ENSG00000111642

Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

Notes on IDR and IDR_w_binding: As the prediction of Intrinsically Disordered Regions (IDR) and Intrinsically Disordered Binding Regions (IDBR) are done by two different tools we require two things to annotate the Intrinsically Disordered Binding Regions (IDBR). Firstly the IDBR (predicted by ANCHOR2) must be a region of at least 15 amino acids (after the smoothing). Secondly the fraction of the IDBR which overlaps the IDR predictions (done by IUPred3, again after smoothing) must be at least 80%. When that is the case the IDR type will be annotated as “IDR_w_binding_region” instead of just “IDR”. The current default parameters have not been rigorously tested and should be considered experimental.

For the function of any other domain, please Click HERE to search it through Pfam database.

Results

isoform_id gene_id condition_1 condition_2 gene_name gene_biotype iso_biotype gene_overall_mean gene_value_1 gene_value_2 gene_stderr_1 gene_stderr_2 gene_log2_fold_change iso_overall_mean iso_value_1 iso_value_2 iso_stderr_1 iso_stderr_2 iso_log2_fold_change IF_overall IF1 IF2 dIF isoform_switch_q_value gene_switch_q_value PTC codingPotential
ENST00000544040 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 31.654261 26.949478 32.938673 4.8584762 0.5581209 0.2894278 0.25554583 0.14573333 0.33723333 0.19150000 7.224772e-05 3.140684e-86 FALSE TRUE
ENST00000642594 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 9.126176 11.566380 8.056945 1.2549679 0.2167604 -0.5210899 0.07041667 0.06230000 0.08250000 0.02020000 1.071748e-01 3.140684e-86 FALSE TRUE
ENST00000642637 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding nonsense_mediated_decay 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 15.367367 36.604349 0.000000 5.0805088 0.0000000 -11.8381934 0.09135000 0.19690000 0.00000000 -0.19690000 4.714840e-56 3.140684e-86 TRUE TRUE
ENST00000642879 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 6.166740 11.649021 0.000000 0.8239275 0.0000000 -10.1872309 0.03912083 0.06340000 0.00000000 -0.06340000 1.955141e-42 3.140684e-86 FALSE TRUE
ENST00000643815 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 14.809703 23.510288 6.467270 2.5931967 0.6474934 -1.8604480 0.10265417 0.12673333 0.06616667 -0.06056667 1.753148e-03 3.140684e-86 FALSE TRUE
ENST00000644289 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 5.008495 0.000000 8.278010 0.0000000 0.3428163 9.6948820 0.04885000 0.00000000 0.08480000 0.08480000 3.140684e-86 3.140684e-86 FALSE TRUE
ENST00000646806 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding protein_coding 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 18.191975 6.709307 27.630460 2.8034997 0.6049620 2.0403974 0.16478333 0.03623333 0.28300000 0.24676667 1.442223e-06 3.140684e-86 FALSE TRUE
ENST00000647112 ENSG00000111642 HEK293_OSMI2_2hA HEK293_TMG_2hB CHD4 protein_coding processed_transcript 133.6269 185.342 97.66949 11.34988 0.660581 -0.9241404 12.481367 37.583105 0.000000 8.7463505 0.0000000 -11.8762523 0.06945833 0.20063333 0.00000000 -0.20063333 1.947467e-32 3.140684e-86 FALSE TRUE
  • Note:
    • The comparisons made can be identified as “from ‘condition_1’ to ‘condition_2’”, meaning ‘condition_1’ is considered the ground state and ‘condition_2’ the changed state. This also means that a positive dIF value indicates that the isoform usage is increased in ‘condition_2’ compared to ‘condition_1’. Since the ‘isoformFeatures’ entry is the most relevant part of the switchAnalyzeRlist object, the most-used standard methods have also been implemented to work directly on isoformFeatures.