# Parameters
data_name = "Tcfeb"
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"

from matlas.modisco_report import call_motifDB_to_be_displayed, display_comparative_cell_types

load data from labcluster

Using TensorFlow backend.
2019-07-26 02:33:46,565 [WARNING] git-lfs not installed

homer_matches, modisco_matches = call_motifDB_to_be_displayed(task_idxs, homer_root, modisco_root)

display_comparative_cell_types(data_name, homer_matches, modisco_matches)

TF-MoDISco is using the TensorFlow backend.

CISBP ID of Tcfeb: M0193_1.02

Shared Cell types both TF-MoDISco and Homer finds Tcfeb

Cell type	Modisco	Homer
mixed embryonic mouse limb(E14.5)	Significance: 0.000117815	Significance: 0.000303307
embryonic facial prominence(e14.5)	Significance: 9.723309999999999e-05	Significance: 0.00024954400000000004
cholinergic motor neuron cell line MN1 treated with 10 nM methyltrienolone	Significance: 6.58893e-05	Significance: 0.00019662
activated non-Tfh (CD4+CD44+CXCR5-PD1-CD25-) WT	Significance: 0.00022297	Significance: 0.000613371
embryo_3rd rhombomere (E8.5, deltaA)	Significance: 0.000190393	Significance: 0.002775
embryo_3rd rhombomere (E8.5, wt)	Significance: 9.10219e-05	Significance: 0.0153599
embryo_5th rhombomere(e9.5, wt)	Significance: 0.00011407	Significance: 0.00333095
CD4+CD8-TCRhi CD25-Foxp3+	Significance: 8.53889e-05	Significance: 0.00114809
ISP (Immature single positive)	Significance: 0.00021234599999999998	Significance: 0.00014942
ZHBTC4 ES untreated	Significance: 9.13973e-06	Significance: 0.000976423
Heart	Significance: 2.4162699999999998e-05	Significance: 0.00026982
JM8.N4 Mitosis	Significance: 0.000320335	Significance: 0.015778999999999998
gamma delta TCR wt	Significance: 0.00018691099999999997	Significance: 0.000605863
NK (+IL2+IL12)	Significance: 0.00011017799999999999	Significance: 0.018211500000000002
mouse embryonic stem cells E14	Significance: 2.05928e-05	Significance: 0.00424035
Act B cell 24h with oligomycin	Significance: 9.46933e-05	Significance: 0.00061252
ESC(129SV/Jae/C57BL6J)	Significance: 5.3103e-05	Significance: 0.00127462
WT retina	Significance: 0.000265311	Significance: 0.00139839
mixed embryonic mouse retina(E14.5)	Significance: 0.000108697	Significance: 0.000490209
Naive CD8+ T cell	Significance: 0.000284708	Significance: 0.00057014
hindbrain embryo(E14.5)	Significance: 5.41626e-05	Significance: 0.00126948

Unique Cell types only TF-MoDISco finds Tcfeb

Cell type	Modisco	Homer
naive CD8	Significance: 0.00010014	absent
CD25CCR6 DN CD4 (memory CD4+ T cell)	Significance: 0.00021114	absent
Th17 CD4	Significance: 0.00019329700000000002	absent
preB cells	Significance: 8.850979999999999e-05	absent
B1 B cells	Significance: 0.00014291	absent
GC B cells	Significance: 0.000234422	absent
plasma cells	Significance: 3.41203e-05	absent
aB LPS	Significance: 0.000263476	absent
aB aCD40+IL4	Significance: 0.00013293700000000002	absent
basophils	Significance: 0.00015952799999999998	absent
Tfh from infected with LCMV	Significance: 0.00021621400000000003	absent
Tfh (CD4+CD44+CXCR5+PD1+CD25-) WT	Significance: 0.00016769099999999998	absent
Tfr (CD4+CD44+CXCR5+PD1+CD25+) MUT	Significance: 0.000144754	absent
naive CD4+ T (CD4+ CD44-CD62L- CD25-) WT	Significance: 0.000227332	absent
naive CD4+ T (CD4+ CD44-CD62L- CD25-) MUT	Significance: 0.000222555	absent
CD4+CD8+ CD69lo large (DP precursors)	Significance: 0.00017071099999999999	absent
CD4+CD8+ CD69lo small (DP precursors)	Significance: 0.000199575	absent
CD4+CD8-TCRhi CD69lo CD24lo CD25- (B2m def mice)	Significance: 3.96064e-05	absent
CD4+CD8int TCRhi CD69hi CD24hi (MHCII def mice)	Significance: 0.000174328	absent
CD4+CD8-TCRhi CD25+ Foxp3-	Significance: 0.000166595	absent
CD4+CD8-TCRhi CD25+ Foxp3+	Significance: 0.000155675	absent
Erythroblasts	Significance: 0.00021366900000000002	absent
DP	Significance: 0.000298336	absent
DN3b	Significance: 0.000134884	absent
Large Intestine	Significance: 0.000208805	absent
Lung	Significance: 0.000474705	absent
testis	Significance: 0.00026744400000000004	absent
spinal cord	Significance: 6.92139e-05	absent
stomach	Significance: 0.00047248	absent
Eye- Neural retina	Significance: 0.00041781800000000003	absent
Brain- Olfactory Bulb	Significance: 2.0785100000000002e-05	absent
Brain- Putamen	Significance: 0.000102306	absent
Brain- Sensorimotor Cortex	Significance: 5.78758e-05	absent
Brain- Cerebellum	Significance: 0.00015922200000000001	absent
aBCD180	Significance: 2.0041e-05	absent
Neutrophils(wt)	Significance: 0.00021676400000000001	absent
J1 embryonic stem cells	Significance: 0.00010412899999999999	absent
E14 ES cells	Significance: 0.00021478	absent
ILC2+IL33+IL25	Significance: 0.000315738	absent
ILC1(WT)	Significance: 0.000169281	absent
ILC2(WT)	Significance: 0.00023365700000000002	absent
ILC3(WT)	Significance: 0.00023013	absent
ILC1_AbxGermFree	Significance: 0.000153485	absent
ILC2_AbxGermFree	Significance: 0.00033464300000000003	absent
ILC3_AbxGermFree	Significance: 0.00025588200000000003	absent
CD8 Tcells (day33 post infection LCMV-Armstrong)	Significance: 0.00019617599999999997	absent
CD8 Tcells(day35 post infection LCMV)	Significance: 4.84604e-05	absent
Spleen CD8+ T cell (Effector)	Significance: 0.000252424	absent
Spleen CD8+ T cell (Exhausted)	Significance: 0.000236402	absent
Spleen CD8+ T cell(SLEC)	Significance: 0.000295702	absent
naive transgenic TCR SV40-I CD8 T cells	Significance: 0.00018075	absent
D7 effector TCR SV40-I CD8 T cells	Significance: 9.752469999999999e-05	absent
central memory TCR SV40-I CD8 T cells	Significance: 0.000257898	absent
TCR SV40-I CD8 T cells isolated D14 from early malignant lesions	Significance: 0.000254006	absent
TCR SV40-I CD8 T cells isolated D28 from early malignant lesions	Significance: 0.000522103	absent
TCR SV40-I CD8 T cells isolated D35 from early malignant lesions	Significance: 0.000133836	absent
memory TCR SV40-I CD8 T cells isolated D14 from established tumors (with listeria immunization)	Significance: 0.00018177900000000002	absent
memory TCR SV40-I CD8 T cells isolated D35 from established tumors (with listeria immunization)	Significance: 0.000292827	absent
memory TCR SV40-I CD8 T cells isolated D14 from established tumors (without listeria immunization)	Significance: 0.000233395	absent
Invariant NKT (iNKT) cells	Significance: 4.69971e-05	absent
Pre-PB	Significance: 0.000150951	absent
Ter119+ Erythroid cells	Significance: 0.000201833	absent
Ckit Mice cells AE9a (AML)	Significance: 0.00018893099999999998	absent
rod photoreceptors	Significance: 0.00017439200000000002	absent
WT rod photoreceptors,retina	Significance: 0.00031141599999999996	absent
green cone photoreceptors	Significance: 0.000299033	absent
blue cone photoreceptors/NrlKO	Significance: 0.00016037200000000002	absent
embryo_3rd rhombomere (E8.5, deltaC)	Significance: 0.000236	absent
embryo_5th rhombomere(E8.5, deltaC)	Significance: 7.97127e-05	absent
embryo_5th rhombomere(E8.5, WT)	Significance: 0.000338465	absent
embryo_5th rhombomere (E8.5. deltaA)	Significance: 0.000405013	absent
embryo_posterior part (E9.5, WT)	Significance: 0.00019942200000000002	absent
embryo_posterior part (E8.5, wt)	Significance: 0.000257792	absent
Mouse back skin	Significance: 0.00011138299999999999	absent
Cranial neural crest cells (E10.5,WT)	Significance: 7.31929e-05	absent
parvalbumin-positive (PV) inhibitory neurons	Significance: 1.92507e-06	absent
Granule Neuron Progenitors (wt)	Significance: 0.000246158	absent
E16.5 sorted germ cells(wt)	Significance: 4.37847e-05	absent
ZHBTC4 ES doxycycline-treated	Significance: 5.6070200000000004e-05	absent
ZHBTC4 ES Brg1fl/fl untreated	Significance: 0.000223448	absent
JM8.N4 Asynchronous	Significance: 0.00035617900000000003	absent
BptfKO Mammary Cells	Significance: 7.79794e-05	absent
Megakaryocyte primary cell	Significance: 0.000130822	absent
Erythroid progenitor primary cell	Significance: 0.000305777	absent
Megakaryocyte-erythroid progenitor cell	Significance: 0.00028762	absent
Erythroblast primary cell	Significance: 0.000324285	absent
Megakaryocyte progenitor cell	Significance: 6.8006e-05	absent
Common myeloid progenitor primary cell	Significance: 0.00018356099999999997	absent
dendritic cell(100 ng/mL Lipopolysaccharide, 4hours)	Significance: 0.00010331700000000001	absent
Activated primary CD4 effector cells, isolated ex vivo	Significance: 0.000135278	absent
Mus musculus strain C57BL/6J R1 stem cell	Significance: 8.60967e-05	absent
Adipose tissue	Significance: 5.84466e-05	absent
Retina(newborn 1 day)	Significance: 0.00010303	absent
Cerebellum	Significance: 0.000209714	absent
c-Kit-positive CD71-positive TER-119-positive erythroid progenitor cells	Significance: 0.000301744	absent
myeloid progenitor cells, CD34+ (416B)	Significance: 0.000374321	absent
mixed embryonic mouse forebrain(E14.5)	Significance: 2.5829e-05	absent
mixed embryonic mouse hindbrain(E11.5)	Significance: 0.000118887	absent
mixed embryonic mouse midbrain(E14.5)	Significance: 3.02011e-05	absent
telencephalon tissue	Significance: 2.90679e-05	absent
mixed embryonic mouse limb(E11.5)	Significance: 0.00036673	absent
embryonic facial prominence(e11.5)	Significance: 1.94848e-05	absent
neural tube embryo(E11.5)	Significance: 0.000156774	absent
stomach(P0)	Significance: 9.606719999999999e-05	absent
spleen(adult-8wks)	Significance: 3.10809e-05	absent
Mouse hematopoietic suspension cell line positive for CD34(416B cell line)	Significance: 0.000117068	absent
acute myeloid leukemia	Significance: 0.000213363	absent
CH12.LX cell line	Significance: 6.27445e-05	absent
MEL-GATA-1-ER cell line	Significance: 7.52498e-05	absent
MEL cell line	Significance: 0.000289136	absent
MEL cell line treated with 125 uM zinc dichloride for 24 hours	Significance: 2.7553000000000002e-05	absent

Unique Cell types only Homer finds Tcfeb

Cell type	Modisco	Homer
aB LPS+a-d-dextran	absent	Significance: 0.0400193
dendritic cell(100 ng/mL Lipopolysaccharide, 6hours)	absent	Significance: 0.000461782
Primary bone marrow derived dendritic cells (DCs, control vector)	absent	Significance: 0.0525082
eosinphils (ex-vivo, BalbC)	absent	Significance: 0.043545099999999996
ES_derived Definitive Endoderm	absent	Significance: 0.000530551
WT cone photoreceptors	absent	Significance: 0.00723681
BMDCs(dendritic cell)	absent	Significance: 0.00956486
macrophage	absent	Significance: 0.000428198
neural progenitor cells(Ch13)	absent	Significance: 0.00057506
placenta	absent	Significance: 0.000709784
Undifferentiated mouse embryonic stem cells (ZhBTc4)	absent	Significance: 0.000272166
Embryonic day 0 (stem cell, ES-CJ7)	absent	Significance: 0.0036317
Lung (adult-8wks)	absent	Significance: 0.00195341
Regulatory T cells CD4+,CD25+	absent	Significance: 0.00113191
Liver(adult-8wks)	absent	Significance: 0.000465901
Liver(E14.5)	absent	Significance: 0.00156037
Heart (adult-8wks)	absent	Significance: 0.00316198
CD4-positive helper(adult-8wks, Activated primary CD4 effector cells)	absent	Significance: 0.00409247
Muller cell(P12)	absent	Significance: 0.00457681
forebrain(P0)	absent	Significance: 0.0137999
midbrain embryo(E11.5)	absent	Significance: 0.00029125099999999997
TCR SV40-I CD8 T cells isolated D5 from early malignant lesions	absent	Significance: 0.058548199999999995