In [1]:
# Parameters
data_name = "Irf5"
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"
overwrite = False
In [2]:
from matlas.reports import collect_motifDB_to_be_displayed, display_comparative_cell_types

load data from labcluster

Using TensorFlow backend.
2019-08-23 11:14:11,842 [WARNING] git-lfs not installed
In [3]:
homer_matches, modisco_matches = collect_motifDB_to_be_displayed(task_idxs, homer_root, modisco_root, 
                                                              overwrite=False)

TF-MoDISco is using the TensorFlow backend.
In [4]:
display_comparative_cell_types(data_name, homer_matches, modisco_matches)
Irf5: Motif: M00177_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Irf5: #26

Cell typeModiscoHomer
memT_tmrD_lstr;TCR_SV40-I_CD8+;D14;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0549871

Pattern: motif10.motif

Significance: 0.0103841

plasmaB;A;CL

Pattern: metacluster_1/pattern_1

Significance: 0.010866200000000001

Pattern: motif2.motif

Significance: 0.0182331

B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.038191699999999995

Pattern: motif4.motif

Significance: 0.0212302

aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.020232

Pattern: motif3.motif

Significance: 0.046382099999999996

aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.0191292

Pattern: motif3.motif

Significance: 0.057133

aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_5

Significance: 0.052561000000000004

Pattern: motif3.motif

Significance: 0.0412823

CH12.LX;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.027514599999999997

Pattern: motif2.motif

Significance: 0.041581599999999996

Mast;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.0120448

Pattern: motif1.motif

Significance: 0.053046800000000005

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.00970807

Pattern: motif3.motif

Significance: 0.012737700000000001

ESNPHL_ex-vivo_BlbC;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.00543776

Pattern: motif2.motif

Significance: 0.0538405

Mammary;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.00495622

Pattern: motif4.motif

Significance: 0.043668

PNCRS;A;CL

Pattern: metacluster_0/pattern_14

Significance: 0.00159524

Pattern: motif4.motif

Significance: 0.0478289

DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_3

Significance: 0.032635500000000005

Pattern: motif7.motif

Significance: 0.0482722

aB;CD180;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0112648

Pattern: motif6.motif

Significance: 0.0241323

ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.029264099999999998

Pattern: motif14.motif

Significance: 0.0599499

aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_5

Significance: 0.00780578

Pattern: motif1.motif

Significance: 0.0436905

aB_LPS+IL4+Oligomycin_24h;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.026512400000000002

Pattern: motif3.motif

Significance: 0.047538699999999996

CH12;med14;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.0159832

Pattern: motif1.motif

Significance: 0.0464997

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.00674075

Pattern: motif5.motif

Significance: 0.0488584

mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.00370682

Pattern: motif7.motif

Significance: 0.00620507

NK_LVRD;CD19-CD3e-NKp46+DX+Trail-;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.0169707

Pattern: motif5.motif

Significance: 0.00664201

KDNY;8wks;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.018848

Pattern: motif6.motif

Significance: 0.0459196

LNG;8wks;D;En

Pattern: metacluster_0/pattern_12

Significance: 0.0171528

Pattern: motif16.motif

Significance: 0.00468192

naiveT;CD8+;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0433592

Pattern: motif9.motif

Significance: 0.045226800000000004

T_LCMV;CD8+;D8;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.0346362

Pattern: motif7.motif

Significance: 0.0405631

TSLEC_SPLND;CD8+A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.0363744

Pattern: motif9.motif

Significance: 0.00270096

Unique Cell types only TF-MoDISco finds Irf5: #55

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_5

Significance: 0.052246

Absent
memT_tmrD_lstr;TCR_SV40-I_CD8+;D7;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.030760400000000004

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_4

Significance: 0.03483869999999999

Absent
wES;NRL_Tube;E11.5;D;En

Pattern: metacluster_1/pattern_25

Significance: 0.0153352

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.00270361

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.0300731

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.012811600000000001

Absent
Spleen;8wks;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0215362

Absent
preB_BMD;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0113568

Absent
MCRPHG_BMD.LPD_Stmltd;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0430606

Absent
DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.033148000000000004

Absent
BSPHL;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.015271200000000002

Absent
ESNPHL_SPLND_BlbCA;CL

Pattern: metacluster_0/pattern_10

Significance: 0.010241799999999999

Absent
MN1;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.0192045

Absent
ROD_PHT_RCPTR_RTN;A;GEO

Pattern: metacluster_0/pattern_21

Significance: 0.00274271

Absent
Tfr;CD4+CD44+CXCR5+PD1+CD25+;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.048036800000000004

Absent
Tfr_mut;CD4+CD44+CXCR5+PD1+CD25+;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0406126

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.0302418

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_21

Significance: 0.0171558

Absent
DC_BMD;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0425277

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_23

Significance: 0.0292971

Absent
ISP;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0575504

Absent
ES;MEF;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.0200468

Absent
Corticotrope;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.0444772

Absent
LNG;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.014512899999999999

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.00742426

Absent
Heart;D;En

Pattern: metacluster_0/pattern_15

Significance: 0.00508699

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.032332099999999996

Absent
Adrenal;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0491733

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_19

Significance: 0.024718900000000002

Absent
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.00541313

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_18

Significance: 0.00296437

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.00875075

Absent
LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.051690099999999996

Absent
LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_12

Significance: 0.0424728

Absent
3134_mammaryADNCRCNM;D;GE

Pattern: metacluster_1/pattern_20

Significance: 0.00836596

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.00641159

Absent
gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0508089

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.0110309

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.0532913

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.058779099999999994

Absent
CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.020097

Absent
wCH12;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.00919253

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.04177569999999999

Absent
wES;LVR;E11.5;D.;En

Pattern: metacluster_1/pattern_22

Significance: 0.000189093

Absent
LNG;P0;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.012837399999999999

Absent
wES;LNG;E14.5;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.00402751

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_15

Significance: 0.0130764

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.0288608

Absent
Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0342154

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_8

Significance: 0.039996199999999996

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.049112800000000005

Absent
apTreg;8wk;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.026736799999999998

Absent
ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.041529699999999996

Absent
wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.0224105

Absent
Unique Cell types only Homer finds Irf5: #24

Cell typeModiscoHomer
T_MLD;TCR_SV40-I_CD8+;D28;A;GEOAbsent

Pattern: motif6.motif

Significance: 0.00415246

memT;CD4+;A;CLAbsent

Pattern: motif12.motif

Significance: 0.0277464

iNKT;A;GEOAbsent

Pattern: motif9.motif

Significance: 0.0147007

aB_LPS;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0598497

largeDPprecrsr;CD4+CD8+CD69-;A;CLAbsent

Pattern: motif2.motif

Significance: 0.038025

smallDPprecrsor;CD4+CD8+CD69-;A;CLAbsent

Pattern: motif2.motif

Significance: 0.0383306

CD4+CD8intTCR+CD69+CD24+;B2defM;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0412576

CD4+CD8-TCR+CD25+Foxp3-;A;CLAbsent

Pattern: motif15.motif

Significance: 0.034587099999999996

CD4+CD8-TCR+CD25+Foxp3+;A;CLAbsent

Pattern: motif6.motif

Significance: 0.017658

DP3a;A;CLAbsent

Pattern: motif8.motif

Significance: 0.058087

ThMS_MEC;Aire++;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.020381599999999996

LRG_INTSTN;A;CLAbsent

Pattern: motif4.motif

Significance: 0.036883400000000004

Adipose;A;CLAbsent

Pattern: motif3.motif

Significance: 0.036587

LNG_TRM_HSC;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0579763

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif2.motif

Significance: 0.047151900000000004

apTreg;D;GEOAbsent

Pattern: motif6.motif

Significance: 0.030336099999999998

NCR+ILC3+IL23;A;CLAbsent

Pattern: motif13.motif

Significance: 0.0276878

NTRPHL;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.050361500000000003

ILC3;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.00341291

ILC1_AbxGRMFree;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0497287

ILC2_AbxGRMFree;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.037700300000000006

TExh_SPLND;CD8+;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.05186469999999999

cntrl_memT;TCR_SV40-I_CD8+;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.0435642

T_MLD;TCR_SV40-I_CD8+;D21;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.00343064