In [1]:
# Parameters
data_name = "Tbpl2"
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 02:23:27,116 [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 Tbpl2: M4708_1.02
Shared Cell types both TF-MoDISco and Homer finds Tbpl2
Cell typeModiscoHomer
immature B cells

Significance: 0.017530700000000003

Significance: 9.41756e-05

Act B cell

Significance: 0.0006646410000000001

Significance: 0.00910998

B1 B cells

Significance: 0.0290353

Significance: 0.00296472

GC B cells

Significance: 0.0280996

Significance: 0.0146666

plasma cells

Significance: 0.031763

Significance: 0.00175401

aBCD180

Significance: 0.00358567

Significance: 0.0754862

aB LPS+IL4

Significance: 0.00021316599999999998

Significance: 0.013649600000000001

aB LPS+IL21

Significance: 6.0953000000000004e-05

Significance: 0.000396984

Pre-PB

Significance: 0.040798900000000006

Significance: 0.024428599999999998

aB aCD40+IL4

Significance: 0.00469851

Significance: 9.18891e-05

Splenic B cell

Significance: 0.0398375

Significance: 0.00132891

ch12 with quintuple mt

Significance: 0.00378168

Significance: 0.0642783

ch12 wt

Significance: 0.016477900000000004

Significance: 0.00293817

ch12 med14 mt

Significance: 0.000484779

Significance: 0.00147943

ch12 wt with drug

Significance: 0.00440976

Significance: 0.022014099999999998

Unique Cell types only TF-MoDISco finds Tbpl2
Cell typeModiscoHomer
CD25CCR6 DN CD4 (memory CD4+ T cell)

Significance: 0.0517586

absent
Th17 CD4

Significance: 0.08911060000000001

absent
proB cells

Significance: 0.029245499999999997

absent
preB cells

Significance: 0.000165673

absent
mature B cells

Significance: 0.0363916

absent
aB LPS

Significance: 0.00695335

absent
aB LPS+a-d-dextran

Significance: 0.0041313999999999995

absent
spleen(adult-8wks)

Significance: 0.00912849

absent
Murine B-lymphoma cell line(A20 cell line)

Significance: 0.0346101

absent
eosinphils (ex-vivo, BalbC)

Significance: 0.000792341

absent
eosinophils (isolated from spleens, BalbC)

Significance: 0.000134838

absent
neutrophils

Significance: 0.04341230000000001

absent
Tfh from infected with LCMV

Significance: 0.0321113

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

Significance: 0.048317900000000004

absent
Tfr (CD4+CD44+CXCR5+PD1+CD25+) MUT

Significance: 0.0131833

absent
naive CD4+ T (CD4+ CD44-CD62L- CD25-) MUT

Significance: 0.00130746

absent
CD4+CD8-TCRhi CD25+ Foxp3-

Significance: 0.0118851

absent
CD4+CD8-TCRhi CD25-Foxp3+

Significance: 0.0687574

absent
DN3b

Significance: 0.00143598

absent
Large Intestine

Significance: 0.0007139039999999999

absent
spinal cord

Significance: 0.0188616

absent
pancreas

Significance: 0.000913576

absent
Eye- Neural retina

Significance: 0.000706119

absent
Eye- Optic nerve

Significance: 0.0192078

absent
Brain- Frontal Cortex

Significance: 0.0542018

absent
Brain- Putamen

Significance: 0.0557784

absent
Brain- Medulla Oblongata

Significance: 0.03805530000000001

absent
Brain- Sensorimotor Cortex

Significance: 0.0832534

absent
restingB

Significance: 0.00274556

absent
Long Term HSC

Significance: 0.0412733

absent
gamma delta TCR wt

Significance: 0.0474943

absent
gamma delta TCR Marco

Significance: 0.00393402

absent
gamma delta TCR M/S -/-

Significance: 0.0084074

absent
CH12.LX cell line

Significance: 0.0446241

absent
NCR+ILC3+IL23

Significance: 0.0180403

absent
ILC2

Significance: 0.00416698

absent
Th2 (Nippo infected)

Significance: 0.0324029

absent
Act B cell 24h

Significance: 0.00090511

absent
Act B cell 24h with oligomycin

Significance: 0.0168139

absent
Spleen CD8+ T cell(MPEC)

Significance: 0.060054899999999994

absent
NK cells (liver), CD19-CD3ε-NKp46+DX5+Trail-

Significance: 0.0668951

absent
ILC2+IL33+IL25

Significance: 3.88829e-05

absent
ILC2(WT)

Significance: 0.00022280099999999998

absent
ILC3(WT)

Significance: 0.0157678

absent
ILC1_AbxGermFree

Significance: 0.0232567

absent
ILC2_AbxGermFree

Significance: 0.00462031

absent
D7 effector TCR SV40-I CD8 T cells

Significance: 0.0333958

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

Significance: 0.0227976

absent
TCR SV40-I CD8 T cells isolated D7 from early malignant lesions

Significance: 0.026388299999999996

absent
memory TCR SV40-I CD8 T cells isolated D7 from established tumors (with listeria immunization)

Significance: 0.033653699999999995

absent
Bone marrow derived pre-B cell

Significance: 0.00629142

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

Significance: 0.0808535

absent
Ter119+ Erythroid cells

Significance: 0.0113647

absent
dendritic cell(100 ng/mL Lipopolysaccharide, 6hours)

Significance: 0.0870204

absent
dendritic cell(100 ng/mL Lipopolysaccharide, 2hours)

Significance: 0.001099

absent
WT rod photoreceptors,retina

Significance: 0.0724364

absent
green cone photoreceptors

Significance: 0.0671025

absent
WT cone photoreceptors

Significance: 0.0324744

absent
embryo_3rd rhombomere (E8.5, deltaA)

Significance: 0.0229722

absent
embryo_3rd rhombomere (E8.5, wt)

Significance: 0.0183022

absent
embryo_3rd rhombomere (E8.5, deltaC)

Significance: 0.03622569999999999

absent
embryo_5th rhombomere(E8.5, deltaC)

Significance: 0.0126627

absent
embryo_5th rhombomere(e9.5, wt)

Significance: 0.015183700000000001

absent
embryo_5th rhombomere (E8.5. deltaA)

Significance: 0.00646907

absent
embryo_posterior part (E9.5, WT)

Significance: 0.0157028

absent
embryo_posterior part (E8.5, wt)

Significance: 0.000233642

absent
adult skin epithelia

Significance: 0.0222541

absent
Cranial neural crest cells (E10.5,WT)

Significance: 0.000259021

absent
neural progenitor cells(F129)

Significance: 0.0217471

absent
neural progenitor cells(G4)

Significance: 0.031500400000000005

absent
neural progenitor cells(Ch13)

Significance: 0.0189058

absent
Cortical excitatory neurons

Significance: 0.00497559

absent
Granule Neuron Progenitors (wt)

Significance: 0.060377999999999994

absent
dendritic cell(100 ng/mL Lipopolysaccharide, 4hours)

Significance: 0.00022722200000000001

absent
Undifferentiated mouse embryonic stem cells (ZhBTc4)

Significance: 0.0130803

absent
Blast-cultured splenic CD4+ T-cells

Significance: 0.00319303

absent
Naive splenic CD4+ T-cells

Significance: 0.0406746

absent
Whole Brain (E14.5)

Significance: 0.00327976

absent
liver(P0)

Significance: 0.0009847360000000002

absent
Retina(newborn 1 day)

Significance: 0.0030906999999999996

absent
mixed embryonic mouse retina(E14.5)

Significance: 0.02935

absent
mixed embryonic mouse forebrain(E14.5)

Significance: 0.00427165

absent
forebrain(P0)

Significance: 1.32144e-05

absent
mixed embryonic mouse hindbrain(E11.5)

Significance: 0.024695500000000002

absent
mixed embryonic mouse midbrain(E14.5)

Significance: 0.00019171299999999999

absent
Unique Cell types only Homer finds Tbpl2
Cell typeModiscoHomer
MZ B cellsabsent

Significance: 0.0446809