6501e-07	0.999673	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__H3K9ac	-3.0246e-07	0.999717	False
Fetal_Brain_Male__H3K36me3	-7.87595e-07	0.999738	False
Brain_Dorsolateral_Prefrontal_Cortex__H3K4me3	-5.40993e-07	0.999752	False
Pancreatic_Islets__H3K36me3	-3.40033e-07	0.999832	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__H3K4me1	-1.70842e-07	0.999859	False
Osteoblast_Primary_Cells__H3K27ac	-1.59858e-07	0.999868	False
Foreskin_Fibroblast_Primary_Cells_skin01__H3K4me1	-1.67719e-07	0.999871	False
Rectal_Smooth_Muscle__H3K4me1	-2.44879e-07	0.999876	False
Colon_Smooth_Muscle__H3K27ac	-1.96608e-07	0.999878	False
NHLF_Lung_Fibroblast_Primary_Cells__H3K27ac	-3.02644e-07	0.999882	False
Colon_Smooth_Muscle__H3K4me1	-1.72281e-07	0.999901	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__DNase	-3.5775e-07	0.999912	False
Psoas_Muscle__H3K4me3	-1.16916e-06	0.999925	False
Brain_Anterior_Caudate__H3K4me1	-1.99492e-07	0.99993	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__H3K27ac	-2.07922e-07	0.999931	False
Colon_Smooth_Muscle__H3K4me3	-5.71399e-07	0.999932	False
HMEC_Mammary_Epithelial_Primary_Cells__H3K9ac	-4.02304e-07	0.99994	False
Breast_variant_Human_Mammary_Epithelial_Cells_(vHMEC)__H3K4me1	-2.10275e-07	0.99995	False
Foreskin_Keratinocyte_Primary_Cells_skin02__H3K4me1	-2.66917e-07	0.999954	False
Fetal_Heart__DNase	-2.15895e-07	0.999964	False
Prostate_ENTEX__H3K27ac	-1.84191e-07	0.999969	False
Foreskin_Keratinocyte_Primary_Cells_skin03__H3K4me1	-1.89738e-07	0.999973	False
Foreskin_Keratinocyte_Primary_Cells_skin03__H3K27ac	-2.26553e-07	0.999974	False
Foreskin_Keratinocyte_Primary_Cells_skin03__H3K4me3	-6.37956e-07	0.999988	False
Fetal_Heart__H3K9ac	-2.16747e-07	0.999989	False
Fetal_Heart__H3K36me3	-4.93881e-07	0.999989	False
Pancreas__H3K4me1	-2.55723e-07	0.999993	False
Foreskin_Fibroblast_Primary_Cells_skin01__H3K27ac	-2.7189e-07	0.999996	False
NHEK-Epidermal_Keratinocyte_Primary_Cells__H3K4me3	-5.34735e-07	0.999996	False
HMEC_Mammary_Epithelial_Primary_Cells__H3K27ac	-2.50917e-07	0.999997	False
Stomach_Smooth_Muscle__H3K27ac	-2.04839e-07	0.999998	False
Duodenum_Smooth_Muscle__H3K4me1	-3.53369e-07	0.999999	False
Stomach_Smooth_Muscle__H3K4me3	-5.20674e-07	0.999999	False
Fetal_Heart__H3K4me1	-1.41567e-07	1	False
HMEC_Mammary_Epithelial_Primary_Cells__H3K4me1	-2.84347e-07	1	False
Fetal_Heart__H3K4me3	-4.7274e-07	1	False
Stomach_Smooth_Muscle__H3K4me1	-2.95489e-07	1	False

Epigenic reference data reinforces the point made by the GTEx and Franke lab reference data: the key cell types pertain to the immune system.

ImmGen data

Next, I applied S-LDSC using the ImmGen project reference dataset.

Fullscreen Plot ⤢

Immgen — full results

Name	Coefficient	Coefficient_P_value	Reject Null
T.4.Pa.BDC	4.975e-08	7.972e-06	True
ABD.TR.14w.B6	3.38381e-08	1.13445e-05	True
B.T2.Sp	3.0194e-08	2.19658e-05	True
T.4Mem.Sp	3.25165e-08	5.27918e-05	True
NKT.4+.Lv	3.12093e-08	5.36848e-05	True
NKT.44-NK1.1-.Th	3.24971e-08	5.48612e-05	True
NKT.4-.Lv	2.8576e-08	8.09969e-05	True
B.FrF.BM	2.9627e-08	8.70955e-05	True
T.4int8+.Th	4.17609e-08	8.98952e-05	True
T.8Mem.Sp.OT1.d45.LisOva	2.78417e-08	0.000112619	True
CD19Control	2.64117e-08	0.00015929	True
T.4Mem44h62l.Sp	2.95053e-08	0.000179081	True
B.FrE.BM	2.77928e-08	0.000197739	True
T.4Mem.LN	3.28143e-08	0.000213289	True
CD4Control	3.79902e-08	0.000215373	True
T.8Mem.Sp.OT1.d100.LisOva	2.99309e-08	0.000227363	True
T.4.PLN.BDC	4.40628e-08	0.000257141	True
NKT.4-.Sp	2.48151e-08	0.000299656	True
T.8SP69+.Th	2.97673e-08	0.000316072	True
T.4.LN.BDC	3.2699e-08	0.000372365	True
B.T1.Sp	2.56912e-08	0.000435341	True
T.4SP69+.Th	3.76544e-08	0.000521433	True
T.8Nve.MLN	2.75471e-08	0.000668965	True
Tgd.vg2-.act.Sp	2.36651e-08	0.000681533	True
Tgd.vg2+.Sp	2.6239e-08	0.000682242	True
T.8Nve.LN	3.09604e-08	0.000697891	True
B1a.Sp	2.72747e-08	0.000774215	True
B.MZ.Sp	2.5932e-08	0.000774865	True
CD8.5h.LN	3.34987e-08	0.00107555	False
Tgd.vg2-.Sp.TCRbko	2.28197e-08	0.0010945	False
NKT.4+.Sp	2.6313e-08	0.00111816	False
T.8Nve.Sp.OT1	2.84226e-08	0.00113498	False
T.4FP3+25+.Sp	2.84085e-08	0.00114898	False
T.8Eff.Sp.OT1.d10.LisOva	2.60419e-08	0.00130009	False
LN.TR.14w.B6	3.3902e-08	0.00144397	False
DC.8-4-11b-.SLN	2.29743e-08	0.00151554	False
T.8Eff.Sp.OT1.d6.VSVOva	2.44791e-08	0.00155742	False
DC.IIhilang+103+11blo.SLN	2.17651e-08	0.00156078	False
T.DP.Th.v2	2.72947e-08	0.00157578	False
CD4.5h.LN	2.90796e-08	0.00168685	False
T.4Nve.Sp	3.41685e-08	0.00172335	False
T.4Mem44h62l.LN	2.86661e-08	0.00177068	False
T.8Mem.Sp	2.70222e-08	0.00180415	False
DC.8+.SLN	2.17468e-08	0.00185083	False
T.4SP24-.Th	2.81169e-08	0.00196284	False
T.DP.69-.e17.Th.v2	2.84944e-08	0.00205019	False
T.8Eff.Sp.OT1.d15.LisOva	2.23825e-08	0.00215421	False
T.8SP24-.Th	2.60481e-08	0.00223817	False
T.8Eff.Sp.OT1.d15.VSVOva	1.99852e-08	0.00243542	False
T.8Mem.Sp.OT1.d45.VSVOva	2.50775e-08	0.00249604	False
T.8Eff.Sp.OT1.12hr.LisOva	2.69614e-08	0.00253362	False
B.Mem.Sp.v2	2.08409e-08	0.00289353	False
B.T3.Sp	2.10137e-08	0.00332648	False
preT.DN2-3.Th	3.62047e-08	0.00338087	False
Tgd.vg2-.Sp	1.96459e-08	0.00365787	False
T.8Eff.Sp.OT1.d8.LisOva	2.27559e-08	0.00420755	False
T.DPbl.Th	2.9235e-08	0.00442476	False
DC.8-4-11b+.MLN	1.92803e-08	0.00454668	False
B.Fo.PC	2.05006e-08	0.00468292	False
B1b.PC	2.208e-08	0.00473979	False
T.4FP3-.Sp	2.7732e-08	0.00475811	False
DC.8-4-11b-.MLN	1.96632e-08	0.00486801	False
T.DN4.Th	2.98206e-08	0.00526775	False
T.4Nve.LN	2.31167e-08	0.00549225	False
T.4SP24int.Th	2.90162e-08	0.00573918	False
preT.DN2B.Th	3.03398e-08	0.00575071	False
preT.DN3A.Th	3.33601e-08	0.00626735	False
preT.DN3B.Th	2.73115e-08	0.00635732	False
T.8Mem.LN	1.92649e-08	0.00653291	False
Tgd.vg2+24ahi.Th	2.66973e-08	0.00664761	False
Tgd.vg2+.Sp.TCRbko	1.64946e-08	0.00667566	False
T.DP69+.Th.v2	2.59668e-08	0.00674311	False
Tgd.vg2+.act.Sp	2.04717e-08	0.00703547	False
T.8Eff.Sp.OT1.d8.VSVOva	2.19821e-08	0.00705421	False
T.8SP24int.Th	2.5542e-08	0.00710954	False
T.ISP.Th	2.70173e-08	0.00714623	False
preT.DN2.Th	2.57326e-08	0.00732927	False
B.Fo.MLN	1.88786e-08	0.00794252	False
DC.IIhilang+103-11b+.SLN	1.55189e-08	0.00840612	False
NKT.44+NK1.1+.Th	2.10465e-08	0.00873143	False
Tgd.vg4+24alo.e17.Th	1.68661e-08	0.0111033	False
CD8.1h.LN	2.23262e-08	0.0111442	False
preT.ETP-2A.Th	1.89194e-08	0.0117122	False
B.FrE.FL	1.86628e-08	0.0117162	False
T.4Nve.PP	2.31846e-08	0.011755	False
B1a.PC	1.77379e-08	0.0126076	False
T.8Nve.Sp	1.71822e-08	0.0128381	False
T.8Mem.Sp.OT1.d106.VSVOva	1.57504e-08	0.0137632	False
DC.8-4-11b+.SLN	1.52013e-08	0.0152557	False
DC.IIhilang-103-11blo.SLN	1.51234e-08	0.0154038	False
CD4.CTR.LN	1.72004e-08	0.0158192	False
Tgd.vg1+vd6-24ahi.Th	1.73979e-08	0.0158239	False
MLP.BM	1.72063e-08	0.0158924	False
DC.103-11b+24+.Lu	1.47682e-08	0.0173327	False
NK.H+.MCMV1.Sp	1.6263e-08	0.0175051	False
Tgd.Th	2.40792e-08	0.0176583	False
T.DP69+.Th	2.22952e-08	0.0178098	False
T.8Eff.Sp.OT1.24hr.LisOva	1.9257e-08	0.0183147	False
NK.DAP10-.Sp	1.5499e-08	0.019386	False
T.4+8int.Th	1.87583e-08	0.0208662	False
Tgd.vg1+vd6-24alo.Th	1.32071e-08	0.020924	False
NK.b2m-.Sp	1.59683e-08	0.0213551	False
T.DPsm.Th	2.13749e-08	0.0224963	False
SC.STSL.BM	1.4321e-08	0.0227964	False
DC.8+.Sp.ST	1.48067e-08	0.0233613	False
T.4Nve44-49d-11a-.Sp	1.75617e-08	0.0234957	False
DC.IIhilang-103-11b+.SLN	1.51581e-08	0.0237191	False
B.Fo.Sp	1.43237e-08	0.0245587	False
NKT.44+NK1.1-.Th	1.60938e-08	0.0250702	False
Tgd.vg1+vd6+24alo.Th	1.45464e-08	0.0319328	False
Tgd.vg4+24ahi.e17.Th	1.51012e-08	0.0324201	False
T.4Nve.MLN	1.52723e-08	0.0326615	False
CD4.48h.LN	2.08907e-08	0.0360519	False
T.8Eff.Tbet-.Sp.OT1.d6LisOVA	1.80962e-08	0.0386708	False
NK.H+.MCMV7.Sp	1.23662e-08	0.0393097	False
proB.CLP.BM	1.39044e-08	0.0393834	False
T.8Eff.Sp.OT1.d5.VSVOva	1.64895e-08	0.0401983	False
SC.MPP34F.BM	1.28838e-08	0.0404438	False
T.DP.Th	1.37099e-08	0.0419281	False
MF.103-11b+.Lu	1.12158e-08	0.0426826	False
CD8.48h.LN	1.8444e-08	0.0440489	False
NK.DAP12-.Sp	1.21335e-08	0.0444374	False
preT.DN3-4.Th	1.57588e-08	0.0456615	False
preT.ETP.Th	1.53692e-08	0.0469604	False
NK.Sp	1.21838e-08	0.0493732	False
NK.49H-.Sp	1.42758e-08	0.052367	False
NK.MCMV1.Sp	1.14442e-08	0.0557198	False
GN.Thio.PC	1.06586e-08	0.05857	False
Mo.6C+II-.LN	1.14223e-08	0.0607319	False
preB.FrC.BM	1.38713e-08	0.0614406	False
Tgd.Sp	1.14215e-08	0.061647	False
Tgd.vg1+vd6+24ahi.Th	1.41512e-08	0.0632633	False
proB.CLP.FL	1.376e-08	0.0663142	False
CD8.96h.LN	1.40296e-08	0.0663156	False
CD8.24h.LN	1.625e-08	0.0671289	False
CD4.24h.LN	1.50225e-08	0.0680096	False
DC.103+11b-.Lu	1.16175e-08	0.0707209	False
CD4.96h.LN	1.23958e-08	0.0708275	False
NK.49CI-.Sp	9.23679e-09	0.0730125	False
NK.CD127-.SI	1.13325e-08	0.0751192	False
SC.STSL.FL	1.03212e-08	0.0754587	False
DC.8-.Th	1.15057e-08	0.075851	False
SC.MDP.BM	1.34574e-08	0.0771183	False
Tgd.vg3+24ahi.e17.Th	1.05145e-08	0.0799338	False
MLP.FL	1.17298e-08	0.0848553	False
Tgd.vg5+24ahi.Th	1.14167e-08	0.0851146	False
MF.BM	1.41954e-08	0.0861847	False
preT.DN2A.Th	1.38106e-08	0.0863408	False
DC.4+.Sp.ST	8.69681e-09	0.0902032	False
T.8Eff.Sp.OT1.d6.LisOva	1.30987e-08	0.0906479	False
Tgd.vg2+24ahi.e17.Th.v2	1.05038e-08	0.0911199	False
T.4Eff49d+11a+.Sp.d8.LCMV	1.21489e-08	0.0958701	False
DC.8+.MLN	1.00529e-08	0.0995792	False
T.8Eff.Sp.OT1.48hr.LisOva	1.34415e-08	0.108251	False
NK.49CI+.Sp	8.31557e-09	0.118841	False
MF.11cloSer.Salm3.SI	8.38245e-09	0.123307	False
DC.103+11b-.Lv	8.15006e-09	0.123827	False
Mo.6C+II-.BM	1.03924e-08	0.134298	False
NK.49H+.Sp	9.077e-09	0.134561	False
Mo.6+2-.BL	6.69347e-09	0.137977	False
preB.FrD.FL	7.51676e-09	0.138496	False
DC.8+.Th	8.95901e-09	0.139543	False
DC.4+.SLN	6.653e-09	0.142464	False
Tgd.vg2+24alo.Th	8.24245e-09	0.143971	False
DC.103-11b+F4_80lo.Kd	7.01518e-09	0.151579	False
Tgd.vg2+24ahi.e17.Th	8.11777e-09	0.155827	False
proB.FrBC.FL	9.64035e-09	0.157761	False
CD8.CTR.LN	8.28866e-09	0.163361	False
T.8Nve.PP	6.3356e-09	0.176696	False
Mo.6C+II+.Bl	6.25835e-09	0.179197	False
T.8EffKLRG1+CD127-.Sp.d8.LisOVA	6.64265e-09	0.183584	False
DC.LC.Sk	6.33774e-09	0.191571	False
proB.FrBC.BM	6.90102e-09	0.192522	False
B.Fo.LN	6.69707e-09	0.201042	False
Mo.6C-IIint.Bl	5.45049e-09	0.208458	False
T.8Eff.Tbet+.Sp.OT1.d6LisOVA	7.6725e-09	0.214074	False
DC.4+.MLN	4.90409e-09	0.218631	False
ILC3.NKp46+.Rorgthi.SI	5.10643e-09	0.219782	False
Tgd.vg5+.act.IEL	5.44231e-09	0.224269	False
Mo.6C-II-.BM	7.03928e-09	0.228436	False
ILC1.CD127+.SI	5.33975e-09	0.22899	False
T.8MemKLRG1-CD127+.Sp.d8.LisOVA	5.37631e-09	0.232496	False
SC.GMP.BM	6.73506e-09	0.252029	False
NK.MCMV7.Sp	4.69969e-09	0.255569	False
Tgd.vg5-.IEL	4.20607e-09	0.259993	False
SC.ST34F.BM	4.59871e-09	0.266533	False
BA.Sp	4.11687e-09	0.270026	False
Tgd.vg5-.act.IEL	4.19293e-09	0.279487	False
SC.MEP.BM	5.02667e-09	0.28798	False
GN.UrAc.PC	3.55621e-09	0.315251	False
proB.FrA.BM	3.48149e-09	0.321652	False
GN.BM	5.16381e-09	0.322178	False
proB.FrA.FL	4.07635e-09	0.323308	False
GN.Bl	4.0297e-09	0.323376	False
DC.11b-.AT.v2	3.40257e-09	0.324901	False
GN.Arth.BM	3.51281e-09	0.329834	False
Mo.6+2+.BL	2.95498e-09	0.339204	False
CD4.1h.LN	2.97344e-09	0.340997	False
MF.169+11chi.SLN	2.59197e-09	0.343651	False
preB.FrD.BM	2.42993e-09	0.37153	False
DC.8-4-11b-.Sp	2.24485e-09	0.373947	False
MF.Thio5.II+480lo.PC	2.24265e-09	0.380553	False
BA.Bl	1.83382e-09	0.385443	False
Mo.6+2+.SLN	1.93222e-09	0.386467	False
T.4Mem49d+11a+.Sp.d30.LCMV	2.13444e-09	0.397687	False
Mo.Lu	1.7223e-09	0.403377	False
Eo.BL.v2	1.27637e-09	0.412836	False
GN.Arth.SynF	1.58797e-09	0.413637	False
MF.103-11b+.SI	1.26475e-09	0.424631	False
SC.LT34F.BM	1.26751e-09	0.426797	False
B1a.Sp.v2	3.28027e-10	0.477911	False
DC.pDC.8+.Sp	1.16174e-10	0.493394	False
MF.Microglia.CNS	-3.1341e-10	0.517189	False
MC.PC	-2.81285e-10	0.519042	False
Tgd.vg5+.IEL	-4.11391e-10	0.522379	False
ILC2.SI	-5.87425e-10	0.536988	False
DC.pDC.8+.SLN	-9.99043e-10	0.552501	False
MF.11cloSer.SI	-1.01161e-09	0.56049	False
DC.8-4-11b+.Sp	-1.01523e-09	0.562838	False
Mo.6C-II-.Bl	-1.17912e-09	0.56956	False
SC.CMP.BM.DR	-1.31673e-09	0.570584	False
B.GC.Sp	-1.51115e-09	0.573087	False
Ep.MEChi.Th	-1.23134e-09	0.574941	False
DC.pDC.8-.Sp	-1.33716e-09	0.578362	False
Mo.6C+II-.Bl	-1.45365e-09	0.585083	False
Mo.6+2+.MLN	-1.44417e-09	0.597506	False
GN.Bl.v2	-1.94697e-09	0.598784	False
MF.480hi.LV.Naive	-1.64806e-09	0.60755	False
MC.digest.PC	-1.84562e-09	0.625535	False
MF.Sbcaps.SLN	-2.01373e-09	0.631088	False
MEChi.GFP+.Adult.KO	-1.83612e-09	0.641396	False
Mo.6C-II+.Bl	-2.34755e-09	0.645647	False
SC.CDP.BM	-3.49153e-09	0.6467	False
MF.II+480lo.PC	-3.16649e-09	0.668276	False
Tgd.vg3+24alo.e17.Th	-3.78583e-09	0.673612	False
SC.LTSL.FL	-3.50132e-09	0.692334	False
MF.103-11b+.Salm3.SI	-3.69649e-09	0.702527	False
Ep.5wk.MEChi.Th	-3.13698e-09	0.727465	False
DC.pDC.8+.MLN	-4.12224e-09	0.728428	False
MF.AT.v2	-3.99385e-09	0.734174	False
NK.CD49b+.Lv	-4.31821e-09	0.741484	False
ILC3.NKp46-.4-.SI	-4.1216e-09	0.76399	False
DC.11b+.AT.v2	-5.33123e-09	0.774556	False
Ep.8wk.MEChi.Th	-3.66645e-09	0.775242	False
MC.Tr	-4.80568e-09	0.784625	False
MF.11c-11b+.Lu	-4.91503e-09	0.793064	False
MF.Thio5.II+480int.PC	-5.76265e-09	0.801947	False
ILC1.CD127+.Sp	-5.57665e-09	0.81247	False
MC.Es	-5.79682e-09	0.829514	False
MF.RP.Sp	-5.9156e-09	0.834941	False
LEC.MLN	-7.82264e-09	0.846539	False
MF.II-480hi.PC	-7.09945e-09	0.873602	False
MF.480int.LV.Naive	-7.81888e-09	0.875123	False
Ep.5wk.MEC.Sca1+.Th	-6.18918e-09	0.87581	False
Ep.8wk.CEC.Sca1+.Th	-6.35875e-09	0.882828	False
MEChi.GFP-.Adult	-6.02388e-09	0.891144	False
NK.CD127-.Sp	-7.5819e-09	0.900043	False
EO.AT.v2	-7.86844e-09	0.906385	False
MF.Medl.SLN	-7.89067e-09	0.910214	False
ILC3.NKp46-.4+.SI	-7.73896e-09	0.911736	False
MEChi.GFP+.Adult	-7.34971e-09	0.923687	False
Fi.MTS15+.Th	-1.10359e-08	0.935678	False
Ep.8wk.CEChi.Th	-8.58767e-09	0.936495	False
MC.Sk	-9.23661e-09	0.945201	False
Ep.8wk.MEClo.Th	-9.02334e-09	0.950382	False
MF.Alv.Lu	-1.10782e-08	0.959466	False
Ep.5wk.MEClo.Th	-9.46988e-09	0.962976	False
MF.Thio5.II-480hi.PC	-1.19671e-08	0.96941	False
MF.Thio5.II-480int.PC	-1.35053e-08	0.975712	False
MC.To	-1.12978e-08	0.977676	False
MF.F480hi.Gata6ko.PC	-1.4084e-08	0.981704	False
ILC1.CD49b-.Lv	-1.34336e-08	0.982113	False
BEC.SLN.OT	-1.29802e-08	0.984017	False
FRC.SLN.v2	-1.21656e-08	0.985987	False
LEC.SLN.OT	-1.41201e-08	0.987748	False
MF.Lu	-1.41817e-08	0.988236	False
LEC.SLN.v2	-1.42483e-08	0.989755	False
MF.F480hi.ctrl.PC	-1.42893e-08	0.99023	False
FRC.SLN.OT	-1.28882e-08	0.990377	False
BEC.SLN	-1.45029e-08	0.991959	False
MF.PPAR-.Lu	-1.57901e-08	0.991996	False
LEC.SLN	-1.59548e-08	0.994841	False
BEC.MLN	-1.5908e-08	0.995004	False
DN.SLN.CFA.d6.v2	-1.33972e-08	0.996149	False
LEC.SLN.CFA.d6.v2	-1.56809e-08	0.996609	False
FRC.SLN	-1.52642e-08	0.996621	False
FRC.SLN.CFA.d6.v2	-1.52204e-08	0.997014	False
FRC.Cad11.WT.v2	-1.50929e-08	0.997583	False
DN.SLN.v2	-1.60928e-08	0.999145	False
FRC.MLN	-1.98751e-08	0.999713	False
Fi.Sk	-2.06929e-08	0.999874	False
St.31-38-44-.SLN	-2.38983e-08	0.999995	False

Consistent with rheumatoid arthritis's known status as a disease of the adaptive immune system, we see that T and B cells are significant. The significance of natural killer cells is interesting, but may be explained by their transcriptional similarity to T cells.

Corces et al. ATAC-seq data

The results of applying S-LDSC using the epigenetic reference data from the Corces et al. ATAC-seq analysis of blood cells are shown in the expandable table below.

Corces et al. — full results

Name	Coefficient	Coefficient_P_value	Reject Null
CD4	6.48919e-07	1.41699e-06	True
Bcell	4.73635e-07	1.8515e-06	True
CD8	5.08936e-07	3.33316e-06	True
NK	3.2295e-07	0.0022569	True
Mono	2.44695e-07	0.0785836	False
GMP	4.77954e-08	0.296664	False
CLP	4.26822e-08	0.374375	False
LMPP	3.22558e-08	0.382152	False
MPP	-1.72026e-08	0.586523	False
MEP	-2.79862e-08	0.656196	False
HSC	-4.78144e-08	0.724579	False
CMP	-5.42132e-08	0.769155	False
Erythro	-1.05205e-07	0.79902	False

Again, T cells, B cells, and natural killer cells are significant, consistent with an adaptive-immune pathobiology.

Cahoy and GTEx-Brain data

The next two reference datasets pertain to the nervous system.

Cahoy — full results

Name	Coefficient	Coefficient_P_value	Reject Null
Astrocyte	1.50284e-09	0.419415	False
Neuron	-1.08644e-08	0.976058	False
Oligodendrocyte	-1.36417e-08	0.980619	False

GTEx brain — full results

Name	Coefficient	Coefficient_P_value	Reject Null
Brain_Cerebellar_Hemisphere	7.86325e-09	0.098209	False
Brain_Spinal_cord_(cervical_c-1)	7.4931e-09	0.104954	False
Brain_Cerebellum	6.85782e-09	0.135321	False
Brain_Amygdala	5.30924e-09	0.145494	False
Brain_Frontal_Cortex_(BA9)	1.79503e-09	0.352548	False
Brain_Substantia_nigra	1.39656e-09	0.409961	False
Brain_Nucleus_accumbens_(basal_ganglia)	8.23225e-10	0.42282	False
Brain_Hippocampus	-5.78536e-10	0.548024	False
Brain_Anterior_cingulate_cortex_(BA24)	-7.19487e-10	0.562187	False
Brain_Cortex	-1.37081e-09	0.603284	False
Brain_Putamen_(basal_ganglia)	-3.8677e-09	0.776704	False
Brain_Caudate_(basal_ganglia)	-6.67721e-09	0.936017	False
Brain_Hypothalamus	-1.001e-08	0.97536	False

Note of the cells or tissue types in these datasets are significant. This is consistent with RA being a non-neural disease.

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1. Hilary K Finucane, Yakir A Reshef, Verneri Anttila, Kamil Slowikowski, Alexander Gusev, Andrea Byrnes, Steven Gazal, Po-Ru Loh, Caleb Lareau, Noam Shoresh, and others. Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types. Nature Genetics, 50(4):621–629, 2018. URL: https://pmc.ncbi.nlm.nih.gov/articles/PMC5896795/. ↩

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