diff --git a/README.md b/README.md
index 58fc288f79fbfb45eb97eb2fe47d73afe8c185f9..57e0bba1ea39a1623a7474103a3b72061e179a1d 100644
--- a/README.md
+++ b/README.md
@@ -5,169 +5,94 @@ Germann AT, Nakielski A, Dietsch M, Petzel T, Moser D, Triesch S, Westhoff P and
 Copyright © 2023 Germann, Nakielski, Dietsch, Petzel, Moser, Triesch, Westhoff and Axmann. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
 
 ## ARC structure
-**green** indicates a study;
-**yellow** indicates an assay
+
 ``` mermaid
+%%{
+  init: {
+    'theme': 'base',
+    'themeVariables': {
+      'background': '#fff',
+      'lineColor': '#2d3e50',
+      'primaryTextColor': '#2d3e50'
+    }
+  }
+}%%
+
 flowchart LR
-p(publication)-->s1(Englund-2014) & s5(KnoopAndSteuer-2015)
-s1-->s2
-s3-->s2
-s5--->a5
-p-->s2(Synechocystis) -->a1(AbsorptionSpectraAndODMeasurements) & a2(DCWMeasurement) & a3(PigmentQuantification) & a4(qPCR) 
-p-->s3(PlasmidAndStrainConstruction)--->a5(MetabolicModeling) & a7(cPCR)
-p-->s4(MeasurementsOfSqualeneProduction)--->a6(GS-MSMeasurementsForTheQuantificationOfSqualene)
-
-%%Define styles
-    classDef study fill:#58D68D,stroke:#010802,color:#010802;
-    classDef publication fill:#E9544A,stroke:#010802,color:#010802;
-    classDef assay fill:#F4D03F,stroke:#010802,color:#010802;
-%%Assign styles
-class s1,s2,s3,s4,s5 study;
-class p publication;
-class a1,a2,a3,a4,a5,a6,a7 assay;    
-
-```
 
+subgraph Legend
+l1(Sample)
+l2>Process]
+l3(Material)
+l4(Data)
+end
 
-``` mermaid
-flowchart LR
-subgraph studies\PlasmidAndStrainConstruction
-direction LR
-pl1(pEERM4_Cm_001)-->|PlasmidConstruction.md|pl10(pEERM4_Prha_dxs)-->m
-pl2(pEERM4_Cm_002)-->|PlasmidConstruction.md|pl20(pEERM4_Prha_ispD)-->m
-pl3(pEERM4_Cm_003)-->|PlasmidConstruction.md|pl30(pEERM4_Prha_ispE)-->m
-pl4(pEERM4_Cm_004)-->|PlasmidConstruction.md|pl40(pEERM4_Prha_ispF)-->m
-pl5(pEERM4_Cm_005)-->|PlasmidConstruction.md|pl50(pEERM4_Prha_ispG)-->m
-pl6(pEERM4_Cm_006)-->|PlasmidConstruction.md|pl60(pEERM4_Prha_ispH)-->m
-pl7(pEERM4_Cm_007)-->|PlasmidConstruction.md|pl70(pEERM4_Prha_idi)-->m
-pl8(pEERM4_Cm_008)-->|PlasmidConstruction.md|pl80(pEERM4_Prha_sqs)-->m
-pl9(pEERM4_Cm_009)-->|PlasmidConstruction.md|pl90(pEERM4_Prha_crtE)-->m
-pl010(pEERM4_Cm_010)-->|PlasmidConstruction.md|pl0100(pEERM4_Prha_gap2)-->m
-pl11(pEERM4_Cm_011)-->|PlasmidConstruction.md|pl110(pEERM4_Prha_pyrK)-->m
-pl12(pEERM4_Cm_012)-->|PlasmidConstruction.md|pl120(pEERM4_Prha_tpi)-->m
-pr(pSHDY)-->|PromoterInduction.md|pr01(pSHDY_J23119_rhaS)-->m
-m-->|StrainConstruction.md|str1(dxs_strain) & str2(ispD_strain) & str3(ispE_strain) & str4(ispF_strain) & str5(ispG_strain) & str6(ispH_strain) & str7(Idi_strain) & str8(sqs_strain) & str9(crtE_strain) & str10(gap2_strain) & str11(pyrK_strain) & str12(tpi_strain) & str13(Δshc_strain) & str14(WT_strain)
+subgraph Studies
+subgraph study\Synechocystis
+s1(Synechocystis mutants)---pr1>growth]-->cl1(mutant cultures)
 end
 
-subgraph studies\KnoopAndSteuer-2015
-direction LR
-ks(KnoopAndSteuer-2015)
+subgraph study\Englund-2014
+nz1(Pia Lindberg)---pr9>gift]-->nz2(plasmid pEERM4 Cm)
 end
-studies\KnoopAndSteuer-2015-->assays\MetabolicModeling
 
-subgraph studies\MeasurementsOfSqualene
-direction LR
-mos(QuantificationOfSqualeneProduction.md)
+subgraph study\PlasmidAndStrainConstruction
+nz2---pr10>cloning of genes]-->s2(Plasmid Constructs)
+nz3(replicative plasmid pSHDY)---pr11>cloning of rhamnoze activator]-->s3(plasmid for promoter induction)
+s2---pr12>transformation of Synechocystis]
+s3---pr12-->s1
 end
 
-subgraph studies\Englund-2014
-direction LR
-wt(WT001)-->|knockdown|m(Δshc1)
+subgraph study\KnoopAndSteuer-2015
+nz4(Ralf Steuer)---pr15>send]-->nz5(extended version of a genome-scale stoichiometric network model of Synechocystis)
+end
 end
 
-subgraph studies\Synechocystis
-direction LR
-str1-->|CultureConditions.md|clt1(dxs_culture)
-str2-->|CultureConditions.md|clt2(ispD_culture)
-str3-->|CultureConditions.md|clt3(ispE_culture)
-str4-->|CultureConditions.md|clt4(ispF_culture)
-str5-->|CultureConditions.md|clt5(ispG_culture)
-str6-->|CultureConditions.md|clt6(ispH_culture)
-str7-->|CultureConditions.md|clt7(Idi_culture)
-str8-->|CultureConditions.md|clt8(sqs_culture)
-str9-->|CultureConditions.md|clt9(crtE_culture)
-str10-->|CultureConditions.md|clt10(gap2_culture)
-str11-->|CultureConditions.md|clt11(pyrK_culture)
-str12-->|CultureConditions.md|clt12(tpi_culture)
-str13-->|CultureConditions.md|clt13(Δshc_culture)
-str14-->|CultureConditions.md|clt14(WT_culture)
+subgraph Assays
+subgraph assay\AbsorptionSpectraAndODMeasurements
+cl1---pr2>measurement of Absorption Spectra and OD]-->d1(Absorption Spectra and OD values)
 end
 
-subgraph assays\AbsorptionSpectraAndODMeasurements
-direction LR
-clt1-->|AbsorptionSpectraAndODMeasurements.md|od1(dxs_absorption_OD_sample)
-clt2-->|AbsorptionSpectraAndODMeasurements.md|od2(ispD_absorption_OD_sample)
-clt3-->|AbsorptionSpectraAndODMeasurements.md|od3(ispE_absorption_OD_sample)
-clt4-->|AbsorptionSpectraAndODMeasurements.md|od4(ispF_absorption_OD_sample)
-clt5-->|AbsorptionSpectraAndODMeasurements.md|od5(ispG_absorption_OD_sample)
-clt6-->|AbsorptionSpectraAndODMeasurements.md|od6(ispH_absorption_OD_sample)
-clt7-->|AbsorptionSpectraAndODMeasurements.md|od7(Idi_absorption_OD_sample)
-clt8-->|AbsorptionSpectraAndODMeasurements.md|od8(sqs_absorption_OD_sample)
-clt9-->|AbsorptionSpectraAndODMeasurements.md|od9(crtE_absorption_OD_sample)
-clt10-->|AbsorptionSpectraAndODMeasurements.md|od10(gap2_absorption_OD_sample)
-clt11-->|AbsorptionSpectraAndODMeasurements.md|od11(pyrK_absorption_OD_sample)
-clt12-->|AbsorptionSpectraAndODMeasurements.md|od12(tpi_absorption_OD_sample)
-clt13-->|AbsorptionSpectraAndODMeasurements.md|od13(Δshc_absorption_OD_sample)
-clt14-->|AbsorptionSpectraAndODMeasurements.md|od14(WT_absorption_OD_sample)
+subgraph assay\DCWMeasurements
+cl1---pr3>measurement of DCW]-->d2(DCW values)
 end
 
-subgraph assays\DCWMeasuremnet
-direction LR
-clt1-->|DCWMeasurement.md|dcw1(dxs_DCW)
-clt2-->|DCWMeasurement.md|dcw2(ispD_DCW)
-clt3-->|DCWMeasurement.md|dcw3(ispE_DCW)
-clt4-->|DCWMeasurement.md|dcw4(ispF_DCW)
-clt5-->|DCWMeasurement.md|dcw5(ispG_DCW)
-clt6-->|DCWMeasurement.md|dcw6(ispH_DCW)
-clt7-->|DCWMeasurement.md|dcw7(Idi_DCW)
-clt8-->|DCWMeasurement.md|dcw8(sqs_DCW)
-clt9-->|DCWMeasurement.md|dcw9(crtE_DCW)
-clt10-->|DCWMeasurement.md|dcw10(gap2_DCW)
-clt11-->|DCWMeasurement.md|dcw11(pyrK_DCW)
-clt12-->|DCWMeasurement.md|dcw12(tpi_DCW)
-clt13-->|DCWMeasurement.md|dcw13(Δshc_DCW)
-clt14-->|DCWMeasurement.md|dcw14(WT_DCW)
+subgraph assay\PigmentQuantification
+cl1---pr5>sampling and measurement of absorbance maximum]-->a2(Pigment Quantification)
 end
 
-subgraph assays\GC-MSMeasurementsForTheQuantificationOfSqualene
-direction LR
-clt1-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms1(dxs_GC-MS)
-clt2-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms2(ispD_GC-MS)
-clt3-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms3(ispE_GC-MS)
-clt4-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms4(ispF_GC-MS)
-clt5-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms5(ispG_GC-MS)
-clt6-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms6(ispH_GC-MS)
-clt7-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms7(Idi_GC-MS)
-clt8-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms8(sqs_GC-MS)
-clt9-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms9(crtE_GC-MS)
-clt10-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms10(gap2_GC-MS)
-clt11-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms11(pyrK_GC-MS)
-clt12-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms12(tpi_GC-MS)
-clt13-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms13(Δshc_GC-MS)
-clt14-->|GC-MSMeasurementsForTheQuantificationOfSqualene.md|gc-ms14(WT_GC-MS)
+d1-->|normalization|a2
+d2-->|normalization|a2
+
+subgraph assay\GC-MSMeasurementsForTheQuantificationOfSqualene
+cl1---pr4>GC-MS measurement]-->a1(Quantification of Squalene)
 end
 
-subgraph assays\MetabolicModeling
-model(MetabolicModeling.md)
+subgraph assay\qPCR
+cl1---pr6>RNA extraction]-->a3(RNA)---pr7>cDNA synthesis]-->a4(cDNA)---pr8>qRT-PCR]-->a5(qRT-PCR results)
 end
-studies\PlasmidAndStrainConstruction-->model
-
-subgraph assays\cPCR
-direction LR
-str1--->|cPCR|cPCR1(dxs_cPCR)
-str2--->|cPCR|cPCR2(ispD_cPCR)
-str3--->|cPCR|cPCR3(ispE_cPCR)
-str4--->|cPCR|cPCR4(ispF_cPCR)
-str5--->|cPCR|cPCR5(ispG_cPCR)
-str6--->|cPCR|cPCR6(ispH_cPCR)
-str7--->|cPCR|cPCR7(Idi_cPCR)
-str8--->|cPCR|cPCR8(sqs_cPCR)
-str9--->|cPCR|cPCR9(crtE_cPCR)
-str10--->|cPCR|cPCR10(gap2_cPCR)
-str11--->|cPCR|cPCR11(pyrK_cPCR)
-str12--->|cPCR|cPCR12(tpi_cPCR)
+
+subgraph assay\cPCR
+s1---pr13>cPCR]-->a6(cPCR results)---pr14>gel electrophoresis]-->a7(gel results) 
 end
 
-subgraph assays\qPCR
-direction LR
-clt1-->|qRT-PCR.md|qPCR1(dxs_qPCR)
-clt8-->|qRT-PCR.md|qPCR8(sqs_qPCR)
-rpoA(rpoA)-->|qRT-PCR.md|qPCR(rpoA_qPCR)
+subgraph assay\MetabolicModeling
+nz5---pr16>metabolic modeling and simulations]-->a8(amplification targets)---pr10
 end
 
-%%Define styles
-    classDef study fill:#ABEBC6,stroke:#0E6655,color:#010802,stroke-width:2px;
-    classDef assay fill:#FFF59D,stroke:#E67E22 ,color:#010802,stroke-width:2px;
-%%Assign styles
-class studies\PlasmidAndStrainConstruction,studies\KnoopAndSteuer-2015,studies\Synechocystis,studies\MeasurementsOfSqualene,studies\Englund-2014 study;
-class assays\qPCR,assays\cPCR,assays\MetabolicModeling,assays\GC-MSMeasurementsForTheQuantificationOfSqualene,assays\DCWMeasuremnet,assays\AbsorptionSpectraAndODMeasurements assay;  
\ No newline at end of file
+%% Defining node styles
+  classDef S fill:#b4ce82, stroke:#333;
+  classDef M fill:#ffc000;
+  classDef D fill:#c21f3a,color:white;
+  classDef P stroke-width:0px;  
+
+%% Assigning styles to nodes
+  class s1,l1,cl1 S;
+  class l3,nz2,s2,nz3,s3,a3,a4 M;
+  class l4,nz5,d1,d2,a1,a2,a5,a6,a7,a8 D;
+  class l2,pr1,pr2,pr3,pr4,pr5,pr6,pr7,pr8,pr9,pr10,pr11,pr12,pr13,pr14,pr15,pr16 P;
+
+%% Box style
+style Studies fill:#fff, stroke-width:2px, stroke:#333;
+style Assays fill:#fff, stroke-width:2px, stroke:#333;
+end
\ No newline at end of file
diff --git a/assays/DCWMeasurement/isa.assay.xlsx b/assays/DCWMeasurement/isa.assay.xlsx
index ea4925c475ebc11b63509ab2ae94614ac458dbc1..73bf3aef5e51de6e735f8358f9544608e3b48857 100644
Binary files a/assays/DCWMeasurement/isa.assay.xlsx and b/assays/DCWMeasurement/isa.assay.xlsx differ