In [1]:
# Parameters
data_name = "Pou5f1"
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 11:29:17,629 [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)
Pou5f1: Motif: M09225_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Pou5f1: #21

Cell typeModiscoHomer
B1_B;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.058925

Pattern: motif14.motif

Significance: 0.0254588

prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.057862199999999996

Pattern: motif5.motif

Significance: 0.021987299999999998

aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.047666900000000005

/

Pattern: metacluster_1/pattern_12

Significance: 0.0487596

Pattern: motif14.motif

Significance: 0.0128806

aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.053213300000000005

Pattern: motif20.motif

Significance: 0.0313994

ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.000947846

/

Pattern: metacluster_1/pattern_5

Significance: 0.055899300000000006

Pattern: motif9.motif

Significance: 0.030708600000000003

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0312144

/

Pattern: metacluster_1/pattern_20

Significance: 0.030201599999999995

Pattern: motif14.motif

Significance: 0.00763436

ES;E14;A;CL

Pattern: metacluster_1/pattern_2

Significance: 1.8502599999999998e-06

/

Pattern: metacluster_1/pattern_3

Significance: 0.0237469

Pattern: motif3.motif

Significance: 3.2793700000000003e-07

/

Pattern: motif7.motif

Significance: 0.00737042

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.059895500000000004

/

Pattern: metacluster_1/pattern_5

Significance: 1.78017e-06

Pattern: motif6.motif

Significance: 5.85123e-06

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 2.1859e-06

/

Pattern: metacluster_1/pattern_11

Significance: 0.0453981

/

Pattern: metacluster_1/pattern_21

Significance: 0.0355852

Pattern: motif3.motif

Significance: 2.0605999999999998e-07

ES;JM8.N4;Mitosis;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.000134334

/

Pattern: metacluster_0/pattern_7

Significance: 4.00706e-05

Pattern: motif18.motif

Significance: 1.0635e-05

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_2

Significance: 1.7321000000000001e-06

/

Pattern: metacluster_1/pattern_5

Significance: 0.014212899999999999

Pattern: motif3.motif

Significance: 1.0219e-05

/

Pattern: motif7.motif

Significance: 0.0183668

ES;D0;D;GEO

Pattern: metacluster_0/pattern_3

Significance: 4.12462e-05

/

Pattern: metacluster_0/pattern_9

Significance: 0.00171742

Pattern: motif6.motif

Significance: 2.53827e-06

/

Pattern: motif13.motif

Significance: 0.0585804

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_2

Significance: 8.42947e-07

/

Pattern: metacluster_1/pattern_8

Significance: 0.056913099999999994

Pattern: motif4.motif

Significance: 3.2841900000000005e-07

ES;E14;D;En

Pattern: metacluster_1/pattern_3

Significance: 3.10975e-06

/

Pattern: metacluster_1/pattern_5

Significance: 5.9033900000000004e-05

/

Pattern: metacluster_1/pattern_18

Significance: 0.0589591

Pattern: motif5.motif

Significance: 5.83677e-06

ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_3

Significance: 5.01682e-06

/

Pattern: metacluster_1/pattern_19

Significance: 0.033016199999999996

Pattern: motif9.motif

Significance: 3.12024e-05

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.046805400000000004

Pattern: motif10.motif

Significance: 0.026712299999999998

ES;J1;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0174405

/

Pattern: metacluster_1/pattern_5

Significance: 6.31561e-06

Pattern: motif6.motif

Significance: 4.75117e-06

ES;E14;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 2.8688599999999995e-06

/

Pattern: metacluster_0/pattern_19

Significance: 0.0471309

Pattern: motif5.motif

Significance: 3.8833600000000005e-06

ES;F1216;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 2.8354400000000002e-06

/

Pattern: metacluster_0/pattern_7

Significance: 0.024292400000000002

/

Pattern: metacluster_0/pattern_12

Significance: 0.050787

Pattern: motif7.motif

Significance: 5.26145e-08

ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 3.2126799999999996e-06

/

Pattern: metacluster_1/pattern_6

Significance: 0.05686889999999999

/

Pattern: metacluster_1/pattern_14

Significance: 0.0186329

Pattern: motif4.motif

Significance: 8.19919e-07

ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 2.9137299999999997e-06

/

Pattern: metacluster_1/pattern_16

Significance: 0.0358473

Pattern: motif4.motif

Significance: 7.74143e-06

/

Pattern: motif10.motif

Significance: 0.0352176

Unique Cell types only TF-MoDISco finds Pou5f1: #68

Cell typeModiscoHomer
wES;NRL_Tube;E11.5;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.00388594

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.0361295

Absent
SKLTL_Muscle;8wks;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.052726699999999994

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_12

Significance: 0.054653099999999996

Absent
aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_20

Significance: 0.0494785

Absent
Erythroid;Ter119+;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.037664800000000005

Absent
Mast;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.034874199999999994

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.052633400000000004

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.037540699999999996

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

Pattern: metacluster_0/pattern_14

Significance: 0.0124515

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

Pattern: metacluster_1/pattern_18

Significance: 0.0580107

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

Pattern: metacluster_0/pattern_20

Significance: 0.0156089

Absent
naiveT_mut;CD4+_CD44-_CD62L-_CD25-;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0263289

/

Pattern: metacluster_1/pattern_17

Significance: 0.044484300000000004

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

Pattern: metacluster_0/pattern_17

Significance: 0.024230200000000004

Absent
wES;5th_Rhmbmr;E9.5;A;GEO

Pattern: metacluster_0/pattern_17

Significance: 0.00602215

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

Pattern: metacluster_0/pattern_22

Significance: 0.0437096

Absent
wES;posterior;1;E9.5;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.00210477

Absent
wES;posterior;2;E9.5;A;GEO

Pattern: metacluster_0/pattern_14

Significance: 0.00553782

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

Pattern: metacluster_0/pattern_20

Significance: 0.00345136

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

Pattern: metacluster_0/pattern_3

Significance: 0.00497831

Absent
CD4+CD8-TCR+CD25+Foxp3-;A;CL

Pattern: metacluster_1/pattern_19

Significance: 0.00515387

Absent
CD4+CD8-TCR+CD25-Foxp3+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.045554500000000005

/

Pattern: metacluster_1/pattern_21

Significance: 0.052547699999999996

Absent
CD4+CD8-TCR+CD25+Foxp3+;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0547139

Absent
wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.045536099999999996

/

Pattern: metacluster_0/pattern_16

Significance: 0.033445300000000004

/

Pattern: metacluster_0/pattern_18

Significance: 0.0582946

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.05702669999999999

Absent
NPC;Ch13;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.015180299999999999

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0531511

Absent
DP3a;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0388921

Absent
ePyramidal_NRN;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.0217498

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0206687

/

Pattern: metacluster_1/pattern_18

Significance: 0.027793900000000003

/

Pattern: metacluster_1/pattern_24

Significance: 0.0199273

Absent
eCortical_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0350341

Absent
ES;MEF;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0417833

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.016131100000000002

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.04128180000000001

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.056874

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

Pattern: metacluster_0/pattern_6

Significance: 6.13979e-05

/

Pattern: metacluster_0/pattern_10

Significance: 0.00858195

Absent
PNCRS;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.0167077

Absent
eye-NRL_RTN;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.0473712

Absent
BRN;FRNTL_CRTX;A;CL

Pattern: metacluster_1/pattern_19

Significance: 0.037266900000000006

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0233597

Absent
BRN;MDL_OBLNGT;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.031152199999999998

Absent
BRN;SNSR_MTR_CRTX;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.0189035

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.05626849999999999

Absent
ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.011284200000000001

Absent
aB;CD180;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.047344300000000006

/

Pattern: metacluster_1/pattern_12

Significance: 0.059377099999999995

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0466923

Absent
3134_mammaryADNCRCNM;D;GE

Pattern: metacluster_1/pattern_25

Significance: 0.0348116

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.0273158

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0162953

Absent
wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.028594900000000003

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0258969

Absent
aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_14

Significance: 0.0576222

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0439962

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

Pattern: metacluster_1/pattern_18

Significance: 0.0402848

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_17

Significance: 0.054394200000000004

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0548043

Absent
RTN;D1;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.05620990000000001

/

Pattern: metacluster_0/pattern_19

Significance: 0.014558700000000003

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

Pattern: metacluster_0/pattern_11

Significance: 5.66714e-05

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_20

Significance: 0.051667

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

Pattern: metacluster_0/pattern_8

Significance: 0.0070916

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

Pattern: metacluster_0/pattern_15

Significance: 0.00277799

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.05416409999999999

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

Pattern: metacluster_0/pattern_8

Significance: 0.00801857

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

Pattern: metacluster_1/pattern_19

Significance: 0.0274117

Absent
cntrl_memT;TCR_SV40-I_CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.044262199999999995

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

Pattern: metacluster_1/pattern_3

Significance: 0.0247391

/

Pattern: metacluster_1/pattern_8

Significance: 0.047958999999999995

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0417892

Absent
wES;Telenchephalon;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.033330900000000004

Absent
Unique Cell types only Homer finds Pou5f1: #8

Cell typeModiscoHomer
immatureB;A;CLAbsent

Pattern: motif17.motif

Significance: 0.048744499999999996

MZ_B;A;CLAbsent

Pattern: motif19.motif

Significance: 0.0460581

aB;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.028676099999999996

GC_B;A;CLAbsent

Pattern: motif4.motif

Significance: 0.0113403

plasmaB;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0565935

wES;RTN;E11.5;D;EnAbsent

Pattern: motif13.motif

Significance: 0.0485044

wCH12;A;CLAbsent

Pattern: motif4.motif

Significance: 0.0562876

CH12;med14;A;CLAbsent

Pattern: motif6.motif

Significance: 0.015379599999999998