BPNet tf-Modisco report

In [1]:
modisco_dir = "/users/avsec/workspace/basepair/data/processed/chipnexus/exp/models/oct-sox-nanog-klf/models/n_dil_layers=9/modisco/valid/new-hparams"
In [2]:
# Parameters
modisco_dir = "."
In [3]:
from basepair.modisco.results import ModiscoResult
from basepair.config import get_data_dir
from basepair.utils import read_json
from basepair.plot.vdom import vdom_modisco
from kipoi.readers import HDF5Reader
import matplotlib.pyplot as plt
import numpy as np
import os
import pandas as pd
from plotnine import *

Using TensorFlow backend.
In [4]:
mr = ModiscoResult(f"{modisco_dir}/modisco.h5")
mr.open()
In [5]:
# load the data
modisco_kwargs = read_json(os.path.join(modisco_dir, "kwargs.json"))
d = HDF5Reader(modisco_kwargs['imp_scores'])
d.open()
In [6]:
strand_dist_file = f"{modisco_dir}/strand_distances.h5"
if modisco_kwargs.get("ignore_strand_dist", False) and os.path.exists(strand_dist_file):
    included_samples = HDF5Reader.load(strand_dist_file)['included_samples']
else:
    included_samples = np.ones(d.f['inputs'].shape[:1], dtype=bool)
    
if modisco_kwargs.get("filter_npy", None) is not None:
    included_samples = np.load(modisco_kwargs['filter_npy']) * included_samples
    
    
id_hash = pd.DataFrame({"peak_id": d.f['/metadata/interval_from_task'][:][included_samples], 
                        "example_idx": np.arange(d.f['/metadata/interval_from_task'][included_samples].shape[0])})
tasks = list(d.f["targets"]["profile"].keys())
In [7]:
# get all seqlet instances
dfp = mr.seqlet_df_instances().rename(columns=dict(seqname="example_idx"))
dfp = pd.merge(dfp, id_hash, on="example_idx")

TF-MoDISco is using the TensorFlow backend.
In [8]:
# row = example_idx
total_counts = pd.DataFrame({task: d.f[f"/targets/profile/{task}"][:][included_samples].sum(axis=-1).sum(axis=-1)
          for task in tasks
         })
In [9]:
len(mr.patterns())
Out[9]:
176
In [10]:
# total number of seqlets
len(dfp)
Out[10]:
97031
In [11]:
# Number of metaclusters
len(mr.metaclusters())
Out[11]:
15

Number of seqlets per pattern

In [12]:
mc_stat = mr.metacluster_stats()
In [13]:
ggplot(aes(x="pattern", y='n'), mc_stat) + geom_bar(stat='identity') + \
    facet_wrap("~metacluster", ncol=4, labeller='label_both') + \
    ylab("Number of seqlets") + theme_classic()
Out[13]:
<ggplot: (-9223363286739682125)>

Zoom-into the 500 seqlet range

In [14]:
ggplot(aes(x="pattern", y='n'), mc_stat) + geom_bar(stat='identity') + \
    facet_wrap("~metacluster", ncol=4, labeller='label_both') + \
    ylab("Number of seqlets") + theme_classic() + coord_cartesian(ylim=[0, 500])
Out[14]:
<ggplot: (8750115236749)>

Important tasks per metacluster

In [15]:
mcs_grouped = mc_stat.groupby("metacluster").n.agg(["count", "sum"]).reset_index()
fig, ax = plt.subplots(2, 1, sharex=False, figsize=(18,6), 
                       gridspec_kw={'height_ratios': [2,1]})
mcs_grouped.plot("metacluster", "count", 
                 label="# patterns per metacluster", style="o--", 
                 ax=ax[0], 
                 yticks=range(mcs_grouped['count'].max()+1),
                 xticks=range(38),
                 fontsize='large',
                 xlim=(-.5, len(mr.metaclusters()) - .5 ))
mcs_grouped.plot("metacluster", "sum", 
                 label="# seqlets per metacluster", 
                 style="o--", ax=ax[0], secondary_y=True)
ax[0].grid(linewidth=0.2)
mr.plot_metacluster_activity(ax[1], cbar=False)
ax[1].set_title("Importance score activity: Red = positive, Blue = negative");
In [16]:
vdom_modisco(mr, "plots", total_counts, dfp, is_open=True, trim_frac=0.08, letter_width=0.15, height=0.5)
Out[16]:
metacluster_0, # patterns: 27, # seqlets: 23880, important for: Klf4
  • pattern_0: # seqlets: 16233
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 15180 / 133644 regions (11.4%)

  • pattern_1: # seqlets: 1220
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1216 / 133644 regions (0.9%)

  • pattern_2: # seqlets: 1045
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1034 / 133644 regions (0.8%)

  • pattern_3: # seqlets: 568
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 567 / 133644 regions (0.4%)

  • pattern_4: # seqlets: 535
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 520 / 133644 regions (0.4%)

  • pattern_5: # seqlets: 484
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 477 / 133644 regions (0.4%)

  • pattern_6: # seqlets: 450
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 431 / 133644 regions (0.3%)

  • pattern_7: # seqlets: 354
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 347 / 133644 regions (0.3%)

  • pattern_8: # seqlets: 324
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 322 / 133644 regions (0.2%)

  • pattern_9: # seqlets: 317
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 317 / 133644 regions (0.2%)

  • pattern_10: # seqlets: 251
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 250 / 133644 regions (0.2%)

  • pattern_11: # seqlets: 201
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 192 / 133644 regions (0.1%)

  • pattern_12: # seqlets: 195
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 195 / 133644 regions (0.1%)

  • pattern_13: # seqlets: 177
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 177 / 133644 regions (0.1%)

  • pattern_14: # seqlets: 174
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 167 / 133644 regions (0.1%)

  • pattern_15: # seqlets: 161
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 160 / 133644 regions (0.1%)

  • pattern_16: # seqlets: 169
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 169 / 133644 regions (0.1%)

  • pattern_17: # seqlets: 152
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 145 / 133644 regions (0.1%)

  • pattern_18: # seqlets: 140
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 136 / 133644 regions (0.1%)

  • pattern_19: # seqlets: 133
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 131 / 133644 regions (0.1%)

  • pattern_20: # seqlets: 106
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 106 / 133644 regions (0.1%)

  • pattern_21: # seqlets: 104
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 101 / 133644 regions (0.1%)

  • pattern_22: # seqlets: 92
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 86 / 133644 regions (0.1%)

  • pattern_23: # seqlets: 82
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 81 / 133644 regions (0.1%)

  • pattern_24: # seqlets: 74
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 74 / 133644 regions (0.1%)

  • pattern_25: # seqlets: 69
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 69 / 133644 regions (0.1%)

  • pattern_26: # seqlets: 70
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 70 / 133644 regions (0.1%)

metacluster_1, # patterns: 26, # seqlets: 17559, important for: Nanog,Oct4,Sox2
  • pattern_0: # seqlets: 3933
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 3856 / 133644 regions (2.9%)

  • pattern_1: # seqlets: 3023
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 2956 / 133644 regions (2.2%)

  • pattern_2: # seqlets: 2232
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 2201 / 133644 regions (1.6%)

  • pattern_3: # seqlets: 1217
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1206 / 133644 regions (0.9%)

  • pattern_4: # seqlets: 901
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 898 / 133644 regions (0.7%)

  • pattern_5: # seqlets: 857
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 843 / 133644 regions (0.6%)

  • pattern_6: # seqlets: 866
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 860 / 133644 regions (0.6%)

  • pattern_7: # seqlets: 828
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 828 / 133644 regions (0.6%)

  • pattern_8: # seqlets: 460
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 460 / 133644 regions (0.3%)

  • pattern_9: # seqlets: 388
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 387 / 133644 regions (0.3%)

  • pattern_10: # seqlets: 340
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 322 / 133644 regions (0.2%)

  • pattern_11: # seqlets: 287
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 287 / 133644 regions (0.2%)

  • pattern_12: # seqlets: 357
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 357 / 133644 regions (0.3%)

  • pattern_13: # seqlets: 196
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 196 / 133644 regions (0.1%)

  • pattern_14: # seqlets: 203
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 203 / 133644 regions (0.2%)

  • pattern_15: # seqlets: 137
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 137 / 133644 regions (0.1%)

  • pattern_16: # seqlets: 148
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 148 / 133644 regions (0.1%)

  • pattern_17: # seqlets: 136
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 136 / 133644 regions (0.1%)

  • pattern_18: # seqlets: 186
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 186 / 133644 regions (0.1%)

  • pattern_19: # seqlets: 161
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 161 / 133644 regions (0.1%)

  • pattern_20: # seqlets: 105
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 105 / 133644 regions (0.1%)

  • pattern_21: # seqlets: 140
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 140 / 133644 regions (0.1%)

  • pattern_22: # seqlets: 104
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 104 / 133644 regions (0.1%)

  • pattern_23: # seqlets: 126
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 126 / 133644 regions (0.1%)

  • pattern_24: # seqlets: 126
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 126 / 133644 regions (0.1%)

  • pattern_25: # seqlets: 102
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 102 / 133644 regions (0.1%)

metacluster_2, # patterns: 22, # seqlets: 11042, important for: Nanog,Sox2
  • pattern_0: # seqlets: 3631
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 3539 / 133644 regions (2.6%)

  • pattern_1: # seqlets: 2179
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 2151 / 133644 regions (1.6%)

  • pattern_2: # seqlets: 641
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 629 / 133644 regions (0.5%)

  • pattern_3: # seqlets: 707
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 707 / 133644 regions (0.5%)

  • pattern_4: # seqlets: 614
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 614 / 133644 regions (0.5%)

  • pattern_5: # seqlets: 424
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 418 / 133644 regions (0.3%)

  • pattern_6: # seqlets: 385
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 383 / 133644 regions (0.3%)

  • pattern_7: # seqlets: 418
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 415 / 133644 regions (0.3%)

  • pattern_8: # seqlets: 425
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 425 / 133644 regions (0.3%)

  • pattern_9: # seqlets: 297
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 297 / 133644 regions (0.2%)

  • pattern_10: # seqlets: 122
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 122 / 133644 regions (0.1%)

  • pattern_11: # seqlets: 152
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 152 / 133644 regions (0.1%)

  • pattern_12: # seqlets: 114
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 114 / 133644 regions (0.1%)

  • pattern_13: # seqlets: 124
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 123 / 133644 regions (0.1%)

  • pattern_14: # seqlets: 117
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 117 / 133644 regions (0.1%)

  • pattern_15: # seqlets: 121
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 121 / 133644 regions (0.1%)

  • pattern_16: # seqlets: 140
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 140 / 133644 regions (0.1%)

  • pattern_17: # seqlets: 95
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 95 / 133644 regions (0.1%)

  • pattern_18: # seqlets: 90
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 90 / 133644 regions (0.1%)

  • pattern_19: # seqlets: 92
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 92 / 133644 regions (0.1%)

  • pattern_20: # seqlets: 80
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 79 / 133644 regions (0.1%)

  • pattern_21: # seqlets: 74
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 74 / 133644 regions (0.1%)

metacluster_3, # patterns: 32, # seqlets: 20129, important for: Klf4,Nanog,Oct4,Sall4,Sox2
  • pattern_0: # seqlets: 8325
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 8162 / 133644 regions (6.1%)

  • pattern_1: # seqlets: 1722
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1695 / 133644 regions (1.3%)

  • pattern_2: # seqlets: 1185
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1180 / 133644 regions (0.9%)

  • pattern_3: # seqlets: 1032
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1020 / 133644 regions (0.8%)

  • pattern_4: # seqlets: 773
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 711 / 133644 regions (0.5%)

  • pattern_5: # seqlets: 801
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 796 / 133644 regions (0.6%)

  • pattern_6: # seqlets: 586
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 585 / 133644 regions (0.4%)

  • pattern_7: # seqlets: 561
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 556 / 133644 regions (0.4%)

  • pattern_8: # seqlets: 518
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 507 / 133644 regions (0.4%)

  • pattern_9: # seqlets: 475
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 471 / 133644 regions (0.4%)

  • pattern_10: # seqlets: 399
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 399 / 133644 regions (0.3%)

  • pattern_11: # seqlets: 441
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 426 / 133644 regions (0.3%)

  • pattern_12: # seqlets: 383
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 379 / 133644 regions (0.3%)

  • pattern_13: # seqlets: 323
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 323 / 133644 regions (0.2%)

  • pattern_14: # seqlets: 229
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 229 / 133644 regions (0.2%)

  • pattern_15: # seqlets: 228
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 228 / 133644 regions (0.2%)

  • pattern_16: # seqlets: 208
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 208 / 133644 regions (0.2%)

  • pattern_17: # seqlets: 186
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 184 / 133644 regions (0.1%)

  • pattern_18: # seqlets: 183
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 183 / 133644 regions (0.1%)

  • pattern_19: # seqlets: 162
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 162 / 133644 regions (0.1%)

  • pattern_20: # seqlets: 145
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 145 / 133644 regions (0.1%)

  • pattern_21: # seqlets: 148
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 148 / 133644 regions (0.1%)

  • pattern_22: # seqlets: 125
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 125 / 133644 regions (0.1%)

  • pattern_23: # seqlets: 114
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 114 / 133644 regions (0.1%)

  • pattern_24: # seqlets: 110
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 110 / 133644 regions (0.1%)

  • pattern_25: # seqlets: 110
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 110 / 133644 regions (0.1%)

  • pattern_26: # seqlets: 120
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 120 / 133644 regions (0.1%)

  • pattern_27: # seqlets: 104
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 101 / 133644 regions (0.1%)

  • pattern_28: # seqlets: 100
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 100 / 133644 regions (0.1%)

  • pattern_29: # seqlets: 99
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 99 / 133644 regions (0.1%)

  • pattern_30: # seqlets: 110
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 110 / 133644 regions (0.1%)

  • pattern_31: # seqlets: 124
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 124 / 133644 regions (0.1%)

metacluster_4, # patterns: 8, # seqlets: 4400, important for: Oct4,Sox2
  • pattern_0: # seqlets: 2427
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 2390 / 133644 regions (1.8%)

  • pattern_1: # seqlets: 824
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 814 / 133644 regions (0.6%)

  • pattern_2: # seqlets: 427
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 421 / 133644 regions (0.3%)

  • pattern_3: # seqlets: 253
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 250 / 133644 regions (0.2%)

  • pattern_4: # seqlets: 244
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 244 / 133644 regions (0.2%)

  • pattern_5: # seqlets: 96
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 96 / 133644 regions (0.1%)

  • pattern_6: # seqlets: 69
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 69 / 133644 regions (0.1%)

  • pattern_7: # seqlets: 60
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 60 / 133644 regions (0.0%)

metacluster_5, # patterns: 15, # seqlets: 5152, important for: Nanog,Oct4,Sall4,Sox2
  • pattern_0: # seqlets: 2299
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 2275 / 133644 regions (1.7%)

  • pattern_1: # seqlets: 807
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 807 / 133644 regions (0.6%)

  • pattern_2: # seqlets: 605
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 605 / 133644 regions (0.5%)

  • pattern_3: # seqlets: 221
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 221 / 133644 regions (0.2%)

  • pattern_4: # seqlets: 265
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 265 / 133644 regions (0.2%)

  • pattern_5: # seqlets: 120
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 120 / 133644 regions (0.1%)

  • pattern_6: # seqlets: 127
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 127 / 133644 regions (0.1%)

  • pattern_7: # seqlets: 120
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 120 / 133644 regions (0.1%)

  • pattern_8: # seqlets: 89
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 89 / 133644 regions (0.1%)

  • pattern_9: # seqlets: 84
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 81 / 133644 regions (0.1%)

  • pattern_10: # seqlets: 83
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 83 / 133644 regions (0.1%)

  • pattern_11: # seqlets: 108
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 108 / 133644 regions (0.1%)

  • pattern_12: # seqlets: 84
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 84 / 133644 regions (0.1%)

  • pattern_13: # seqlets: 65
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 65 / 133644 regions (0.0%)

  • pattern_14: # seqlets: 75
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 75 / 133644 regions (0.1%)

metacluster_7, # patterns: 11, # seqlets: 4187, important for: Klf4,Nanog,Oct4,Sox2
  • pattern_0: # seqlets: 984
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 976 / 133644 regions (0.7%)

  • pattern_1: # seqlets: 700
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 699 / 133644 regions (0.5%)

  • pattern_2: # seqlets: 521
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 516 / 133644 regions (0.4%)

  • pattern_3: # seqlets: 539
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 534 / 133644 regions (0.4%)

  • pattern_4: # seqlets: 398
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 395 / 133644 regions (0.3%)

  • pattern_5: # seqlets: 376
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 375 / 133644 regions (0.3%)

  • pattern_6: # seqlets: 177
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 177 / 133644 regions (0.1%)

  • pattern_7: # seqlets: 101
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 101 / 133644 regions (0.1%)

  • pattern_8: # seqlets: 171
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 171 / 133644 regions (0.1%)

  • pattern_9: # seqlets: 134
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 134 / 133644 regions (0.1%)

  • pattern_10: # seqlets: 86
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 83 / 133644 regions (0.1%)

metacluster_8, # patterns: 6, # seqlets: 1865, important for: Nanog
  • pattern_0: # seqlets: 1070
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1064 / 133644 regions (0.8%)

  • pattern_1: # seqlets: 262
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 261 / 133644 regions (0.2%)

  • pattern_2: # seqlets: 158
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 158 / 133644 regions (0.1%)

  • pattern_3: # seqlets: 185
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 185 / 133644 regions (0.1%)

  • pattern_4: # seqlets: 100
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 100 / 133644 regions (0.1%)

  • pattern_5: # seqlets: 90
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 90 / 133644 regions (0.1%)

metacluster_10, # patterns: 7, # seqlets: 2745, important for: Klf4,Sall4
  • pattern_0: # seqlets: 1305
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1296 / 133644 regions (1.0%)

  • pattern_1: # seqlets: 734
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 725 / 133644 regions (0.5%)

  • pattern_2: # seqlets: 276
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 276 / 133644 regions (0.2%)

  • pattern_3: # seqlets: 139
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 139 / 133644 regions (0.1%)

  • pattern_4: # seqlets: 115
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 115 / 133644 regions (0.1%)

  • pattern_5: # seqlets: 92
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 90 / 133644 regions (0.1%)

  • pattern_6: # seqlets: 84
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 84 / 133644 regions (0.1%)

metacluster_11, # patterns: 1, # seqlets: 1125, important for: Sox2
  • pattern_0: # seqlets: 1125
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 1121 / 133644 regions (0.8%)

metacluster_12, # patterns: 8, # seqlets: 1282, important for: Klf4,Nanog
  • pattern_0: # seqlets: 316
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 316 / 133644 regions (0.2%)

  • pattern_1: # seqlets: 202
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 201 / 133644 regions (0.2%)

  • pattern_2: # seqlets: 145
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 145 / 133644 regions (0.1%)

  • pattern_3: # seqlets: 110
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 110 / 133644 regions (0.1%)

  • pattern_4: # seqlets: 216
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 213 / 133644 regions (0.2%)

  • pattern_5: # seqlets: 89
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 89 / 133644 regions (0.1%)

  • pattern_6: # seqlets: 127
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 125 / 133644 regions (0.1%)

  • pattern_7: # seqlets: 77
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 77 / 133644 regions (0.1%)

metacluster_13, # patterns: 6, # seqlets: 1881, important for: Klf4,Nanog,Sall4
  • pattern_0: # seqlets: 950
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 939 / 133644 regions (0.7%)

  • pattern_1: # seqlets: 295
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 295 / 133644 regions (0.2%)

  • pattern_2: # seqlets: 281
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 281 / 133644 regions (0.2%)

  • pattern_3: # seqlets: 155
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 154 / 133644 regions (0.1%)

  • pattern_4: # seqlets: 95
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 95 / 133644 regions (0.1%)

  • pattern_5: # seqlets: 105
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 105 / 133644 regions (0.1%)

metacluster_14, # patterns: 7, # seqlets: 1784, important for: Klf4,Nanog,Sox2
  • pattern_0: # seqlets: 206
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 205 / 133644 regions (0.2%)

  • pattern_1: # seqlets: 388
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 386 / 133644 regions (0.3%)

  • pattern_2: # seqlets: 566
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 565 / 133644 regions (0.4%)

  • pattern_3: # seqlets: 173
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 172 / 133644 regions (0.1%)

  • pattern_4: # seqlets: 256
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 256 / 133644 regions (0.2%)

  • pattern_5: # seqlets: 93
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 93 / 133644 regions (0.1%)

  • pattern_6: # seqlets: 102
    Aggregated profiles and contribution scores)
    Aggregated hypothetical contribution scores)
    Sequence

    ChIP-nexus counts
    Importance scores (profile)
    Importance scores (counts)
    Positional distribution
    Total count distribution

    Pattern occurs in 102 / 133644 regions (0.1%)

In [17]:
print("Metaclusters heatmap")
import seaborn as sns
activity_patterns = np.array(mr.f.f['metaclustering_results']['attribute_vectors'])[
                    np.array(
        [x[0] for x in sorted(
                enumerate(mr.f.f['metaclustering_results']['metacluster_indices']),
               key=lambda x: x[1])])]
sns.heatmap(activity_patterns, center=0);

Metaclusters heatmap