In [1]:
# Parameters
data_name = "Rfx8"
task_idxs = "0-213,216-278"
homer_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_scans"
modisco_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_modisco2019"
In [2]:
from matlas.modisco_report import call_motifDB_to_be_displayed, display_comparative_cell_types

load data from labcluster

Using TensorFlow backend.
2019-07-26 01:52:56,809 [WARNING] git-lfs not installed
In [3]:
homer_matches, modisco_matches = call_motifDB_to_be_displayed(task_idxs, homer_root, modisco_root)
In [4]:
display_comparative_cell_types(data_name, homer_matches, modisco_matches)

TF-MoDISco is using the TensorFlow backend.

CISBP ID of Rfx8: M6076_1.02
Shared Cell types both TF-MoDISco and Homer finds Rfx8
Cell typeModiscoHomer
midbrain embryo(E11.5)

Significance: 1.3043199999999999e-05

Significance: 0.021343

Unique Cell types only TF-MoDISco finds Rfx8
Cell typeModiscoHomer
mixed embryonic mouse limb(E14.5)

Significance: 1.09486e-07

absent
Th17 CD4

Significance: 1.42714e-07

absent
embryo hindlimb buds (E11.5)

Significance: 8.25547e-06

absent
embryonic facial prominence(e11.5)

Significance: 7.46375e-09

absent
neural tube embryo(E11.5)

Significance: 1.19155e-05

absent
Large Intestine (adult-8wks)

Significance: 1.51145e-05

absent
mature B cells

Significance: 4.1878e-07

absent
skeletal muscle tissue(adult-8wks)

Significance: 4.7639299999999997e-07

absent
GC B cells

Significance: 4.71879e-08

absent
aB LPS

Significance: 6.04137e-07

absent
aB LPS+a-d-dextran

Significance: 8.746080000000001e-08

absent
activated non-Tfh (CD4+CD44+CXCR5-PD1-CD25-) WT

Significance: 1.38292e-07

absent
CD4+CD8+ CD69lo small (DP precursors)

Significance: 2.00821e-06

absent
CD4+CD8-TCRhi CD69hi CD24hi CD25-(B2m def mice)

Significance: 8.36563e-08

absent
CD4+CD8-TCRhi CD25+ Foxp3-

Significance: 1.07743e-07

absent
CD4+CD8-TCRhi CD25-Foxp3+

Significance: 3.1529200000000005e-06

absent
Erythroblasts

Significance: 2.5532499999999997e-07

absent
DP

Significance: 8.531700000000001e-08

absent
Large Intestine

Significance: 5.00535e-06

absent
Lung

Significance: 6.43984e-05

absent
Muscle

Significance: 1.03402e-05

absent
testis

Significance: 0.00517755

absent
spinal cord

Significance: 8.070669999999999e-08

absent
stomach

Significance: 4.49067e-06

absent
pancreas

Significance: 2.62735e-09

absent
Brain- Frontal Cortex

Significance: 5.20629e-07

absent
Brain- Medulla Oblongata

Significance: 3.1399e-07

absent
gamma delta TCR wt

Significance: 9.2514e-08

absent
NCR+ILC3

Significance: 1.0671699999999999e-07

absent
Act B cell 24h with oligomycin

Significance: 1.8966e-08

absent
WT retina

Significance: 1.42023e-07

absent
ILC2+IL33+IL25

Significance: 1.6616e-06

absent
ILC1(WT)

Significance: 6.78362e-10

absent
ILC2(WT)

Significance: 1.11193e-09

absent
ILC3(WT)

Significance: 3.5976599999999996e-06

absent
ILC3_AbxGermFree

Significance: 3.4178200000000005e-09

absent
Naive CD8+ T cell

Significance: 1.57087e-08

absent
CD8 Tcells(day35 post infection LCMV)

Significance: 6.88754e-09

absent
naive transgenic TCR SV40-I CD8 T cells

Significance: 5.16835e-10

absent
central memory TCR SV40-I CD8 T cells

Significance: 6.31585e-08

absent
TCR SV40-I CD8 T cells isolated D5 from early malignant lesions

Significance: 2.7386299999999997e-07

absent
TCR SV40-I CD8 T cells isolated D14 from early malignant lesions

Significance: 2.48922e-08

absent
memory TCR SV40-I CD8 T cells isolated D7 from established tumors (without listeria immunization)

Significance: 7.367619999999999e-06

absent
Splenic B cell

Significance: 1.3103799999999999e-07

absent
bone marrow-derived macrophages(Lipid A stimulation 120min)

Significance: 5.94485e-06

absent
rod photoreceptors

Significance: 2.68026e-11

absent
WT rod photoreceptors,retina

Significance: 4.95537e-09

absent
green cone photoreceptors

Significance: 4.88172e-07

absent
blue cone photoreceptors/NrlKO

Significance: 6.49349e-07

absent
WT cone photoreceptors

Significance: 1.5693899999999999e-06

absent
embryo_posterior part (E9.5, WT)

Significance: 2.8811599999999997e-05

absent
Mouse back skin

Significance: 6.76627e-05

absent
neural progenitor cells(F129)

Significance: 1.62576e-06

absent
neural progenitor cells(G4)

Significance: 2.73069e-05

absent
neural progenitor cells(mE6)

Significance: 1.2239200000000001e-05

absent
vasoactive intestinal peptide-positive (VIP) inhibitory neurons

Significance: 7.35802e-06

absent
Thymus MECs (Aire+/+)

Significance: 0.00011892

absent
ZHBTC4 ES untreated

Significance: 0.00307835

absent
ZHBTC4 ES doxycycline-treated

Significance: 0.000566062

absent
JM8.N4 Asynchronous

Significance: 2.5741900000000004e-06

absent
JM8.N4 Mitosis

Significance: 7.904739999999999e-07

absent
Megakaryocyte-erythroid progenitor cell

Significance: 5.09345e-08

absent
Whole Brain (adult-8wks)

Significance: 1.54247e-05

absent
mouse embryonic stem cells E14

Significance: 6.05796e-07

absent
Lung(adult-8wks)

Significance: 1.45151e-05

absent
heart tissue(P0)

Significance: 8.40927e-07

absent
Cerebellum

Significance: 8.628439999999999e-08

absent
forebrain(P0)

Significance: 1.78035e-05

absent
hindbrain embryo(E14.5)

Significance: 5.44557e-09

absent
mixed embryonic mouse midbrain(E14.5)

Significance: 1.21231e-05

absent
midbrain(P0)

Significance: 1.4773599999999999e-05

absent
Whole Brain(E14.5)

Significance: 5.92579e-06

absent
telencephalon tissue

Significance: 2.5559299999999995e-09

absent
Unique Cell types only Homer finds Rfx8
Cell typeModiscoHomer
embryo_5th rhombomere(E8.5, WT)absent

Significance: 0.0204194

E14 ES cellsabsent

Significance: 0.000256734

E16.5 sorted germ cells(wt)absent

Significance: 0.0006587230000000001

cholinergic motor neuron cell line MN1 treated with 10 nM methyltrienoloneabsent

Significance: 0.043039999999999995

Spleen CD8+ T cell(MPEC)absent

Significance: 0.0430173

naive CD4+ T (CD4+ CD44-CD62L- CD25-) MUTabsent

Significance: 0.0408924