In [1]:
# Parameters
data_name = "E2f6"
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 11:02:28,982 [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)
E2f6: Motif: M09043_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds E2f6: #8

Cell typeModiscoHomer
npES;posterior_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.048026

Pattern: motif2.motif

Significance: 0.0261063

Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.0431666

Pattern: motif3.motif

Significance: 0.0371166

NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.0391485

Pattern: motif3.motif

Significance: 0.0328827

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.043318699999999995

Pattern: motif4.motif

Significance: 0.0463273

ES;MEF;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.04079530000000001

Pattern: motif4.motif

Significance: 0.0078993

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_9

Significance: 0.0480651

Pattern: motif15.motif

Significance: 0.0290339

Muscle;A;CL

Pattern: metacluster_1/pattern_23

Significance: 0.0392115

Pattern: motif2.motif

Significance: 0.0464168

Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0406745

Pattern: motif2.motif

Significance: 0.0206291

Unique Cell types only TF-MoDISco finds E2f6: #26

Cell typeModiscoHomer
wES;limb;E14.5;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.015259700000000001

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

Pattern: metacluster_0/pattern_9

Significance: 0.0443707

Absent
memT_tmrD;TCR_SV40-I_CD8+;D14;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.034444300000000004

Absent
SKLTL_Muscle;8wks;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.025477

Absent
aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_24

Significance: 0.0201318

/

Pattern: metacluster_0/pattern_25

Significance: 0.023772900000000003

/

Pattern: metacluster_0/pattern_27

Significance: 0.020368

Absent
DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.054322300000000004

Absent
wES;3rd_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_2

Significance: 0.042733099999999996

Absent
npES;3rd_Rhmbmr_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0445264

Absent
npES;5th_Rhmbmr_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_4

Significance: 0.047122500000000005

Absent
wES;posterior;1;E8.5;A;GEO

Pattern: metacluster_0/pattern_4

Significance: 0.0513678

Absent
CD4+CD8intTCR+CD69+CD24+;MHC2defM;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.059052

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0379545

Absent
DP;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.059526800000000005

Absent
ES;JM8.N4;Mitosis;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.0316638

Absent
testis;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.047057

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_0

Significance: 0.0296252

Absent
ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.018018799999999998

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_0

Significance: 0.047525599999999994

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.0230102

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

Pattern: metacluster_0/pattern_9

Significance: 0.0559489

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

Pattern: metacluster_0/pattern_7

Significance: 0.017340400000000002

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.0397892

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

Pattern: metacluster_0/pattern_7

Significance: 0.0351277

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

Pattern: metacluster_0/pattern_13

Significance: 0.05806119999999999

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

Pattern: metacluster_0/pattern_13

Significance: 0.0491437

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

Pattern: metacluster_0/pattern_5

Significance: 0.050125

Absent
Unique Cell types only Homer finds E2f6: #68

Cell typeModiscoHomer
wES;Hnd_lmb;E11.5;D;EnAbsent

Pattern: motif2.motif

Significance: 0.0177869

Th17;CD4+;A;CLAbsent

Pattern: motif3.motif

Significance: 0.025816200000000004

memT_tmrD_lstr;TCR_SV40-I_CD8+;D7;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.024893000000000002

wES;FaceP;E14.5;D;EnAbsent

Pattern: motif3.motif

Significance: 0.026038799999999997

wES;NRL_Tube;E11.5;D;EnAbsent

Pattern: motif3.motif

Significance: 0.021325099999999996

matureB;A;CLAbsent

Pattern: motif3.motif

Significance: 0.039089

prePLSM_B;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.024228599999999996

GC_B;A;CLAbsent

Pattern: motif3.motif

Significance: 0.036617199999999996

Spleen;8wks;D;EnAbsent

Pattern: motif3.motif

Significance: 0.053650699999999996

3134_mammaryADNCRCNM;D;EnAbsent

Pattern: motif3.motif

Significance: 0.0158084

aB_LPS+IL4;A;CLAbsent

Pattern: motif2.motif

Significance: 0.01964

AML;AE9a;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.03486330000000001

DC_LPS;6h;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.0394851

BSPHL;A;CLAbsent

Pattern: motif5.motif

Significance: 0.0512306

DC_pBMD;A;GEOAbsent

Pattern: motif5.motif

Significance: 0.057798

ENDRM_ESD;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0408452

NIH3T3;D;EnAbsent

Pattern: motif3.motif

Significance: 0.053256399999999995

Tfh;A;CLAbsent

Pattern: motif2.motif

Significance: 0.043524400000000005

Tfh_mut;A;CLAbsent

Pattern: motif2.motif

Significance: 0.047337

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.034241100000000003

GCN_PHT_RCPTR;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0482179

Tfr;CD4+CD44+CXCR5+PD1+CD25+;A;CLAbsent

Pattern: motif2.motif

Significance: 0.011634899999999998

npES;5th_Rhmbmr_delC;E8.5;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0370385

CD4+CD8-TCR+CD69-CD24-CD25-;B2defM;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0431205

wES.CRNL_NRL_CRST;E10.5;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.025105900000000004

NPC;G4;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0431018

MCRPHG;A;CLAbsent

Pattern: motif4.motif

Significance: 0.056587599999999995

DP3a;A;CLAbsent

Pattern: motif4.motif

Significance: 0.018991499999999998

DP3b;A;CLAbsent

Pattern: motif3.motif

Significance: 0.05183189999999999

ISP;A;CLAbsent

Pattern: motif3.motif

Significance: 0.059550900000000004

ThMS_MEC;Aire++;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0397069

npES;ZHBTC4;doxyc;treat;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.029048

Adipose;A;CLAbsent

Pattern: motif1.motif

Significance: 0.033298699999999994

Mammary;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0411826

Adrenal;A;CLAbsent

Pattern: motif4.motif

Significance: 0.057533600000000004

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0116154

EPP;A;EnAbsent

Pattern: motif2.motif

Significance: 0.025200599999999997

DC;A;EnAbsent

Pattern: motif4.motif

Significance: 0.0239037

NIH3T3_FBROBLST;D;GEOAbsent

Pattern: motif3.motif

Significance: 0.0237179

LVR;8wks;D;GEOAbsent

Pattern: motif6.motif

Significance: 0.035544900000000004

gamma_delta_TCR;A;CLAbsent

Pattern: motif3.motif

Significance: 0.00674836

gamma_delta_TCR_MCR;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0253386

gamma_delta_TCR_M-S-;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0413318

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif3.motif

Significance: 0.00574618

apTreg;D;GEOAbsent

Pattern: motif3.motif

Significance: 0.016942099999999998

NCR+ILC3;A;CLAbsent

Pattern: motif4.motif

Significance: 0.0544692

ILC2_Nippo;A;CLAbsent

Pattern: motif3.motif

Significance: 0.035068300000000004

ILC1;A;CLAbsent

Pattern: motif3.motif

Significance: 0.017912099999999997

ILC2;A;CLAbsent

Pattern: motif3.motif

Significance: 0.059068499999999996

Th2_nippo;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0136724

aB_LPS+IL4+Oligomycin_24h;A;CLAbsent

Pattern: motif2.motif

Significance: 0.0499087

NIH3T3_FBROBLST;D;EnAbsent

Pattern: motif3.motif

Significance: 0.00690016

CLP;A;CLAbsent

Pattern: motif4.motif

Significance: 0.043313

ES;v6.5;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0368431

Heart;8wks;D;EnAbsent

Pattern: motif2.motif

Significance: 0.015575299999999999

CRBL_GRNL_Precrsr;A;GEOAbsent

Pattern: motif5.motif

Significance: 0.015735

ILC2+IL33+IL25;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0368021

ILC1;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0350485

ILC2_AbxGRMFree;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.027945799999999996

ILC3_AbxGRMFree;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.00467135

apTreg;8wk;D;EnAbsent

Pattern: motif2.motif

Significance: 0.0595131

immatureB_SPLND;CD43-_CD11b-;D;EnAbsent

Pattern: motif3.motif

Significance: 0.0430585

T_LCMV;CD8+;D33;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.023790400000000003

TExh_SPLND;CD8+;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0190858

naiveT;trnsgncTCR_SV40-I_CD8;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0181388

T_MLD;TCR_SV40-I_CD8+;D14;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0484486

Md_BRN;D;EnAbsent

Pattern: motif3.motif

Significance: 0.036260900000000006

WHL_BRN;8wks;D;EnAbsent

Pattern: motif3.motif

Significance: 0.0418468