ABCDEFGHIJKLMNOPQRSTUVWXYZAA
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rearrangement_ID
path_to_processed_hic_datarearrangement_typecell_type
capture_WT_raw_data
capture_Mut_raw_data
cite
genome_assembly
chrstart_captureend_capturestart1end1start2end2start3end3start4end4start5end5
start6
end6
comments
path_to_processed_CTCF_data
CTCF_raw_data
CTCF_input
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Kit30./hic_data/deletion/Kit30/deletionmast_cellour dataour datamm10chr5741300007641500075852780.075881218.0./CTCF_data/mast_cells.narrowPeakour dataour data
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Kit30plus./hic_data/deletion/Kit30plus/deletionmast_cellour dataour datamm10chr5741300007641500075736367.0757336679.075852780.075881218.0./CTCF_data/mast_cells.narrowPeakour dataour data
4
MusDelB./hic_data/deletion/MusDelB/deletion
E11.5 distal limb buds
SRR5099908SRR5099909
Bianco Simona et al. "Polymer physics predicts the effects of structural variants on chromatin architecture." Nature genetics 50.5 (2018): 662-667.
mm10chr1709450008101000076395828.078067689.0./CTCF_data/CTCF_HL-E115.narrowPeak
SRX1975285-SRX1975286
SRX4096939
5
DelBs./hic_data/deletion/DelBs/deletion
E11.5 distal limb buds
SRR5099908SRR5099910
Bianco Simona et al. "Polymer physics predicts the effects of structural variants on chromatin architecture." Nature genetics 50.5 (2018): 662-667.
mm10chr17,64E+077,79E+07./CTCF_data/CTCF_HL-E115.narrowPeak
SRX1975285-SRX1975286
SRX4096939
6
DelB./hic_data/deletion/DelB/deletionhuman fibroblastsSRX2416656SRX2416657
Bianco Simona et al. "Polymer physics predicts the effects of structural variants on chromatin architecture." Nature genetics 50.5 (2018): 662-667.
hg38chr22,17E+082,23E+08220413511.0222149613.0_
7
Bor./hic_data/deletion/Bor/deletionE12.5 limb budsSRX1593831SRX1593833
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111522545.0111540886.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096941
8
DelL-Mm./hic_data/deletion/DelL-Mm/deletionForelimb E11.5
SRX3175632; SRX3175633; SRX3175634; SRX3175635
SRX3175656-SRX3175657
Kragesteen Bjѓсrt K. et al. "Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis." Nature genetics 50.10 (2018): 1463-1473.
mm10chr13538950015720000056048376.056147390.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096942
9
Neur1-Mm./hic_data/deletion/Neur1-Mm/deletionForelimb E11.5
SRX3175632; SRX3175633; SRX3175634; SRX3175635
SRX3175662-SRX3175663
Kragesteen Bjѓсrt K. et al. "Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis." Nature genetics 50.10 (2018): 1463-1473.
mm10chr13538950015720000056219601.056264136.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096943
10
ZRSreg./hic_data/deletion/ZRSreg/deletionFLHL
SRX5099269; SRX5099270; SRX5764173
SRX5764174;
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr5274600003034500029314818.029315227.0
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096944
11
Lprom./hic_data/deletion/Lprom/deletionFLHL
SRX5099269; SRX5099270; SRX5764173
SRX5099268; SRX5764172
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr52746000030345000
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096945
12
FirreKO_1./hic_data/deletion/FirreKO_1/deletionMEF female
SRX3241571-SRX3241578
SRX3241579-SRX3241585
Barutcu A. Rasim et al. "A TAD boundary is preserved upon deletion of the CTCF-rich Firre locus." Nature communications 9.1 (2018): 1-11.
mm10chrX505500005067500050555286.050637116.0./CTCF_data/CTCF_MEF.narrowPeak
SRX3230671-SRX3230678
SRX3230694-SRX3230695
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FirreKO_2./hic_data/deletion/FirreKO_2/deletionMEF male
SRX3241586-SRX3241589
SRX3241590-SRX3241595
Barutcu A. Rasim et al. "A TAD boundary is preserved upon deletion of the CTCF-rich Firre locus." Nature communications 9.1 (2018): 1-11.
mm10chrX505500005067500050555286.050637116.0./CTCF_data/CTCF_MEF.narrowPeak
SRX3230671-SRX3230678
SRX4096947
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FirreKO_3./hic_data/deletion/FirreKO_3/deletionmESC male
SRX3269798-SRX3269799
SRX3269796-SRX3269797
Barutcu A. Rasim et al. "A TAD boundary is preserved upon deletion of the CTCF-rich Firre locus." Nature communications 9.1 (2018): 1-11.
mm10chrX505500005067500050555286.050637116.0./CTCF_data/CTCF_MEF.narrowPeak
SRX3230671-SRX3230678
SRX4096948
15
del1-13d9lac_1./hic_data/deletion/del1-13d9lac_1/deletion_2Distal Forelimb E12SRX3024410SRX3024412
Rodrѓiguez-Carballo Eddie et al. "The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes." Genes & development 31.22 (2017): 2264-2281.
mm10chr2709450008101500074663890.074693921.074701834.074764314.0./CTCF_data/CTCF_DFL_E12.narrowPeakSRX3024492SRX4096949
16
del1-13d9lac_2./hic_data/deletion/del1-13d9lac_2/deletion_2
Proximal Forelimb E12
SRX3024415SRX3024413
Rodrѓiguez-Carballo Eddie et al. "The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes." Genes & development 31.22 (2017): 2264-2281.
mm10chr2709450008101500074663890.074693921.074701834.074764314.0./CTCF_data/CTCF_PFL_E12.narrowPeakSRX3024493SRX4096950
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delattP-Rel5d9lac_1
./hic_data/deletion/delattP-Rel5d9lac_1/deletion_2Distal Forelimb E12SRX3024410SRX3024414
Rodrѓiguez-Carballo Eddie et al. "The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes." Genes & development 31.22 (2017): 2264-2281.
mm10chr2709450008101500074422050.074693922.074701834.07468746.0./CTCF_data/CTCF_DFL_E12.narrowPeakSRX3024492SRX4096951
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delattP-Rel5d9lac_2
./hic_data/deletion/delattP-Rel5d9lac_2/deletion_2
Proximal Forelimb E12
SRX3024415SRX3024415
Rodrѓiguez-Carballo Eddie et al. "The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes." Genes & development 31.22 (2017): 2264-2281.
mm10chr27,09E+078,10E+0774422050.074693922.074701834.07468746.0./CTCF_data/CTCF_PFL_E12.narrowPeakSRX3024493SRX4096952
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BorC1./hic_data/deletion/BorC1/deletion_2E12.5 limb budsSRX1593831SRX5260103
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111904229.0111904329.0111522535.0111540879.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096953
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D3839./hic_data/deletion/D3839/deletion_2erythroid cells
SRX2741786-SRX2741788; SRX2741771-SRX2741773; SRX2741762-SRX2741764
SRX2741789-SRX2741791;
Kragesteen Bjѓсrt K. et al. "Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis." Nature genetics 50.10 (2018): 1463-1473.
mm10chr11321900003233500032238646.032238667.032237202.032237228.0_
21
i4i5./hic_data/deletion/i4i5/deletion_2FLHL
SRX5099269; SRX5099270; SRX5764173
SRX5099264; SRX5099265
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr52,75E+073,03E+0729293392.029293421.029336029.029336056.0
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096949
22
BorC1-2./hic_data/deletion/BorC1-2/deletion_3E12.5 limb budsSRX1593831SRX5260104
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08112209542.0112209642.0111522535.0111540879.0111653006.0111653106.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096950
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i4i5ZRSreg./hic_data/deletion/i4i5ZRSreg/deletion_3FLHL
SRX5099269; SRX5099270; SRX5764173
SRX5764177; SRX5764178
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr5274600003034500029293392.029293421.029336029.029336056.029314818.029315227.0
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096951
24
i4i5ZRS_1./hic_data/deletion/i4i5ZRS_1/deletion_3FLHL
SRX5099269; SRX5099270; SRX5764173
SRX5099266; SRX5099267
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr5274600003034500029293392.029293421.029336029.029336056.029314814.029314832.0
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096952
25
i4i5ZRS_2./hic_data/deletion/i4i5ZRS_2/deletion_3midbrain
SRX5099272; SRX5099273
SRX5764175; SRX5764176
Paliou Christina et al. "Preformed chromatin topology assists transcriptional robustness of Shh during limb development." Proceedings of the National Academy of Sciences 116.25 (2019): 12390-12399.
mm10chr52,75E+073,03E+0729293392.029293421.029336029.029336056.029314814.029314832.0
./CTCF_data/CTCF_FLHL-E105.narrowPeak
SRX5099280;SRX5099281
SRX4096953
26
BorC1-4./hic_data/deletion/BorC1-4/deletion_5E12.5 limb budsSRX1593831SRX5260105
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111522535.0111540879.0111514320.0111653006.0111653106.0111904229.0111904329.0
111964807.0
112103393.0
112103493.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096954
27
dup-S./hic_data/duplication/dup-S/duplicationE12.5 limb budsSRX1593831SRX1889696
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111891303.0112311622.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096955
28
dup-L./hic_data/duplication/dup-L/duplicationE12.5 limb budsSRX1593831SRX1593832
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111098275.0112653378.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096956
29
dup-C./hic_data/duplication/dup-C/duplicationE12.5 limb budsSRX1593831SRX1889695
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08110910796.0112653378.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096957
30
Dup-LBor./hic_data/duplication_deletion/Dup-LBor/duplication_deletionE12.5 limb budsSRX1593831SRX1593834
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111098275.0112653378.0111522545.0111540886.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096958
31
InvF./hic_data/inversion/InvF/inversion
E11.5 distal limb buds
SRR5099908SRR5099911
Bianco Simona et al. "Polymer physics predicts the effects of structural variants on chromatin architecture." Nature genetics 50.5 (2018): 662-667.
mm10chr1709450008101000074786262.075902132.0./CTCF_data/CTCF_HL-E115.narrowPeak
SRX1975285-SRX1975286
SRX4096959
32
Inv1./hic_data/inversion/Inv1/inversionforelimb E11.5SRX4369709SRX4369710
Kraft Katerina et al. "Serial genomic inversions induce tissue-specific architectural stripes gene misexpression and congenital malformations." Nature cell biology 21.3 (2019): 305-310.
mm10chr1709450008101500075279391.075902131.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096960
33
Inv2./hic_data/inversion/Inv2/inversionforelimb E11.5SRX4369709SRX4369711
Kraft Katerina et al. "Serial genomic inversions induce tissue-specific architectural stripes gene misexpression and congenital malformations." Nature cell biology 21.3 (2019): 305-310.
mm10chr1709450008101500075135035.075902131.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096961
34
Inv3./hic_data/inversion/Inv3/inversionforelimb E11.5SRX4369709SRX4369712
Kraft Katerina et al. "Serial genomic inversions induce tissue-specific architectural stripes gene misexpression and congenital malformations." Nature cell biology 21.3 (2019): 305-310.
mm10chr1709450008101500074887741.075902131.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096962
35
Inv4./hic_data/inversion/Inv4/inversionforelimb E11.5SRX4369709SRX4369713
Kraft Katerina et al. "Serial genomic inversions induce tissue-specific architectural stripes gene misexpression and congenital malformations." Nature cell biology 21.3 (2019): 305-310.
mm10chr170945000810150007489655.078902131.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096963
36
Inv1d./hic_data/inversion/Inv1d/inversionforelimb E11.5SRX4369709SRX4369714
Kraft Katerina et al. "Serial genomic inversions induce tissue-specific architectural stripes gene misexpression and congenital malformations." Nature cell biology 21.3 (2019): 305-310.
mm10chr17,09E+078,10E+0775650966.075655176.0./CTCF_data/CTCF_FL-E115.narrowPeakSRX1975279SRX4096964
37
InvC./hic_data/inversion/InvC/inversionE12.5 limb budsSRX1593831SRX5260108
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111522535.0112653434.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096965
38
InvIntra./hic_data/inversion/InvIntra/inversionE12.5 limb budsSRX1593831SRX5260109
Franke Martin et al. "Formation of new chromatin domains determines pathogenicity of genomic duplications." Nature 538.7624 (2016): 265-269.
mm10chr111,09E+081,15E+08111540879.0112653434.0./CTCF_data/CTCF_E125.narrowPeak
SRX5259427-SRX5259428
SRX4096966
39
Inv1-Mm_1./hic_data/inversion/Inv1-Mm_1/inversionHindlimb E11.5
SRX3175636; SRX3175637; SRX3175638; SRX3175639;
SRX3542185; SRX4112993
Kragesteen Bjѓсrt K. et al. "Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis." Nature genetics 50.10 (2018): 1463-1473.
mm10chr13538950015720000056048376.056160753.0./CTCF_data/CTCF_HL-E115.narrowPeak
SRX1975285-SRX1975286
SRX4096967
40
Inv1-Mm_2./hic_data/inversion/Inv1-Mm_2/inversionForelimb E11.5
SRX3175632; SRX3175633; SRX3175634; SRX3175635
SRX3175654-SRX3175655
Kragesteen Bjѓсrt K. et al. "Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis." Nature genetics 50.10 (2018): 1463-1473.
mm10chr13538950015720000056048376.056160753.0./CTCF_data/CTCF_HL-E115.narrowPeak
SRX1975285-SRX1975286
SRX4096968
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