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WGCNA Module Annotation

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WGCNA Module Annotation WGCNA module annotation 1. C. dipterum, D. melanogaster and S. maritima module annotations Module colour and annotated names…………………………………………………….page 2 2. C. dipterum module RNA-seq expression and GO terms………………………………..page 3 3. D. melanogaster module RNA-seq expression and GO terms………………………page 14 4. S. maritima module RNA-seq expression and GO terms……………………………...page 23 C. dipterum WGCNA modules annotation D. melanogaster WGCNA modules annotation S.maritima WGCNA modules annotation Module Colour Module annotated name Module Colour Module annotated name Module Colour Module annotated name grey60 Vesicle transport darkgrey Gut lightcyan Head greenyellow Brain darkturquoise Larval CNS saddlebrown Adult male sienna3 Cytoskeleton salmon Jump Muscle greenyellow Neurogenesis lightgreen Pre-nymph red Salivary glands red Fat body yellow Wing blue Brain- Synapsis darkgreen membrane steelblue Malpighian tube greenyellow Wing Disc skyblue Embryo/Nerve cord brown Gills cyan 12-14 hpf embryo orange Protein synthesis orange Cuticle black Flight muscle black Nerve cord- Synapsis blue Muscle magenta 4-6 h embryo- Transcription midnightblue Splicing skyblue Chitin purple Adult heads- visual perception blue Gut yellowgreen Trachea green Ovaries grey60 Malpighian tubes black Gut lightcyan Fat body purple Fat body B- Translation paleturquoise Gut/Malpighian white Muscle- Cell metabolism white Proteasome cyan Protein synthesis brown Testis lightgreen Cellular respiration tan 10 dpf embryo- Neurogenesis pink Malpighian tubule magenta Ovaries-Replication darkolivegreen Brain B- Lipid metabolism skyblue Adult gut lightyellow Fatty acid metabolism magenta Male Head- Phototransduction grey60 Larval gut royalblue Cellular metabolism turquoise Ovaries darkorange Fat body- Post-translation modification darkmagenta Female Head- Fatty acid metabolism brown Embryogenesis red 4 dpf embryo- Autophagy turquoise Testis-Cilium saddlebrown Embryogenesis- Synapsis darkgrey Transcription green Testis C. dipterum modules Module:grey60 (Vesicle transport) TopGo results organic substance transport endosomal transport localization vesicle−mediated transport ATP hydrolysis coupled proton transport vacuolar acidification protein localization 100 peptide transport intracellular pH reduction protein transport phosphatidylinositol binding lipid binding phosphatidylinositol phosphate binding phospholipid binding cRPKM transporter activity proton−transporting ATPase activity, rot... 50 cation−transporting ATPase activity ATPase coupled ion transmembrane transpo... ATPase activity, coupled to transmembran... active transmembrane transporter activit... cytoplasmic vesicle vesicle endosome vacuolar proton−transporting V−type ATPa... retromer complex 0 proton−transporting V−type ATPase comple... vacuolar membrane cytoplasm vacuole y4_a y4_b y6_a ies_a ies_b ain_a ain_b a a a y10_a y10_b y14_a y14_b Gut_a Gut_b r r r r Gills_a Gills_b estis_a estis_b a a a a ubes_a ubes_b early endosome a a B B T T v v T T Muscle_a Muscle_b o_d o_d o_d O O y y y emHead_b o_d o_d o_d o_d r r r y y y y F Wing_pad_a Wing_pad_b MaleHead_a MaleHead_b r r r r GO Categories Emb Emb Emb BP MF CC Emb Emb Emb Emb Malpighian Malpighian 0 2 4 6 8 factor(tissue) 10 log pvalues (correction=none) Module:greenyellow (Brain) TopGo results G−protein coupled receptor signaling pat... signaling cell communication synaptic signaling 60 chemical synaptic transmission cell−cell signaling neurological system process signal transduction regulation of membrane potential synapse organization signaling receptor activity 40 transmembrane signaling receptor activit... ion channel activity cation channel activity cRPKM channel activity G−protein coupled receptor activity extracellular ligand−gated ion channel a... neurotransmitter receptor activity ligand−gated ion channel activity 20 neuropeptide hormone activity plasma membrane synapse cell periphery membrane integral component of plasma membrane integral component of membrane 0 intrinsic component of membrane intrinsic component of plasma membrane neuron projection presynapse y4_a y4_b y6_a ies_a ies_b ain_a ain_b a a a Gut_a Gut_b y10_a y10_b y14_a y14_b r r r r Gills_b Gills_a estis_a estis_b a a a a ubes_a ubes_b a a B B T T v v T T Muscle_a Muscle_b o_d o_d o_d O O GO Categories y y y emHead_b o_d o_d o_d o_d r r r y y y y F Wing_pad_a Wing_pad_b MaleHead_a MaleHead_b r r r r BP MF CC Emb Emb Emb 0 5 Emb Emb Emb Emb 10 15 20 25 Malpighian Malpighian factor(tissue) log pvalues (correction=none) C. dipterum modules Module:sienna3 (Cytoskeleton) TopGo results karyosome formation ovarian nurse cell to oocyte transport regulation of actin polymerization... 30 regulation of actin filament length parallel actin filament bundle assembly negative regulation of blood coagulation sequestering of actin monomers positive regulation of axon extension in... actin polymerization or depolymerization activation of MAPKKK activity 20 transmembrane signaling receptor activit... signaling receptor activity actin monomer binding sodium:potassium−exchang ATPase activ... cRPKM potassium−transporting ATPase activity G−protein coupled receptor activity G−protein coupled acetylcholine receptor... dopamine neurotransmitter receptor activ... 10 dopamine neurotransmitter receptor activ... ATPase activator activity cell periphery integral component of plasma membrane intrinsic component of plasma membrane plasma membrane sodium:potassium−exchang ATPase compl... 0 germline ring canal intercellular bridge extrinsic component of cytoplasmic side ... fusome y4_a y4_b y6_a ies_a ies_b ain_a ain_b a a a Gut_a Gut_b y10_a y10_b y14_a y14_b r r r r Gills_a Gills_b estis_a estis_b a a a a ubes_a ubes_b a a B B T T v v T T Muscle_a Muscle_b o_d o_d o_d O O y y y GO Categories emHead_b o_d o_d o_d o_d r r r y y y y F Wing_pad_a Wing_pad_b MaleHead_a MaleHead_b r r r r BP MF CC Emb Emb Emb Emb Emb Emb Emb Malpighian Malpighian 0.0 0.5 1.0 1.5 2.0 2.5 3.0 3.5 factor(tissue) log pvalues (correction=none) Module:lightgreen (Pre-nymph) TopGo results 150 response to hydrogen peroxide cuticle development response to reactive oxygen species protein dephosphorylation protein palmitoylation dephosphorylation apoptotic DNA fragmentation regulation of triglyceride metabolic pro... DNA catabolic process, endonucleolytic thermosensory behavior 100 serine−type peptidase activity serine hydrolase activity serine−type endopeptidase activity endopeptidase activity structural constituent of cuticle cRPKM peptidase activity carbohydrate binding hydrolase activity 50 structural constituent of chitin−based l... protein−cysteine S−palmitoyltransferase ... anchored component of membrane anchored component of plasma membr intrinsic component of membrane membrane intrinsic component of plasma memb extracellular region extrinsic component of plasma membr 0 integral component of membrane plasma membrane extrinsic component of membrane y4_a y4_b y6_a ies_a ies_b ain_a ain_b a a a Gut_a Gut_b y10_b y14_a y14_b y10_a r r r r Gills_b Gills_a estis_b estis_a a a a a ubes_a ubes_b a a B B T T v v T T GO Categories Muscle_a Muscle_b o_d o_d o_d O O y y y emHead_b BP MF CC o_d o_d o_d o_d r r r y y y y F Wing_pad_a Wing_pad_b MaleHead_a MaleHead_b r r r r 0 1 2 3 4 5 Emb Emb Emb Emb Emb Emb Emb Malpighian Malpighian factor(tissue) log pvalues (correction=none) C. dipterum modules Module:yellow (Wing) TopGo results protein glycosylation glycoprotein biosynthetic process glycoprotein metabolic process protein O−linked glycosylation morphogenesis of an epithelium regulation of tube architecture, open tr... 90 regulation of tube size, open tracheal s... animal organ morphogenesis morphogenesis of a polarized epithelium imaginal disc−derived wing morphogenesis transferase activity, transferring hexos... transferase activity, transferring glyco... 60 UDP−glycosyltransferase activity transcriptional repressor activity, RNA ... gap junction channel activity cRPKM carbohydrate binding transcriptional repressor activity, RNA ... polypeptide N−acetylgalactosaminyltransf... cadherin binding glucosyltransferase activity 30 endomembrane system endoplasmic reticulum Golgi apparatus Golgi membrane cell−cell junction cell junction Golgi−associated vesicle membrane 0 coated vesicle endoplasmic reticulum membrane lateral plasma membrane y4_a y4_b y6_a ies_a ies_b ain_a ain_b a a a y10_a y10_b y14_a Gut_a Gut_b y14_b r r r r Gills_a Gills_b estis_a estis_b a a a a ubes_a ubes_b a a B B T T GO Categories v v T T Muscle_a Muscle_b o_d o_d o_d O O y y y BP MF CC emHead_b o_d o_d o_d o_d r r r y y y y F Wing_pad_a Wing_pad_b MaleHead_a MaleHead_b r r r r 0 2 4 6 8 Emb Emb Emb Emb Emb Emb Emb Malpighian Malpighian factor(tissue) log pvalues (correction=none) Module:steelblue (Malpighian tube) TopGo results glycosaminoglycan metabolic process anion transport 150 cellular ion homeostasis organic anion transport cation homeostasis ion homeostasis cellular metal ion homeostasis transmembrane transport phosphate ion transmembrane transport anion transmembrane transport 100 anion transmembrane transporter activ organic anion transmembr transporter ... ion transmembrane transporter activity transmembrane transporter activity transferase activity, transferring hexos... cRPKM ferroxidase activity antiporter activity catalytic activity UDP−glycosyltransferase activity 50 transferase activity, transferring glyco... intrinsic component of membrane integral component of membrane membrane Golgi apparatus Golgi membrane cell surface intrinsic component of plasma membr 0 Golgi
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