<!-- DTD for EXPERIMENT ANNOTATIONS -->

<!-- additional fixing: attribute nvalue always takes one valid float -->

<!-- Special characters
cannot be used within element names or enlisted attribute values
(at least the "XML viewer" did not like it). Therefore I substituted
the following (perl syntax):

  $line=~s/\+/_.PLUS._/g;
  $line=~s/\-/_.DASH._/g;
  $line=~s/\(/_.BRACKET_OPEN._/g;
  $line=~s/\)/_.BRACKET_CLOSE._/g;
  $line=~s/\&/_.AMP._/g;
  $line=~s/\:/_.COLON._/g;
  $line=~s/\*/_.STAR._/g;
  $line=~s/\</_.ST._/g;
  $line=~s/\>/_.GT._/g;
  $line=~s/'/_.APOS._/g;
  $line=~s/\"/_.QUOT._/g;
  $line=~s/\//_.SLASH._/g;
  $line=~s/\/_.BACKSLASH._/g;
  $line=~s/\?/_.QUESTIONM._/g;
  $line=~s/\%/_.PERCENT._/g;
  $line=~s/\;/_.SEMICOLON._/g;

The units are implemented as fixed values of attributes 'unit'. Here 
special characters are not substituted but given as ordinary entity 
references. 
-->

<!ELEMENT experiment_annotations (
  common_annotations,
  organism_specific_annotations)>

<!ATTLIST experiment_annotations
              measurement_or_imageID CDATA #REQUIRED>

 <!ELEMENT common_annotations (
   array,
   hybridisation,
   sample,
   submission)>

 <!ELEMENT organism_specific_annotations (
   genotype,
   pre_culture,
   main_culture)>

  <!ELEMENT array (
     array_source...1,
     array_series...2,
     array_individual...3,
     array_support...4,
     array_support_width...67,
     array_support_length...68,
     array_surface_chemistry...41,
     support_manufacturer...42,
     Hybond_support_brand...43,
     Pall_support_brand...44,
     Corning_support_brand...45,
     TeleChem_support_brand...46,
     spotted_material...5,
     spotted_material_property...69,
     number_of_elements_on_array__.BRACKET_OPEN._without_duplicates_.BRACKET_CLOSE._...70,
     elements_spotted_as...71,
     spotted_material_purification...47,
     spotting_buffer...48,
     spotting_robot...49,
     spotting_pins...50,
     relative_humidity...51,
     relative_humidity...52,
     temperature...53,
     temperature...54,
     postprocessing...55,
     uv_crosslink_applicable...77,
     uv_crosslink_energy...78,
     readfile...6,
     array_hybridisation...7)>

  <!ELEMENT hybridisation (
    RNA_preparation,
    labeling,
    hybridisation_conditions,
    stringency_wash,
    detection)>

  <!ELEMENT sample (
     amount_of_RNA...11,
     amount_of_cDNA...40,
     enzym...12,
     priming...13,
     nucleotide...14,
     nucleotide_removal...56,
     label...15,
     days_from_calibration_date_applicable...66,
     days_from_calibration_date...38,
     label_incorporation_rate...16,
     total_activity...17,
     buffer...18,
     prehybridization_without_target...57,
     competitors...19,
     hybridisation_device...75,
     hybridisation_instrument...76,
     hybridisation_temp...20,
     buffer_volume...21,
     coverslip_used...58,
     coverslip_size...59,
     hybridisation_length...22,
     wash_buffer...23,
     times...24,
     wash_length...25,
     temperature...26,
     exposure_time_applicable...60,
     exposure_time...27,
     measuring_device...28,
     scanning_software...72,
     spacial_resolution...73,
     pixelsize...61,
     PMT_setting_applicable...62,
     PMT_setting...63,
     laser_power_setting_applicable...64,
     laser_power_setting...65,
     imaging_software...29,
     background_correction...30,
     spot_detection...31,
     spot_dimension__.BRACKET_OPEN._diameter_.BRACKET_CLOSE._...74,
     spot_size...32,
     intensity_measurement...33,
     organism...34)>

  <!ELEMENT submission (
     buffer...18,
     prehybridization_without_target...57,
     competitors...19,
     hybridisation_device...75,
     hybridisation_instrument...76,
     hybridisation_temp...20,
     buffer_volume...21,
     coverslip_used...58,
     coverslip_size...59,
     hybridisation_length...22,
     wash_buffer...23,
     times...24,
     wash_length...25,
     temperature...26,
     exposure_time_applicable...60,
     exposure_time...27,
     measuring_device...28,
     scanning_software...72,
     spacial_resolution...73,
     pixelsize...61,
     PMT_setting_applicable...62,
     PMT_setting...63,
     laser_power_setting_applicable...64,
     laser_power_setting...65,
     imaging_software...29,
     background_correction...30,
     spot_detection...31,
     spot_dimension__.BRACKET_OPEN._diameter_.BRACKET_CLOSE._...74,
     spot_size...32,
     intensity_measurement...33,
     organism...34,
     date_of_entry_day...35,
     date_of_entry_month...36,
     date_of_entry_year...37,
     experimentator...39)>

  <!ELEMENT genotype (
     strain...7035,
     mating_type...7036,
     genetic_specification,
     resistance_marker)>

  <!ELEMENT pre_culture (
     culture...7066,
     growth_phase...7045,
     morphology...7070,
     life_cycle_status...7071,
     temperature...7046,
     pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7064,
     energy_metabolism...7047,
     light_periods...7072,
     medium_base...7073,
     C_source)>

  <!ELEMENT main_culture (
     culture...7074,
     growth_phase...7075,
     morphology...7076,
     life_cycle_status...7077,
     temperature...7078,
     pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7079,
     energy_metabolism...7080,
     medium,
     C_source,
     additive,
     growth_condition_shift,
     lighting_conditions)>

   <!ELEMENT RNA_preparation (
     material_source...8,
     preparation_of_total_RNA...9,
     preparation_of_PolyA_.PLUS._...10)>

   <!ELEMENT labeling (
     amount_of_RNA...11,
     amount_of_cDNA...40,
     enzym...12,
     priming...13,
     nucleotide...14,
     nucleotide_removal...56,
     label...15,
     days_from_calibration_date_applicable...66,
     days_from_calibration_date...38,
     label_incorporation_rate...16,
     total_activity...17)>

   <!ELEMENT hybridisation_conditions (
     buffer...18,
     prehybridization_without_target...57,
     competitors...19,
     hybridisation_device...75,
     hybridisation_instrument...76,
     hybridisation_temp...20,
     buffer_volume...21,
     coverslip_used...58,
     coverslip_size...59,
     hybridisation_length...22)>

   <!ELEMENT stringency_wash (
     wash_buffer...23,
     times...24,
     wash_length...25,
     temperature...26)>

   <!ELEMENT detection (
     exposure_time_applicable...60,
     exposure_time...27,
     measuring_device...28,
     scanning_software...72,
     spacial_resolution...73,
     pixelsize...61,
     PMT_setting_applicable...62,
     PMT_setting...63,
     laser_power_setting_applicable...64,
     laser_power_setting...65,
     imaging_software...29,
     background_correction...30,
     spot_detection...31,
     spot_dimension__.BRACKET_OPEN._diameter_.BRACKET_CLOSE._...74,
     spot_size...32,
     intensity_measurement...33)>

   <!ELEMENT genetic_specification (
     genetic_variation...7037,
     transgene...7038,
     2nd_genetic_variation...7056,
     2nd_transgene...7057,
     3rd_genetic_variation...7058,
     3rd_transgene...7059,
     4th_genetic_variation...7060,
     4th_transgene...7061,
     5th_genetic_variation...7062,
     5th_transgene...7063)>

   <!ELEMENT resistance_marker (
     leucine...7039,
     uracil...7040,
     tryptophan...7041,
     histidine...7042,
     lysine...7043,
     adenine...7044,
     arginine...7068,
     MPA__.BRACKET_OPEN._mycophenolic_acid_.BRACKET_CLOSE._...7069)>

   <!ELEMENT C_source (
     glucose...7049,
     galactose...7050,
     ethanol...7051,
     glycerol...7052,
     sucrose...7065,
     lactate...7067)>

   <!ELEMENT medium (
     base...7081)>

   <!ELEMENT C_source (
     glucose...7082,
     galactose...7083,
     ethanol...7084,
     glycerol...7085,
     sucrose...7086,
     lactate...7087)>

   <!ELEMENT additive (
     temporary_additive...7088,
     concentration...7089)>

   <!ELEMENT growth_condition_shift (
     incubation_period_with_additive...7090,
     incubation_period_after_temperature_shift...7091,
     incubation_period_after_ph_shift...7092,
     incubation_period_after_medium_shift...7093,
     incubation_period_after_C_source_shift...7094)>

   <!ELEMENT lighting_conditions (
     first_period...7095,
     first_period_duration...7096,
     second_period...7097,
     second_period_duration...7098)>

    <!ELEMENT array_source...1 EMPTY>
    <!ATTLIST array_source...1 cvalue (
      self_made...10 |
      genome_systems...11 |
      clontech...12 |
      research_genetics...13 ) #REQUIRED>

     <!ELEMENT array_series...2 EMPTY>
     <!ATTLIST array_series...2
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT array_individual...3 EMPTY>
     <!ATTLIST array_individual...3
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT array_support...4 EMPTY>
     <!ATTLIST array_support...4 cvalue (
      nylon...14 |
      polypropylene...15 |
      glass...16 ) #REQUIRED>

     <!ELEMENT array_support_width...67 EMPTY>
     <!ATTLIST array_support_width...67
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "mm" >

     <!ELEMENT array_support_length...68 EMPTY>
     <!ATTLIST array_support_length...68
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "mm" >

     <!ELEMENT array_surface_chemistry...41 EMPTY>
     <!ATTLIST array_surface_chemistry...41 cvalue (
      unknown_positive_charge...117 |
      poly_L_lysine...118 |
      aldehyde...119 |
      aminosilane...120 ) #REQUIRED>

     <!ELEMENT support_manufacturer...42 EMPTY>
     <!ATTLIST support_manufacturer...42 cvalue (
      Hybond...121 |
      Pall...122 |
      TeleChem...123 |
      Corning...124 |
      diehl...125 |
      stephan...126 ) #REQUIRED>

     <!ELEMENT Hybond_support_brand...43 EMPTY>
     <!ATTLIST Hybond_support_brand...43 cvalue (
      non_Hybond...127 |
      N_.PLUS._...128 ) #REQUIRED>

     <!ELEMENT Pall_support_brand...44 EMPTY>
     <!ATTLIST Pall_support_brand...44 cvalue (
      non_Pall...129 |
      Biodyne_B...130 |
      polypropylene...223 ) #REQUIRED>

     <!ELEMENT Corning_support_brand...45 EMPTY>
     <!ATTLIST Corning_support_brand...45 cvalue (
      non_Corning...131 |
      CMT_GAPS...132 ) #REQUIRED>

     <!ELEMENT TeleChem_support_brand...46 EMPTY>
     <!ATTLIST TeleChem_support_brand...46 cvalue (
      non_TeleChem...133 |
      Aldehyde...134 |
      SuperAldehyde...135 ) #REQUIRED>

     <!ELEMENT spotted_material...5 EMPTY>
     <!ATTLIST spotted_material...5 cvalue (
      PCR...17 |
      colonies...18 |
      DNA_.DASH._oligo...19 |
      PNA_.DASH._oligo...20 ) #REQUIRED>

     <!ELEMENT spotted_material_property...69 EMPTY>
     <!ATTLIST spotted_material_property...69 cvalue (
      single_stranded...200 |
      double_stranded...201 ) #REQUIRED>

     <!ELEMENT number_of_elements_on_array__.BRACKET_OPEN._without_duplicates_.BRACKET_CLOSE._...70 EMPTY>
     <!ATTLIST number_of_elements_on_array__.BRACKET_OPEN._without_duplicates_.BRACKET_CLOSE._...70
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT elements_spotted_as...71 EMPTY>
     <!ATTLIST elements_spotted_as...71 cvalue (
      single...202 |
      duplicate...203 |
      triplicate...204 ) #REQUIRED>

     <!ELEMENT spotted_material_purification...47 EMPTY>
     <!ATTLIST spotted_material_purification...47 cvalue (
      non...136 |
      isopropanol_precipitation...137 |
      QIAquick...138 |
      Multiscreen_NU_Millipore...139 ) #REQUIRED>

     <!ELEMENT spotting_buffer...48 EMPTY>
     <!ATTLIST spotting_buffer...48 cvalue (
      1.5M_NaCl_0.5M_NaOH...140 |
      28mM_EDC_4.4volpromill_NMI...141 |
      spottingsolution_by_diehl...142 |
      MicroSpotting_solution_TeleChem...143 |
      3xSSC...144 |
      3xSSC_50_.PERCENT._DMSO...145 |
      150mM_sodiumphosphate_pH8.5...227 |
      150mM_sodiumphosphate_pH8.5_0.01_.PERCENT._SDS...228 ) #REQUIRED>

     <!ELEMENT spotting_robot...49 EMPTY>
     <!ATTLIST spotting_robot...49 cvalue (
      SDDC_.DASH._2_ESI...146 |
      Biogrid_Biorobotics...147 |
      Microgrid_II_Biorobotics...148 |
      Omnigrid_Genemachines...149 |
      QArray_Genetix...150 ) #REQUIRED>

     <!ELEMENT spotting_pins...50 EMPTY>
     <!ATTLIST spotting_pins...50 cvalue (
      solid...151 |
      SMP_.DASH._3_Telechem...152 |
      Biogrid_Biorobotics...153 ) #REQUIRED>

     <!ELEMENT relative_humidity...51 EMPTY>
     <!ATTLIST relative_humidity...51 cvalue (
      defined...154 |
      estimated...155 |
      unknown_.BRACKET_OPEN._enter_0_.PERCENT.__.BRACKET_CLOSE._...156 ) #REQUIRED>

     <!ELEMENT relative_humidity...52 EMPTY>
     <!ATTLIST relative_humidity...52
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "&#x25;" >

     <!ELEMENT temperature...53 EMPTY>
     <!ATTLIST temperature...53 cvalue (
      defined...157 |
      estimated...158 |
      unknown_.BRACKET_OPEN._enter_0deg.C_.BRACKET_CLOSE._...159 ) #REQUIRED>

     <!ELEMENT temperature...54 EMPTY>
     <!ATTLIST temperature...54
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "deg.C" >

     <!ELEMENT postprocessing...55 EMPTY>
     <!ATTLIST postprocessing...55 cvalue (
      neutralizing_by_1.5MNaCL_0.5MTrispH7.5_1mMEDTA...160 |
      2h_at_65deg.C...161 |
      succinic_anhydride_Stanford_protocol...162 |
      succinic_anhydride_protocol_by_diehl...163 |
      BSA_Tigr_protocol...164 |
      NaBH4_Telechem_protocol...165 ) #REQUIRED>

     <!ELEMENT uv_crosslink_applicable...77 EMPTY>
     <!ATTLIST uv_crosslink_applicable...77 cvalue (
      no_.BRACKET_OPEN._enter_0_.BRACKET_CLOSE._...224 |
      yes...225 ) #REQUIRED>

     <!ELEMENT uv_crosslink_energy...78 EMPTY>
     <!ATTLIST uv_crosslink_energy...78
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "x100microJpercm2" >

     <!ELEMENT readfile...6 EMPTY>
     <!ATTLIST readfile...6
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT array_hybridisation...7 EMPTY>
     <!ATTLIST array_hybridisation...7
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

    <!ELEMENT material_source...8 EMPTY>
    <!ATTLIST material_source...8 cvalue (
      fresh...21 |
      frozen...22 |
      RNA_later...23 |
      cDNA_subtraction...94 ) #REQUIRED>

     <!ELEMENT preparation_of_total_RNA...9 EMPTY>
     <!ATTLIST preparation_of_total_RNA...9 cvalue (
      trizol...24 |
      columns...25 |
      phenol...26 |
      not_applicable...95 ) #REQUIRED>

     <!ELEMENT preparation_of_PolyA_.PLUS._...10 EMPTY>
     <!ATTLIST preparation_of_PolyA_.PLUS._...10 cvalue (
      none...27 |
      dynabeads...28 |
      oligotex...29 |
      cellulose...30 |
      not_applicable...96 ) #REQUIRED>

    <!ELEMENT amount_of_RNA...11 EMPTY>
    <!ATTLIST amount_of_RNA...11
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "microgram" >

    <!ELEMENT amount_of_cDNA...40 EMPTY>
    <!ATTLIST amount_of_cDNA...40
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "microgram" >

    <!ELEMENT enzym...12 EMPTY>
    <!ATTLIST enzym...12 cvalue (
      superscript...31 |
      AMV...32 |
      M_.DASH._MLV...33 |
      OmniScript...166 |
      klenow...97 ) #REQUIRED>

     <!ELEMENT priming...13 EMPTY>
     <!ATTLIST priming...13 cvalue (
      oligo_dT...34 |
      anchored_oligo_dT...35 |
      random_hexamer...36 |
      combined_oligo_dT_.DASH._random_hexamer...37 |
      pcr_select...98 ) #REQUIRED>

     <!ELEMENT nucleotide...14 EMPTY>
     <!ATTLIST nucleotide...14 cvalue (
      dCTP...38 |
      dATP...39 |
      aa_.DASH._dUTP...167 |
      dUTP...168 ) #REQUIRED>

     <!ELEMENT nucleotide_removal...56 EMPTY>
     <!ATTLIST nucleotide_removal...56 cvalue (
      G50_Pharmacia...169 |
      ammium_acetate_isopropanol_precipitation...170 |
      Na_acetate_isopropanol_precipitation...226 |
      QIAquick_Qiagen...171 |
      GFX_columns_Pharmacia...172 |
      YM30_Amicon...173 ) #REQUIRED>

     <!ELEMENT label...15 EMPTY>
     <!ATTLIST label...15 cvalue (
      33P...40 |
      32P...41 |
      Cy3...42 |
      Cy5...43 |
      Alexa488...174 |
      Alexa594...175 ) #REQUIRED>

     <!ELEMENT days_from_calibration_date_applicable...66 EMPTY>
     <!ATTLIST days_from_calibration_date_applicable...66 cvalue (
      yes...193 |
      no_.BRACKET_OPEN._enter_0d_.BRACKET_CLOSE._...194 ) #REQUIRED>

     <!ELEMENT days_from_calibration_date...38 EMPTY>
     <!ATTLIST days_from_calibration_date...38
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "d" >

     <!ELEMENT label_incorporation_rate...16 EMPTY>
     <!ATTLIST label_incorporation_rate...16
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "&#x25;" >

     <!ELEMENT total_activity...17 EMPTY>
     <!ATTLIST total_activity...17
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "cpm" >

    <!ELEMENT buffer...18 EMPTY>
    <!ATTLIST buffer...18 cvalue (
      0.5M_Na_phosphate_pH7.2_7_.PERCENT.__SDS...44 |
      5x_SSC_0.1_.PERCENT.__SDS...229 |
      Genisphere3DNA...230 |
      Genisphere3DNAformamide...231 |
      3x_SSC_2.5x_denhardts_0.08_.PERCENT.__SDS...232 |
      5x_SSC_5x_denhardts_0.5_.PERCENT.__SDS...45 |
      4x_SSC_7.2_.PERCENT.__Na_sarcosyl...46 |
      Clontech_Express_hyb...47 |
      ambion_Northern_max...48 |
      3x_SSC_5x_denhardts_1_.PERCENT.__SDS_5_.PERCENT.__dextransulfate_50_.PERCENT.__formamide...221 ) #REQUIRED>

     <!ELEMENT prehybridization_without_target...57 EMPTY>
     <!ATTLIST prehybridization_without_target...57 cvalue (
      no...176 |
      yes...177 ) #REQUIRED>

     <!ELEMENT competitors...19 EMPTY>
     <!ATTLIST competitors...19 cvalue (
      none...49 |
      tRNA...50 |
      Cot1...51 |
      dA20...217 |
      dA40...52 |
      salmon_sperm...53 |
      dA40_Cot1_salmonsperm...99 |
      dA40_Cot1_tRNA_salmonsperm...100 |
      dA40_Cot1_specificoligos_salmonsperm...101 |
      dA40_Cot1_specificoligos_tRNA_salmonsperm...102 ) #REQUIRED>

     <!ELEMENT hybridisation_device...75 EMPTY>
     <!ATTLIST hybridisation_device...75 cvalue (
      water_bath...211 |
      rotating_oven...212 ) #REQUIRED>

     <!ELEMENT hybridisation_instrument...76 EMPTY>
     <!ATTLIST hybridisation_instrument...76 cvalue (
      hybridisation_bottle...213 |
      hybridisation_chamber_corning...214 |
      hybridisation_chamber_TeleChem...215 |
      hybridisation_chamber_ClonTech...216 ) #REQUIRED>

     <!ELEMENT hybridisation_temp...20 EMPTY>
     <!ATTLIST hybridisation_temp...20
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "deg.C" >

     <!ELEMENT buffer_volume...21 EMPTY>
     <!ATTLIST buffer_volume...21
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "ml" >

     <!ELEMENT coverslip_used...58 EMPTY>
     <!ATTLIST coverslip_used...58 cvalue (
      no__.BRACKET_OPEN._enter_size_0_.BRACKET_CLOSE._...178 |
      yes...179 ) #REQUIRED>

     <!ELEMENT coverslip_size...59 EMPTY>
     <!ATTLIST coverslip_size...59
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "mmxmm" >

     <!ELEMENT hybridisation_length...22 EMPTY>
     <!ATTLIST hybridisation_length...22
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "h" >

    <!ELEMENT wash_buffer...23 EMPTY>
    <!ATTLIST wash_buffer...23 cvalue (
      0.1xSSC_0.1_.PERCENT._SDS...54 |
      0.6xSSC_1_.PERCENT._SDS...55 |
      0.2xSSC_0.1_.PERCENT._SDS...56 |
      0.2xSSC...222 |
      0.1xSSC...233 |
      0.06xSSC...234 |
      40mMNaPipH7_0.1_.PERCENT._SDS...57 ) #REQUIRED>

     <!ELEMENT times...24 EMPTY>
     <!ATTLIST times...24
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT wash_length...25 EMPTY>
     <!ATTLIST wash_length...25
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "min" >

     <!ELEMENT temperature...26 EMPTY>
     <!ATTLIST temperature...26
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "deg.C" >

    <!ELEMENT exposure_time_applicable...60 EMPTY>
    <!ATTLIST exposure_time_applicable...60 cvalue (
      yes...180 |
      no__.BRACKET_OPEN._enter_0h_.BRACKET_CLOSE._...181 ) #REQUIRED>

     <!ELEMENT exposure_time...27 EMPTY>
     <!ATTLIST exposure_time...27
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "h" >

     <!ELEMENT measuring_device...28 EMPTY>
     <!ATTLIST measuring_device...28 cvalue (
      MD_storm860_phos...58 |
      MD_storm860_red...59 |
      MD_storm860_blue...60 |
      MD_425...113 |
      MD_475A_phos...114 |
      Fuji_BAS1500...61 |
      Fuji_FLA3000...109 |
      BioRad...62 |
      ScanArray3000_GSI_Lumonics...63 |
      ScanArray5000_GSI_Lumonics...182 |
      Axon_4000a_Axon...183 ) #REQUIRED>

     <!ELEMENT scanning_software...72 EMPTY>
     <!ATTLIST scanning_software...72 cvalue (
      Fuji_Image_Reader_FLA3000_3000G_V1.0...205 |
      BAS_reader_V2.26beta...206 |
      Storm_scanner_control...207 |
      Typhoon_scanner_control_V1.0...208 |
      Scan_Array3000_V3.11_Controller_V2.03...209 |
      Scan_Array_V2.1...210 ) #REQUIRED>

     <!ELEMENT spacial_resolution...73 EMPTY>
     <!ATTLIST spacial_resolution...73
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "microm" >

     <!ELEMENT pixelsize...61 EMPTY>
     <!ATTLIST pixelsize...61
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "micromxmicrom" >

     <!ELEMENT PMT_setting_applicable...62 EMPTY>
     <!ATTLIST PMT_setting_applicable...62 cvalue (
      no_.BRACKET_OPEN._enter_0_.PERCENT.__.BRACKET_CLOSE._...184 |
      yes...185 ) #REQUIRED>

     <!ELEMENT PMT_setting...63 EMPTY>
     <!ATTLIST PMT_setting...63
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "&#x25;" >

     <!ELEMENT laser_power_setting_applicable...64 EMPTY>
     <!ATTLIST laser_power_setting_applicable...64 cvalue (
      no_.BRACKET_OPEN._enter_0_.PERCENT.__.BRACKET_CLOSE._...186 |
      yes...187 ) #REQUIRED>

     <!ELEMENT laser_power_setting...65 EMPTY>
     <!ATTLIST laser_power_setting...65
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "&#x25;" >

     <!ELEMENT imaging_software...29 EMPTY>
     <!ATTLIST imaging_software...29 cvalue (
      AIS...64 |
      HDG...65 |
      XDotsReader...66 |
      imagene...67 |
      Xdigitise...68 |
      GenePixPro...188 |
      QuantArray...189 ) #REQUIRED>

     <!ELEMENT background_correction...30 EMPTY>
     <!ATTLIST background_correction...30 cvalue (
      none...69 |
      local_background...70 |
      block_background...71 |
      empty_spots_average...72 |
      empty_spots_per_block...73 ) #REQUIRED>

     <!ELEMENT spot_detection...31 EMPTY>
     <!ATTLIST spot_detection...31 cvalue (
      all_spots...74 |
      only_positive_spots...75 ) #REQUIRED>

     <!ELEMENT spot_dimension__.BRACKET_OPEN._diameter_.BRACKET_CLOSE._...74 EMPTY>
     <!ATTLIST spot_dimension__.BRACKET_OPEN._diameter_.BRACKET_CLOSE._...74
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "microm" >

     <!ELEMENT spot_size...32 EMPTY>
     <!ATTLIST spot_size...32 cvalue (
      fixed...76 |
      variable...77 ) #REQUIRED>

     <!ELEMENT intensity_measurement...33 EMPTY>
     <!ATTLIST intensity_measurement...33 cvalue (
      highest_value_in_spot_centre...78 |
      sum_of_pixels_within_boundary...79 |
      mean_of_pixels_within_boundary...80 ) #REQUIRED>

    <!ELEMENT organism...34 EMPTY>
    <!ATTLIST organism...34 cvalue (
      Saccharomyces_cerevisiae...81 |
      Arabidopsis_thaliana...82 |
      murine_biopsy...83 |
      murine_cell_line...103 |
      human_biopsy...84 |
      human_cell_line...85 |
      Bacillus_subtilis...86 |
      Trypanosoma_brucei...192 |
      Candida_albicans...199 |
      Neurospora_crassa...220 ) #REQUIRED>

    <!ELEMENT date_of_entry_day...35 EMPTY>
    <!ATTLIST date_of_entry_day...35
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "" >

    <!ELEMENT date_of_entry_month...36 EMPTY>
    <!ATTLIST date_of_entry_month...36
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "" >

    <!ELEMENT date_of_entry_year...37 EMPTY>
    <!ATTLIST date_of_entry_year...37
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "" >

    <!ELEMENT experimentator...39 EMPTY>
    <!ATTLIST experimentator...39 cvalue (
      aign...218 |
      bastuk...104 |
      bauer...235 |
      becerra...115 |
      bier...105 |
      boer...88 |
      diehl...190 |
      fischer...196 |
      grahlmann...191 |
      grees...219 |
      hauser...87 |
      kornacker...91 |
      lagorce...112 |
      lombardia...107 |
      lutz...90 |
      meijer...108 |
      mendel...92 |
      reile...198 |
      scheideler...195 |
      schrenk...197 |
      steiner...111 |
      sueltmann...110 |
      tournu...106 |
      wilmer...89 |
      wittig...93 |
      yin...116 ) #REQUIRED>

    <!ELEMENT strain...7035 EMPTY>
    <!ATTLIST strain...7035 cvalue (
      Sc_FY1679...7087 |
      RS453...7088 |
      Y546...7089 |
      CEN_PK2...7090 |
      3E2...7091 |
      702...7092 |
      MYC730...7124 |
      T73...7125 |
      WC4alpha...7126 |
      YSH2alpha...7127 |
      FY73...7128 |
      L5528...7129 |
      L5743...7130 |
      W303...7139 |
      FY834...7140 |
      AR27...7141 |
      X2180...7142 |
      aGH1...7143 |
      SEY6210...7149 |
      Ca_SC5314_.BRACKET_OPEN._Can14_.BRACKET_CLOSE._...7150 |
      Ca_CAI_4...7151 |
      Nc_740R23_1A...7152 |
      Nc_deltaWC_1...7153 |
      Nc_deltaWC_2...7154 ) #REQUIRED>

     <!ELEMENT mating_type...7036 EMPTY>
     <!ATTLIST mating_type...7036 cvalue (
      a...7093 |
      alpha...7094 |
      both...7095 |
      not_applicable...7155 ) #REQUIRED>

    <!ELEMENT genetic_variation...7037 EMPTY>
    <!ATTLIST genetic_variation...7037 cvalue (
      WT...7100 |
      mutation...7096 |
      mutation_heterozygous...7156 |
      ko...7097 |
      ko_heterozygous...7157 |
      overexpression...7098 |
      inducible_promoter...7099 |
      clinical_isolate...7158 ) #REQUIRED>

     <!ELEMENT transgene...7038 EMPTY>
     <!ATTLIST transgene...7038
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "no_in_y1_genes" >

     <!ELEMENT 2nd_genetic_variation...7056 EMPTY>
     <!ATTLIST 2nd_genetic_variation...7056 cvalue (
      WT...7100 |
      mutation...7096 |
      mutation_heterozygous...7156 |
      ko...7097 |
      ko_heterozygous...7157 |
      overexpression...7098 |
      inducible_promoter...7099 |
      clinical_isolate...7158 ) #REQUIRED>

     <!ELEMENT 2nd_transgene...7057 EMPTY>
     <!ATTLIST 2nd_transgene...7057
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "no_in_y1_genes" >

     <!ELEMENT 3rd_genetic_variation...7058 EMPTY>
     <!ATTLIST 3rd_genetic_variation...7058 cvalue (
      WT...7100 |
      mutation...7096 |
      mutation_heterozygous...7156 |
      ko...7097 |
      ko_heterozygous...7157 |
      overexpression...7098 |
      inducible_promoter...7099 |
      clinical_isolate...7158 ) #REQUIRED>

     <!ELEMENT 3rd_transgene...7059 EMPTY>
     <!ATTLIST 3rd_transgene...7059
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "no_in_y1_genes" >

     <!ELEMENT 4th_genetic_variation...7060 EMPTY>
     <!ATTLIST 4th_genetic_variation...7060 cvalue (
      WT...7100 |
      mutation...7096 |
      mutation_heterozygous...7156 |
      ko...7097 |
      ko_heterozygous...7157 |
      overexpression...7098 |
      inducible_promoter...7099 |
      clinical_isolate...7158 ) #REQUIRED>

     <!ELEMENT 4th_transgene...7061 EMPTY>
     <!ATTLIST 4th_transgene...7061
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "no_in_y1_genes" >

     <!ELEMENT 5th_genetic_variation...7062 EMPTY>
     <!ATTLIST 5th_genetic_variation...7062 cvalue (
      WT...7100 |
      mutation...7096 |
      mutation_heterozygous...7156 |
      ko...7097 |
      ko_heterozygous...7157 |
      overexpression...7098 |
      inducible_promoter...7099 |
      clinical_isolate...7158 ) #REQUIRED>

     <!ELEMENT 5th_transgene...7063 EMPTY>
     <!ATTLIST 5th_transgene...7063
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "no_in_y1_genes" >

    <!ELEMENT leucine...7039 EMPTY>
    <!ATTLIST leucine...7039 cvalue (
      yes...7101 |
      no...7102 ) #REQUIRED>

     <!ELEMENT uracil...7040 EMPTY>
     <!ATTLIST uracil...7040 cvalue (
      yes...7103 |
      no...7104 ) #REQUIRED>

     <!ELEMENT tryptophan...7041 EMPTY>
     <!ATTLIST tryptophan...7041 cvalue (
      yes...7105 |
      no...7106 ) #REQUIRED>

     <!ELEMENT histidine...7042 EMPTY>
     <!ATTLIST histidine...7042 cvalue (
      yes...7107 |
      no...7108 ) #REQUIRED>

     <!ELEMENT lysine...7043 EMPTY>
     <!ATTLIST lysine...7043 cvalue (
      yes...7109 |
      no...7110 ) #REQUIRED>

     <!ELEMENT adenine...7044 EMPTY>
     <!ATTLIST adenine...7044 cvalue (
      yes...7111 |
      no...7112 ) #REQUIRED>

     <!ELEMENT arginine...7068 EMPTY>
     <!ATTLIST arginine...7068 cvalue (
      no...7159 |
      yes...7160 ) #REQUIRED>

     <!ELEMENT MPA__.BRACKET_OPEN._mycophenolic_acid_.BRACKET_CLOSE._...7069 EMPTY>
     <!ATTLIST MPA__.BRACKET_OPEN._mycophenolic_acid_.BRACKET_CLOSE._...7069 cvalue (
      no...7161 |
      yes...7162 ) #REQUIRED>

    <!ELEMENT culture...7066 EMPTY>
    <!ATTLIST culture...7066 cvalue (
      liquid...7137 |
      solid...7138 |
      glycerol_stock...7163 ) #REQUIRED>

     <!ELEMENT growth_phase...7045 EMPTY>
     <!ATTLIST growth_phase...7045 cvalue (
      exponential...7113 |
      pseudo_hyphal...7131 |
      stationary...7114 |
      arrested...7147 |
      unknown...7164 ) #REQUIRED>

     <!ELEMENT morphology...7070 EMPTY>
     <!ATTLIST morphology...7070 cvalue (
      unknown...7165 |
      yeasty...7166 |
      hyphal...7167 |
      pseudo_hyphal...7168 ) #REQUIRED>

     <!ELEMENT life_cycle_status...7071 EMPTY>
     <!ATTLIST life_cycle_status...7071 cvalue (
      unknown...7169 |
      conidial...7170 |
      mycedial...7171 |
      perithecial...7172 ) #REQUIRED>

     <!ELEMENT temperature...7046 EMPTY>
     <!ATTLIST temperature...7046
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "deg.C" >

     <!ELEMENT pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7064 EMPTY>
     <!ATTLIST pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7064
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT energy_metabolism...7047 EMPTY>
     <!ATTLIST energy_metabolism...7047 cvalue (
      aerob...7115 |
      anaerob...7116 ) #REQUIRED>

     <!ELEMENT light_periods...7072 EMPTY>
     <!ATTLIST light_periods...7072 cvalue (
      unknown...7173 |
      dark...7174 |
      light...7175 ) #REQUIRED>

     <!ELEMENT medium_base...7073 EMPTY>
     <!ATTLIST medium_base...7073 cvalue (
      YP...7176 |
      SC...7177 |
      MV...7178 |
      YNB...7179 |
      YNB_without_aa_without_am_sulfate...7180 |
      YNB_without_calcium...7181 |
      CM...7182 |
      alpha_MEM...7183 |
      RPMI...7184 |
      spider...7185 |
      LEE...7186 |
      mouse...7187 |
      cell_culture...7188 |
      Vogels_minimal...7189 ) #REQUIRED>

    <!ELEMENT glucose...7049 EMPTY>
    <!ATTLIST glucose...7049
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT galactose...7050 EMPTY>
    <!ATTLIST galactose...7050
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT ethanol...7051 EMPTY>
    <!ATTLIST ethanol...7051
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT glycerol...7052 EMPTY>
    <!ATTLIST glycerol...7052
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT sucrose...7065 EMPTY>
    <!ATTLIST sucrose...7065
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT lactate...7067 EMPTY>
    <!ATTLIST lactate...7067
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT culture...7074 EMPTY>
    <!ATTLIST culture...7074 cvalue (
      liquid...7190 |
      solid...7191 ) #REQUIRED>

     <!ELEMENT growth_phase...7075 EMPTY>
     <!ATTLIST growth_phase...7075 cvalue (
      unknown...7192 |
      exponential...7193 |
      stationary...7194 |
      arrested...7195 ) #REQUIRED>

     <!ELEMENT morphology...7076 EMPTY>
     <!ATTLIST morphology...7076 cvalue (
      unknown...7196 |
      yeasty...7197 |
      hyphal...7198 |
      pseudo_hyphal...7199 ) #REQUIRED>

     <!ELEMENT life_cycle_status...7077 EMPTY>
     <!ATTLIST life_cycle_status...7077 cvalue (
      unknown...7200 |
      conidial...7201 |
      mycedial...7202 |
      perithecial...7203 ) #REQUIRED>

     <!ELEMENT temperature...7078 EMPTY>
     <!ATTLIST temperature...7078
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "deg.C" >

     <!ELEMENT pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7079 EMPTY>
     <!ATTLIST pH__.BRACKET_OPEN._enter_0_if_unknown_.BRACKET_CLOSE._...7079
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "" >

     <!ELEMENT energy_metabolism...7080 EMPTY>
     <!ATTLIST energy_metabolism...7080 cvalue (
      aerob...7204 |
      anaerob...7205 ) #REQUIRED>

    <!ELEMENT base...7081 EMPTY>
    <!ATTLIST base...7081 cvalue (
      YP...7206 |
      SC...7207 |
      MV...7208 |
      YNB...7209 |
      YNB_without_aa_without_am_sulfate...7210 |
      YNB_without_calcium...7211 |
      CM...7212 |
      alpha_MEM...7213 |
      RPMI...7214 |
      spider...7215 |
      LEE...7216 |
      mouse...7217 |
      cell_culture...7218 |
      Vogels_minimal...7219 ) #REQUIRED>

    <!ELEMENT glucose...7082 EMPTY>
    <!ATTLIST glucose...7082
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT galactose...7083 EMPTY>
    <!ATTLIST galactose...7083
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT ethanol...7084 EMPTY>
    <!ATTLIST ethanol...7084
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT glycerol...7085 EMPTY>
    <!ATTLIST glycerol...7085
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT sucrose...7086 EMPTY>
    <!ATTLIST sucrose...7086
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT lactate...7087 EMPTY>
    <!ATTLIST lactate...7087
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "&#x25;" >

    <!ELEMENT temporary_additive...7088 EMPTY>
    <!ATTLIST temporary_additive...7088 cvalue (
      none...7220 |
      H2O2...7221 |
      NaCl...7222 |
      calcium...7223 |
      isoamylalcohol...7224 |
      sorbitol...7225 |
      ammonium_sulfate...7226 |
      glucose...7227 |
      FCS...7228 ) #REQUIRED>

     <!ELEMENT concentration...7089 EMPTY>
     <!ATTLIST concentration...7089
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "mM" >

    <!ELEMENT incubation_period_with_additive...7090 EMPTY>
    <!ATTLIST incubation_period_with_additive...7090
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "min" >

    <!ELEMENT incubation_period_after_temperature_shift...7091 EMPTY>
    <!ATTLIST incubation_period_after_temperature_shift...7091
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "min" >

    <!ELEMENT incubation_period_after_ph_shift...7092 EMPTY>
    <!ATTLIST incubation_period_after_ph_shift...7092
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "min" >

    <!ELEMENT incubation_period_after_medium_shift...7093 EMPTY>
    <!ATTLIST incubation_period_after_medium_shift...7093
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "min" >

    <!ELEMENT incubation_period_after_C_source_shift...7094 EMPTY>
    <!ATTLIST incubation_period_after_C_source_shift...7094
                  nvalue CDATA #REQUIRED
                  unit CDATA #FIXED "min" >

    <!ELEMENT first_period...7095 EMPTY>
    <!ATTLIST first_period...7095 cvalue (
      dark...7229 |
      light...7230 ) #REQUIRED>

     <!ELEMENT first_period_duration...7096 EMPTY>
     <!ATTLIST first_period_duration...7096
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "h" >

     <!ELEMENT second_period...7097 EMPTY>
     <!ATTLIST second_period...7097 cvalue (
      dark...7231 |
      light...7232 ) #REQUIRED>

     <!ELEMENT second_period_duration...7098 EMPTY>
     <!ATTLIST second_period_duration...7098
                   nvalue CDATA #REQUIRED
                   unit CDATA #FIXED "h" >