Changes between Version 32 and Version 33 of TrackRelabelling


Ignore:
Timestamp:
Oct 20, 2014, 2:30:58 PM (6 years ago)
Author:
mah79
Comment:

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  • TrackRelabelling

    v32 v33  
    1313||E||Citation||First author (year)||Soriano(2013)||
    1414
    15 Note: a number of specific track labels were stored here temporarily. Most have been deleted (but can be seen in the page history); a few have been retained as illustrative examples:
     15Note: a number of specific track labels were stored here temporarily. Most have been deleted (but can be seen in the page history); a few have been retained as illustrative examples.
     16
     17=== Examples ===
     18Nucleosome positioning - selected tracks from Soriano (2013) PMID:24256300
     19
     20||A||B||C||D||E||
     21|| nucleosome positioning|| NGS||mitosis, pat1.114, diploid||-|| Soriano (2013) ||
     22|| nucleosome positioning|| NGS||meiosis 0h, pat1.114, diploid || - || Soriano (2013) ||
    1623
    1724
    18 || '''Soriano 2013''' ||
    19 ||  || Soriano 2013 MN_Mit || nucleosome positioning|| NGS|| mitosis, 972 h-, haploid||  -||  Soriano (2013) ||
    20 ||  || Soriano 2013 MN_Mit-pat1.114 || nucleosome positioning|| NGS|| mitosis, pat1.114, diploid||-|| Soriano (2013) ||
    21 ||  || Soriano 2013 MN_Mei0h || nucleosome positioning|| NGS|| meiosis 0h, pat1.114, diploid || - || Soriano (2013) ||
    22 ||  || Soriano 2013 MN_Mei3h || nucleosome positioning|| NGS|| meiosis 3h, pat1.114, diploid || - ||Soriano (2013) ||
    23 ||  || Soriano 2013 MN_Mei5h || nucleosome positioning|| NGS|| meiosis 5h, pat1.114, diploid|| - ||Soriano (2013) ||
    24 ||  || Soriano 2013 MN Mit || nucleosome positioning|| tiling microarray|| mitosis, 972 h-, haploid|| - ||Soriano (2013) ||
    25 ||  || Soriano 2013 MN_pcr1D || nucleosome positioning|| tiling microarray|| mitosis, pcr1(delta), haploid|| - ||Soriano (2013) ||
    26 ||  || Soriano 2013 MN_atf1D || nucleosome positioning|| tiling microarray|| mitosis, atf1(delta), haploid|| - ||Soriano (2013) ||
    27 ||  || Soriano 2013 - RNA_Mit (Reverse Strand) || transcripts|| tiling microarray|| mitosis, 972h-, haploid || reverse strand ||Soriano (2013) ||
    28 ||  || Soriano 2013 - RNA_Mit (Forward Strand) || transcripts|| tiling microarray|| mitosis, 972h-, haploid || forward strand ||Soriano (2013) ||
    29 ||  || Soriano 2013 - RNA_Mit_pat1.114 (Reverse Strand) || transcripts|| tiling microarray|| mitosis, pat1.114, diploid || reverse strand ||Soriano (2013) ||
    30 ||  || Soriano 2013 - RNA_Mit_pat1.114 (Forward Strand) || transcripts|| tiling microarray|| mitosis, pat1.114, diploid || forward strand ||Soriano (2013) ||
    31 ||  || Soriano 2013 - RNA_Mei0h (Reverse Strand) || transcripts|| tiling microarray|| meiosis 0h, pat1.114, diploid || reverse strand ||Soriano (2013) ||
    32 ||  || Soriano 2013 - RNA_Mei0h (Forward Strand) || transcripts|| tiling microarray|| meiosis 0h, pat1.114, diploid || forward strand ||Soriano (2013) ||
    33 ||  || Soriano 2013 - RNA_Mei3h (Reverse Strand) || transcripts|| tiling microarray|| meiosis 3h, pat1.114, diploid || reverse strand ||Soriano (2013) ||
    34 ||  || Soriano 2013 - RNA_Mei3h (Forward Strand) || transcripts|| tiling microarray|| meiosis 3h, pat1.114, diploid || forward strand ||Soriano (2013) ||
    35 ||  || Soriano 2013 - RNA_Mei5h (Reverse Strand) || transcripts|| tiling microarray|| meiosis 5h, pat1.114, diploid || reverse strand ||Soriano (2013) ||
    36 ||  || Soriano 2013 - RNA_Mei5h (Forward Strand) || transcripts|| tiling microarray|| meiosis 5h, pat1.114, diploid || forward strand ||Soriano (2013) ||
    37 ||  || Soriano 2013 - RNA_atf1D (Reverse Strand) || transcripts|| tiling microarray|| mitosis, atf1(delta), haploid || reverse strand ||Soriano (2013) ||
    38 ||  || Soriano 2013 - RNA_atf1D (Forward Strand) || transcripts|| tiling microarray|| mitosis, atf1(delta), haploid || forward strand ||Soriano (2013) ||
    39 ||  || Soriano 2013 - RNA_pcr1D (Reverse Strand) || transcripts|| tiling microarray|| mitosis, pcr1(delta), haploid || reverse strand ||Soriano (2013) ||
    40 ||  || Soriano 2013 - RNA_pcr1D (Forward Strand) || transcripts|| tiling microarray|| mitosis, pcr1(delta), haploid || forward strand ||Soriano (2013) ||
     25Transcripts - selected tracks from Soriano (2013) PMID:24256300
    4126
     27||A||B||C||D||E||
     28|| transcripts|| tiling microarray|| mitosis, 972h-, haploid || forward strand ||Soriano (2013) ||
     29|| transcripts|| tiling microarray|| mitosis, pat1.114, diploid || reverse strand ||Soriano (2013) ||
    4230
    43 ||'''Mata 2013'''||
    44 ||||Mata, 2013 (Forward Strand) ||poly(A) sites || mRNA end sequencing || 972 h- || forward strand || Mata (2013)||
    45 ||||Mata, 2013 (Reverse Strand) ||poly(A) sites || mRNA end sequencing || 972 h- || reverse strand || Mata (2013)||
     31poly(A) sites - tracks from Schlackow (2013) PMID: 24152550
    4632
    47 ||'''Schlackow 2013'''||
    48 ||||Schlackow 2013 All Combined (Forward Strand) ||poly(A) sites || RNA-Seq || all data || forward strand || Schlackow (2013)||
    49 ||||Schlackow 2013 All Combined (Reverse Strand) ||poly(A) sites || RNA-Seq || all data || reverse strand || Schlackow (2013)||
    50 ||||Schlackow 2013 All Strand Specific Combined (Forward Strand) ||poly(A) sites || RNA-Seq || all strand-specific data || forward strand || Schlackow (2013)||
    51 ||||Schlackow 2013 All Strand Specific Combined (Reverse Strand) ||poly(A) sites || RNA-Seq || all strand-specific data || reverse strand || Schlackow (2013)||
    52 ||||Schlackow 2013 Non-strand Specific Cycling (Forward Strand) ||poly(A) sites || RNA-Seq || cycling, non-strand-specific, 972 h- || forward strand || Schlackow (2013)||
    53 ||||Schlackow 2013 Non-strand Specific Cycling (Reverse Strand) ||poly(A) sites || RNA-Seq || cycling, non-strand-specific, 972 h- || reverse strand || Schlackow (2013)||
    54 ||||Schlackow 2013 Meiosis Arrested (Forward Strand) ||poly(A) sites || RNA-Seq || meiotic arrest, pat1-114 diploid || forward strand || Schlackow (2013)||
    55 ||||Schlackow 2013 Meiosis Arrested (Reverse Strand) ||poly(A) sites || RNA-Seq || meiotic arrest, pat1-114 diploid || reverse strand || Schlackow (2013)||
    56 ||||Schlackow 2013 Quiescence Arrested 24hours Nitrogen Depletion (Forward Strand) ||poly(A) sites || RNA-Seq || quiescence 24h, 972 h- || forward strand || Schlackow (2013)||
    57 ||||Schlackow 2013 Quiescence Arrested 24hours Nitrogen Depletion (Reverse Strand) ||poly(A) sites || RNA-Seq || quiescence 24h, 972 h- || reverse strand || Schlackow (2013)||
    58 ||||Schlackow 2013 Quiescence Arrested 7days Nitrogen Depletion (Forward Strand) ||poly(A) sites || RNA-Seq || quiescence 7d, 972 h- || forward strand || Schlackow (2013)||
    59 ||||Schlackow 2013 Quiescence Arrested 7days Nitrogen Depletion (Reverse Strand) ||poly(A) sites || RNA-Seq || quiescence 7d, 972 h- || reverse strand || Schlackow (2013)||
     33||A||B||C||D||E||
     34||poly(A) sites || RNA-Seq || all strand-specific data || reverse strand || Schlackow (2013)||
     35||poly(A) sites || RNA-Seq || cycling, non-strand-specific, 972 h- || forward strand || Schlackow (2013)||
    6036
     37Chromatin binding - selected tracks from Woolcock (2013) PMID:21151114
    6138
    62 ||'''Xu 2012''' [note: called "Rhind 2012" in test browser, but J. Xu is 1st author]||
    63 ||||Rhind 2012 WT elutriated HU||replication origins || HT sequencing || wild type, elutriation, +HU ||  Xu (2012)||
    64 ||||Rhind 2012 cdc25 release HU ||replication origins || HT sequencing || cdc25-ts, block/release, +HU ||  Xu (2012)||
    65 ||||Rhind 2012 dfp1-3A elutriated HU ||replication origins || HT sequencing || dfp1-3A, elutriation, +HU ||  Xu (2012)||
    66 
    67 ||'''Rhind 2011'''||
    68 ||||72 features from 'Rhind 2011 - All Data (Forward Strand)' omitted ||transcripts || RNA-seq || all data || forward strand || Rhind (2011)||
    69 ||||547 features from 'Rhind 2011 - All Data (Reverse Strand)' omitted ||transcripts || RNA-seq || all data || reverse strand || Rhind (2011)||
    70 |||| [none] ||transcripts || RNA-seq || log phase || forward strand || Rhind (2011)||
    71 |||| [none] ||transcripts || RNA-seq || log phase || reverse strand || Rhind (2011)||
    72 |||| [none] ||transcripts || RNA-seq || glucose depletion || forward strand || Rhind (2011)||
    73 ||||50 features from 'Rhind 2011 - Glucose Depletion (Reverse Strand)' omitted ||transcripts || RNA-seq || glucose depletion || reverse strand || Rhind (2011)||
    74 |||| [none] ||transcripts || RNA-seq || heat shock || forward strand || Rhind (2011)||
    75 |||| [none] ||transcripts || RNA-seq || heat shock || reverse strand || Rhind (2011)||
    76 |||| [none] ||transcripts || RNA-seq || stationary phase || forward strand || Rhind (2011)||
    77 ||||159 features from 'Rhind 2011 - Stationary Phase (Reverse Strand)' omitted ||transcripts || RNA-seq || stationary phase || reverse strand || Rhind (2011)||
    78 
    79 || '''Woolcock 2011''' ||
    80 ||  || Woolcock 2011 - DamSwi6_SPB330_1_vs_Damonly_SPB380_1 (12795472081) || chromatin binding|| DamID / tiling array||Swi6 binding sites, unfused Dam used as experimental control, repeat 1 ||  -||  Woolcock (2011) ||
    81 ||  || Woolcock 2011 - DamSwi6_SPB330_2_vs_Damonly_SPB380_2 (12795472484) || chromatin binding|| DamID / tiling array||Swi6 binding sites, unfused Dam used as experimental control, repeat 2 ||  -||  Woolcock (2011) ||
    82 ||  || Woolcock 2011 - DamSwi6_SPB330_3_vs_Damonly_SPB380_3 (12795472877) || chromatin binding|| DamID / tiling array||Swi6 binding sites, unfused Dam used as experimental control, repeat 3 ||  -||  Woolcock (2011) ||
    83 ||  || Woolcock 2011 - DamSwi6_SPB330_1_vs_DamSwi6_clr4D_SPB483_1 (12795472353) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta) used as experimental control, repeat 1 ||  -||  Woolcock (2011) ||
    84 ||  || Woolcock 2011 - DamSwi6_SPB330_2_vs_DamSwi6_clr4D_SPB483_2 (12795472746) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta) used as experimental control, repeat 2 ||  -||  Woolcock (2011) ||
    85 ||  || Woolcock 2011 - DamSwi6_SPB330_3_vs_DamSwi6_clr4D_SPB483_3 (12795473149) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta) used as experimental control, repeat 3 ||  -||  Woolcock (2011) ||
    86 ||  || Woolcock 2011 - DamSwi6_clr4D_SPB483_1_vs_Damonly_clr4D_SPB482_1 (12795472222) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta), repeat 1 ||  -||  Woolcock (2011) ||
    87 ||  || Woolcock 2011 - DamSwi6_clr4D_SPB483_2_vs_Damonly_clr4D_SPB482_2 (12795472615) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta), repeat 2 ||  -||  Woolcock (2011) ||
    88 ||  || Woolcock 2011 - DamSwi6_clr4D_SPB483_3_vs_Damonly_clr4D_SPB482_3 (12795473018) || chromatin binding|| DamID / tiling array||Swi6 binding sites, clr4(delta), repeat 3 ||  -||  Woolcock (2011) ||
    89 ||  || Woolcock 2011 - DamSwi6_dcr1D_SPB491_1_vs_DamSwi6_clr4D_SPB483_4 (127954732710) || chromatin binding|| DamID / tiling array||Swi6 binding sites, dcr1(delta), repeat 1 ||  -||  Woolcock (2011) ||
    90 ||  || Woolcock 2011 - DamSwi6_dcr1D_SPB491_2_vs_DamSwi6_clr4D_SPB483_5 (127954734011) || chromatin binding|| DamID / tiling array||Swi6 binding sites, dcr1(delta), repeat 2 ||  -||  Woolcock (2011) ||
    91 ||  || Woolcock 2011 - DamDcr1_SPB381_1_vs_Damonly_SPB492_1 (127954735412) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, repeat 1 ||  -||  Woolcock (2011) ||
    92 ||  || Woolcock 2011 - DamDcr1_SPB381_2_vs_Damonly_SPB492_2 (127954739315) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, repeat 2 ||  -||  Woolcock (2011) ||
    93 ||  || Woolcock 2011 - DamDcr1_SPB381_3_vs_Damonly_SPB492_3 (127954743318) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, repeat 3 ||  -||  Woolcock (2011) ||
    94 ||  || Woolcock 2011 - DamArb1_SPB382_1_vs_Damonly_SPB492_1 (127954736713) || chromatin binding|| DamID / tiling array||Arb1 binding sites, repeat 1 ||  -||  Woolcock (2011) ||
    95 ||  || Woolcock 2011 - DamArb1_SPB382_2_vs_Damonly_SPB492_2 (127954740616) || chromatin binding|| DamID / tiling array||Arb1 binding sites, repeat 2 ||  -||  Woolcock (2011) ||
    96 ||  || Woolcock 2011 - DamArb1_SPB382_3_vs_Damonly_SPB492_3 (127954744619) || chromatin binding|| DamID / tiling array||Arb1 binding sites, repeat 3 ||  -||  Woolcock (2011) ||
    97 ||  || Woolcock 2011 - DamRdp1_SPB494_1_vs_Damonly_SPB492_1 (127954738014) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, repeat 1 ||  -||  Woolcock (2011) ||
    98 ||  || Woolcock 2011 - DamRdp1_SPB494_2_vs_Damonly_SPB492_2 (127954742017) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, repeat 2 ||  -||  Woolcock (2011) ||
    99 ||  || Woolcock 2011 - DamRdp1_SPB494_3_vs_Damonly_SPB492_3 (127954745920) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, repeat 3 ||  -||  Woolcock (2011) ||
    100 ||  || Woolcock 2011 - DamDcr1_clr4D_SPB433_1_vs_Damonly_clr4D_SPB432_1 (127954747221) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, clr4(delta), repeat 1 ||  -||  Woolcock (2011) ||
    101 ||  || Woolcock 2011 - DamDcr1_clr4D_SPB709_2_vs_Damonly_clr4D_SPB711_2 (127954749923) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, clr4(delta), repeat 2 ||  -||  Woolcock (2011) ||
    102 ||  || Woolcock 2011 - DamDcr1_clr4D_SPB709_3_vs_Damonly_clr4D_SPB711_3 (127954753826) || chromatin binding|| DamID / tiling array||Dcr1 binding sites, clr4(delta), repeat 3 ||  -||  Woolcock (2011) ||
    103 ||  || Woolcock 2011 - DamArb1_clr4D_SPB434_1_vs_Damonly_clr4D_SPB432_1 (127954748522) || chromatin binding|| DamID / tiling array||Arb1 binding sites, clr4(delta), repeat 1 ||  -||  Woolcock (2011) ||
    104 ||  || Woolcock 2011 - DamArb1_clr4D_SPB710_2_vs_Damonly_clr4D_SPB711_2 (127954751224) || chromatin binding|| DamID / tiling array||Arb1 binding sites, clr4(delta), repeat 2 ||  -||  Woolcock (2011) ||
    105 ||  || Woolcock 2011 - DamArb1_clr4D_SPB710_3_vs_Damonly_clr4D_SPB711_3 (127954755127) || chromatin binding|| DamID / tiling array||Arb1 binding sites, clr4(delta), repeat 3 ||  -||  Woolcock (2011) ||
    106 ||  || Woolcock 2011 - DamRdp1_clr4D_SPB712_1_vs_Damonly_clr4D_SPB711_2 (127954752525) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, clr4(delta), repeat 1 ||  -||  Woolcock (2011) ||
    107 ||  || Woolcock 2011 - DamRdp1_clr4D_SPB712_2_vs_Damonly_clr4D_SPB711_3 (127954756428) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, clr4(delta), repeat 2 ||  -||  Woolcock (2011) ||
    108 ||  || Woolcock 2011 - DamRdp1_clr4D_SPB712_3_vs_Damonly_clr4D_SPB711_4 (127954757729) || chromatin binding|| DamID / tiling array||Rdp1 binding sites, clr4(delta), repeat 3 ||  -|| Woolcock (2011) ||
    109 
    110 
    111 
    112 
    113 
    114 Note: For the Mata poly(A) data, col C is blank because the only difference is strand, and col D covers that.
     39||A||B||C||D||E||
     40|| chromatin binding|| DamID / tiling array||Swi6 binding sites, unfused Dam used as experimental control, repeat 1 ||  -||  Woolcock (2011) ||
     41|| chromatin binding|| DamID / tiling array||Swi6 binding sites, unfused Dam used as experimental control, repeat 2 ||  -||  Woolcock (2011) ||
     42|| chromatin binding|| DamID / tiling array||Dcr1 binding sites, repeat 1 ||  -||  Woolcock (2011) ||
     43|| chromatin binding|| DamID / tiling array||Dcr1 binding sites, repeat 2 ||  -||  Woolcock (2011) ||
    11544
    11645== Lists of track component content used to date (last updated 2014-10-20): ==
     
    12554 * DamID / tiling array
    12655 * HT sequencing
     56 * mRNA end sequencing
    12757 * NGS
    12858 * RNA-seq