Team:Heidelberg/Modeling/descriptions

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Modeling Training Set

Parameterization Concept

Training Set Overview

mi/shRNA-name sequence BSsequence number of BS perfect? bulged? bulge size seed type 3'-score AU-score knockdown% experimental conditions
miR122_102 TGGAGTGTGACAATGGTGTT- TGT GACAAACACCATTGTCACAC- TCCA 1 1 0 0 0 0 0
miR122_106 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATGAAGACACT- CCA 1 0 1 4 3 7.5 0.624
miR122_134 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATACGGACACT- CCAGAGACACAAACACCA- TGAAGACACTCCA 2 0 1 4 3 7.5 0.576
miR122_136 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATACGGACACT- CCA 1 0 1 4 3 7.5 0.595
miR122_197 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATGTCGACACT- CCA 1 0 1 4 3 7.5 0.597
miR122_199 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATGCCAACACT- CCA 1 0 1 4 3 7.5 0.603
miR122_201 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATACGAACACT- CCA 1 0 1 4 3 7.5 0.624
miR122_203 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATGCAGACACT- CCA 1 0 1 4 3 7.5 0.6
miR122_277 TGGAGTGTGACAATGGTGTT- TGT ACAAACACCATGCCTACACT- CCA 1 0 1 4 3 7.5 0.603
miR122_138 TGGAGTGTGACAATGGTGTT- TGT GGCCAGCACCATTTCACACA- CACTCCTTCTAGAGGCCGCT- GGC 1 0 0 0 2 5 0.336
miR122_140 TGGAGTGTGACAATGGTGTT- TGT GCCCCTGATGGGGGCGACAC- TCCATCTAGAGGCCGCTGGC 1 0 0 0 3 1.5 0.327
miR122_142 TGGAGTGTGACAATGGTGTT- TGT GACTAAGGCTGCTCCATCAA- CACTCCATCTAGAGGCCGCT- GGC 1 0 0 0 3 4 0.314
miR122_144 TGGAGTGTGACAATGGTGTT- TGT GCAATGGAGAGTCACCTAGA- CACTCCATCTAGAGGCCGCT- GGC 1 0 0 0 3 2.5 0.314
miR122_146 TGGAGTGTGACAATGGTGTT- TGT GACTTGAGCAGAACAAACAC- TCCATCTAGAGGCCGCTGGC 1 0 0 0 3 2 0.327
miR122_148 TGGAGTGTGACAATGGTGTT- TGT GCAAATCATGATCAAAAACA- CTCCCTCTAGAGGCCGCTGG- C 1 0 0 0 2 2.5 0.221
sAg_19_bs_r10_12_acg_fw GAACAAATGGCACTAGTAA TTACTAGACGCATTTGTTC 1 0 1 3 2 5.5 0.442
sAg_19_bs_r10_12_taa_fw GAACAAATGGCACTAGTAA TTACTAGTAACATTTGTTC 1 0 1 2 2 6 0.492
sAg_19_bs_r9_12_acgg_fw GAACAAATGGCACTAGTAA TTACTAGACGGATTTGTTC 1 0 1 4 2 5.5 0.442
sAg_19_bs_r9_12_atgt_fw GAACAAATGGCACTAGTAA TTACTAGATGTATTTGTTC 1 0 1 4 2 5.5 0.495
sAg_19_bs_m10cg_fw GAACAAATGGCACTAGTAA TTACTAGTGGCATTTGTTC 1 0 1 1 2 6.5 0.442
sAg_19_bs_m10ca_fw GAACAAATGGCACTAGTAA TTACTAGTGACATTTGTTC 1 0 1 1 2 6.5 0.496
sAg_19_bs_m11gc_fw GAACAAATGGCACTAGTAA TTACTAGTCCCATTTGTTC 1 0 1 1 2 6 0.442
sAg_19_bs_m11ga_fw GAACAAATGGCACTAGTAA TTACTAGTACCATTTGTTC 1 0 1 1 2 6 0.466
sAg_19_bs_onlyseed_fw_E GAACAAATGGCACTAGTAA AATGATCACGGATTTGTTC 1 0 0 0 2 0 0.442
sAg_19_bs_p_fw_E GAACAAATGGCACTAGTAA TTACTAGTGCCATTTGTTC 1 1 0 0 0 0 0
sag_25_1 GAACAAATGGCACTAGTAAA- CTGAG ATAATTTGTTCATTTGTTC 2 0 0 0 2 1.5 0.491
sag_25_2 GAACAAATGGCACTAGTAAA- CTGAG ATAATTTGTTCATTTGTTCA- TTTGTTC 3 0 0 0 2 1.5 0.491
sag_25_3 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGTGCCATTTGT- TCAAAUAUAGCC 1 1 0 0 0 0 0
sag_25_4 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGTGCAATTTGT- TAAAAUUUAGCC 1 0 1 1 3 8.5 0.587
sag_25_5 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGTGAAATTTGT- TAAAAUUUAGCC 1 0 1 2 3 8 0.587
sag_25_6 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGTAAAATTTGT- TAAAAUUUAGCC 1 0 1 3 3 7.5 0.587
sag_25_7 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGAAAAATTTGT- TAAAAUUUAGCC 1 0 1 4 3 7 0.587
sag_25_8 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCAATTATAAATTTGT- TAAAAUUUAGCC 1 0 0 0 3 2 0.603
sag_25_9 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCAGCCGCAAATTTGT- TAAAGGCCCGCC 1 0 0 0 3 2 0.305
sag_25_10 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCAGCTATAATTTTG- TTAAAAUUUAGCC 1 0 0 0 1 2.5 0.69
sag_25_11 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACGCCGTAAATTTG- TTGAAGGCCCGCC 1 0 0 0 2 4 0.226
sag_25_12 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCAATTATAAATTTG- TTGAAAUUUAGCC 1 0 0 0 2 2 0.526
sag_25_13 GAACAAATGGCACTAGTAAA- CTGAG TCCTTACTAGTGCAATTTG- TTAAAGGCCCGCC 1 0 0 0 3 7 0.305
sag_25_14 GAACAAATGGCACTAGTAAA- CTGAG CTGAATATAGTGAAATTTG- TTAAAAUUUAGCC 1 0 0 0 3 4 0.603
sag_25_15 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTACCTAATTTTG- TTAAAAUCCGGCC 1 0 0 0 1 4 0.497
sag_25_16 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCCTAGTGGATTTTG- TTAAAGGCCCGCC 1 0 0 0 1 5 0.366
sag_25_17 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACATTGCAAATTTG- TTGAAGGCCCGCC 1 0 0 0 2 4 0.226
sag_25_18 GAACAAATGGCACTAGTAAA- CTGAG CTGGGACTAGTGCAATTTG- TTGAAGGCCCGCC 1 0 0 0 2 6 0.226
sag_25_20 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGAAAATTTTG- TTAAAAUUUAGCC 1 0 0 0 1 7 0.69
sag_25_21 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGAAAAATTTG- TTGAAAUUUAGCC 1 0 0 0 2 7 0.526
sag_25_23 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCATAGATAATTTTG- TTAAAAUUUAGCC 1 0 0 0 1 3 0.69
sag_25_24 GAACAAATGGCACTAGTAAA- CTGAG CTGGTACTAGCTAATTTTG- TTAAAAUCCGGCC 1 0 0 0 1 5 0.497
sag_25_25 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTAGCCGATTTTG- TTAAAGGCCCGCC 1 0 0 0 1 7 0.366
sag_25_26 GAACAAATGGCACTAGTAAA- CTGAG CTGGGCCTAGAAAAATTTG- TTGAAAUCCGGCC 1 0 0 0 2 4 0.348
sag_25_27 GAACAAATGGCACTAGTAAA- CTGAG CTTTTACTAGAAAAATTTG- TTGAAUUUAGCC 1 0 0 0 2 6 0.51
sag_25_28 GAACAAATGGCACTAGTAAA- CTGAG CTGGTACTAGGCAAATTTG- TTGAAGGCCCGCC 1 0 0 0 2 5 0.226
sag_25_29 GAACAAATGGCACTAGTAAA- CTGAG GCTTTACTAGAAAAATTTG- TTAAAAUUUAGCC 1 0 0 0 3 6 0.603
sag_25_30 GAACAAATGGCACTAGTAAA- CTGAG AGTTTACTTTAAAAATTTG- TTAAAAUUUAGCC 1 0 0 0 3 5 0.603
haat_bs_p_fw AAACATGCCTAAACGCTTC GAAGCGTTTAGGCATGTTT 1 1 0 0 0 0 0
haat_bs_r10_12_aat_fw AAACATGCCTAAACGCTTC GAAGCGTAATGGCATGTTT 1 0 1 3 2 5.5 0.799
haat_bs_r10_12_agc_fw AAACATGCCTAAACGCTTC GAAGCGTAGCGGCATGTTT 1 0 1 3 2 5.5 0.749
haat_bs_m10at_fw AAACATGCCTAAACGCTTC GAAGCGTTTTGGCATGTTT 1 0 1 1 2 6.5 0.799
haat_bs_m10ac_fw AAACATGCCTAAACGCTTC GAAGCGTTTCGGCATGTTT 1 0 1 1 2 6.5 0.773
haat_bs_m11ta_fw AAACATGCCTAAACGCTTC GAAGCGTTAAGGCATGTTT 1 0 1 1 2 1.5 0.38
haat_bs_m11tg_fw AAACATGCCTAAACGCTTC GAAGCGTTGAGGCATGTTT 1 0 1 1 2 1.5 0.38
haat_bs_r9_12_aatc_fw AAACATGCCTAAACGCTTC GAAGCGTAATCGCATGTTT 1 0 1 4 2 1.5 0.38
haat_bs_r9_12_agcc_fw AAACATGCCTAAACGCTTC GAAGCGTAGCCGCATGTTT 1 0 1 4 2 1.5 0.38
haat_bs_onlyseed_fw AAACATGCCTAAACGCTTC CTTCGCAAATCGCATGTTT 1 0 1 0 2 2 0.799

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