EINVis Software Tutorial
Contents
1. Fig 3 Click Run EINVis in section 2 1 Open EINVis Software Webpage to Run EINVis Demo ee e http filer case edu o407 einvis run D Cx un et EINVis xn Demo andering Nodes File Edges File The control panel will appear after usef loads data files and starts rendenng Google chrome frame AM E Make your browser more powerful Google Chrome Frame is a free plug in for Internet Explorer Some advanced Get Google Chrome Frame web apps use Google Chrome Frame to provide you with additional features and better performance It is free and it installs in seconds For Internet Explorer 6 7 8 and 9 on Windows 7 Vista XP SP2 or greater If you do not have administrative on your computer please installer Download Google Chrome Frame to Speed up your web experience Sites that utilize Google Chrome Frame become more responsive Enjoy more advanced features With Google Chrome Frame sites offer you new features based on open technologies Surf the web the way you are used to Google Chrome Frame works under the hood with your current browser Try the beta version of Google Chrome Frame Fig 4 IE browser may require to install Google Chrome Frame p s g e http hiler case edu o407 eimas run pD co x ov al acmeERI WES ENDE Demo andenng Nodes File Edges File The control panel will appear after use loads data files and starts rendering Google chrome frame2. max Edge Number Edge Bundie Font Size Node Name M Black Background Highlight amp Any Search All View Rank User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click tc j Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Nodes File Choose File Edges File Choose File Start Rendering Node Color Bar Edge Color Bar min Demo Diverging Rd YIG x Diverging Rd YIG max Edge Number Edge Bundie Font Size 7 Node Name v Black Background Highlight amp Any Search All View Rank User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information SS c m ki v i 5 __ LEPRa11200002 RYR2 248558 TMADA 110168894 0 ARP2 52075252 LRPZ 1825655 XRFP2 5831004 WFE212 5510183814 ITGA4 5155147 amp _ CYP2TA1 7803709 INPP SO 1019301 ASR 512485716 SLC10A4 81585217 RPS23F2 98841127 NNI n 95495
3. NNN1 5990500 MINN 09299038 SLC22A2 15310024 m a nn a zo MLXIPL 465 zc d kj 25 amp s s m1480004 a 37893474 PIK3C2A 7945010 UCFZ 12735572 Fig 9 Adjust the Font Size slider to decrease the font size of node name The width of three levels in the ring will also decrease when the font size decreases e S ne Filer case edu 407 e AEPR 11208662 RYR2 245558 TMADA 2310 168894 f 5 5 i 2 LRPZ 16856530 4XRP2 5831004 WFE2L2 5101835814 m 9 RU S 3 2 24 a g a ZEN c D 1L i INPPSO 1019201 F ASR 512485716 SLC1O0AA4 1585217 RPS23P2 56841127 2 P E NNN1 5399500 MINN n9299038 SLC22A2 316024 8 MLXIPL nest MLXIPL 48400 d TF 3 gt 3357893474 PIK3CZA 57946010 UCPZ 12735572 Fig 10 Adjust Edge Bundle strength slider and the edges become straighter 5147 LEPR s11208062 LMP2n amp 31004 NFE2L2 mtO 1H20 14 IT GAA wt CYPZ7A m7ED3700 CASR m12485716 SLCT OAd m1565217 AYR n24p5 53 THADA mt 60994 5147 2075252 2 15956530 LEPR s112090600 THADA mtO 60994 RP2a831004 NFE2L2 mtO 1026014 ITG A st CYPZTA w7BD3708 CASR 12485716 SLCT OAd m1565217 AYR n24p n3 ABCB1112612034 LRe2 LR Nodes File Choo
4. 2 Collapse Node C Key Presse 3 Select Node S Key Pressed Click d Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the S link on the EINVis homepage for more detailed help information LEPR s11208560 ti 4 THADA mt 60994 ABCB1112612034 CYP27 A1 7ED3708 CASR 12485716 ra n S 8 e 4 x g a LRP2 ng075252 NPP5D 8101093017 AYR n2553 i E c i 3 a amp 2 F 1 TMADA ss 10168804 13512813024 0 ARP22075252 LRPZ 2518850530 1RFP2 5831004 WFE2L2 510183814 5 ITGAA 25155147 CYPZTA1 7803709 5 5 CASR 912488716 SLCIOA4 158521 3 RPS23P2 n88341127 M 41 890 WINN 390500 MINN 9299038 j SLC22A2 316024 m ki a a s amp s li MLXIPL MLXIPL T yia ll j N8G307583474 PIK3CZA 7945010 T38R39 D Fig 13 S Click to select one node rs1078324 All related nodes and induced edges will be 2 https Hier case edu d d tos LI T mg 8694300 a SNX1 e c22 l 16024 D i y i 2 a EU Nodes File Choose File Edges File Choose File Start Rendering Demo Node Color Bar Diverging Rd YIG Edge Color Bar Diverging RdYIG v min max Edge Number 4 3 IB HE 3g i
5. GAT ADZ2 nOU60275 FLM4568 naso VNN1 mamson VNN1 ma390036 Start Rendering Demo NAGI 78990474 PPP ARGC n3781228 RDH13 10424560 COMMO7 98119946 EDEM2 11006318 FOXC2 n204395 WNGR n DCO 10703636 NAG4 51095 199 ew Node Color Bar Diverging RdYIB v Edge Color Bar Diverging Rd YIB min max Edge Number Edge Bundle Font Size y Node Name v Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Fig 29 Click the Start Rendering button to start rendering the views for the newly loaded dataset The user can visualize their own dataset through the steps shown in Fig 27 28
6. Enjoy more advanced features With Google Chrome Frame sites offer you new features based on open technologies Surf the web the way that you are used to Google Chrome Frame works under the hood with your current browser Try the beta version of Google Chrome Frame Please click on Get Google Chrome Frame button to install it in IE browser 2 Run EINVis Demo Follow the following steps to run the EINVis Demo 2 1 Open EINVis Software Webpage Click this link Run EINVis and it will open a new tab in the web browser 2 2 Click Demo Button Click the Demo button to start running EINVis demo The demo data files EINVis Demo Data Files will be loaded automatically You can also download the files and input them manually To see the video and document tutorials please follow the Tutorials tab To see the data format and user interaction help please follow the Docs tab 3 Run EINVis Please click this link Run EIN Vis to open a new tab and run EINVis online You can prepare your own data files and load them into EINVis The data format description can be found in the Docs tab Or you can download our demo data files here EINVis Demo Data Files Uncompress the demo data files to a local folder you will see two files 01 NodesFile txt and 02EdgesFile txt And then you can input them to EINVis manually through the Choose File buttons EINVis 1s open source The source codes are here EINVis Source Code
7. SLCTODAA 2e https fier case edu Nodes File i i 4 a ar z 5 y choose Fil zB m E 9 R8 5 d g E He LEE E ERR FE z Edges File FE HE TE GEE 4 S z 7 T z0 d a x e x 5 Choose File E a LE 3 s TE E i i 4 FEHER OE PTERA HHE EEE Start Rendering Demo LEPR 91 1208082 2 Node Color Bar Diverging RdYIG O0 10 NEN g A a Edge Color Bar Diverging RdYIG min max Edge Number Edge Bundle Font Size ado b P 7 Node Name 7 Black Background Highlight amp Any All View Rank Search A Li i User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 23 Calo lode ve lect Node RPS22P2 6841127 S Key Pressed Click HMGCS1 7710717 GPRS8 ne88958 4 Unselect Node MTAEDTL 13128353 L4 QNID n MTWFD1L 312605899 U Key Pressed Click USTBSIA4 7703843 i re z E PPARGCB 4708382 5 Look up Gene SNP in NCBI DB j PPAROC BAOTDEMA on TT am L Key Pressed Click a Please follow the the Docs link on the H EINVis homepage for more detailed WNN 5990500 VNNT 58395038 help information f SLC2ZA2 310024 C OOENX Dne343003 EGFR nB45555 MLXIPL 028 a a EPMX2 nbB1401 C NRA 1970994 a NAG 198985584 CCGEPAA nt1987518 O VLDUR 02242104 Peart 439314 EDGZ2510817128 a ENDOG n2200844 E 7 COLSA13811153 M
8. Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node Ur Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Fig 26 The LD Tree Ring View LD Tree Ring View has the same layout as the EIN Tree Ring View The edges are replaced by the LD information between SNPs 4 Favorites Neme Di NodesFile tit 3 Libraries D2Edgesfile txt J amp E Computer amp os c i Network Filename 01 NodesFile txt 60207652 Date modified 2012 7 2 9 51 2012 6 28 15 20 Type Sn 1t Docume Text Document N 4 gt d Yubso gt Download nz t j Q Organze New folder X Favorites D1NodesFile tt 3 Libraries _ O2EdgesFite txt amp Computer amp os c Gs Network Filename 02Edgesfile bt Date modified 2012 7 2 9 51 8 15 20 Type Text Document Document AllFiles x joel m Edge Number J Edge Bundle g Font Size Nodes File A Choose File T 1 FE i Edges File ae illi i LE Choose File iiis FR E dv a TER BEH HERE HEH IE Start Rendering Demo EET DEG E E a Node Color Bar Diverging RdYIB v a Edge Color Bar Diverging Rd YIB v iJ 4 Node Name 7 Black Background Highlight amp
9. e O SOAT152250477 Edge Color Bar Diverging RdYIB D RYR2 2435203 gt o ADPVGEAATEM max HADA 101 Edge Number a THADA mt0 180334 min Edge Bundle J Font Size P LRP2 3168 0 j amp RP2 831004 FE2L2 101839 7 Node Name 7 Black Background tt Highlight amp Any All View Rank CYP27A1 17603708 Search INPPSD 1019301 User Interaction Help 1 Expand Node i Mouse Left Button Click SLC10A4 51508217 2 Collapse Node SLC10A4 59992088 C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click se follow the the Docs link on the EINVis homepage for more detailed VNN t 5850500 VNN1 79299038 help information SLCZZA2 6310024 CASR 512485716 RPS23P2 6841127 f i NNT 990489 GFR sbenes9 MLXIPL 6967028 MLXIPL 6460045 MTPN 1s1488004 m i COL5A1 53811153 NRG3 57899474 NRG3 512763225 E s 7603709 PIK3C2A 3784601 a UCP2 n2 Fig 19 Change the edge color bar Node color bar and edge color bar share the 13 color bars The user can configure the node color and edge color independently eragp x Qe LL D Ox Mme NEN Docs JN he t Rank of SNPs Epistasis Interaction Network EIN has Number of Nodes SNPs 103 Number of Edges SNP SNP Interactions 80 T
10. that the user looks up one Gene PPARGC1B in NCBI database website The EIN Matrix View is an auxiliary view to the EIN tree ring view Fig 24 shows that we move the EIN matrix view bubble to the center The color scheme is the same as that 1n the EIN tree ring view The left margin and top margin show the SNP name list in the format of gene SNP name The background color represents the single locus test value In the matrix each square entry represents whether or not the two SNPs have interactions If the entry is gray then there is no interaction If it has a color then the color represents the two locus test value Since the view space is limited we can only show part of the interaction matrix at one time We provide the pan function Drag Mouse inside EIN matrix view bubble so the user can pan the matrix to view other parts of the EIN matrix view Fig 25 shows that the user pans the EIN matrix view to right bottom region The user can just click on any region of EIN tree ring view bubble to switch back to EIN tree ring view bubble The LD Tree Ring view is another auxiliary view to the EIN tree ring view It has the same layout but the edge information are replaced with the LD information as shown in Figure 26 3 Load Data Files 3 1 Download the Demo Data Files In the Run webpage as shown in Fig 3 find the EINVis Demo Data Files link click it and save the file to a local path Uncompress the downloaded zip
11. ABCB11 n1 LRP2 2207 LRP THADA s10 1866604 CYP27TA1 nm7603709 CASR 9124857 16 SLC 10A4 98993088 RP 23P2 nea 127 WMGCE1 ath 10717 R YR2 n2405563 SLC 10A mt56521 CP2 n2735572 TSHB n1321107 INPPSD it VNN 1 190399030 SLC22A2 w3 100 ENDOG n2700944 COLSA1 n3811153 NAGS 7890474 NAGS n12763225 PPPIR3SC 3781228 PIK3C2A m70460 10 MT PN mt4nnoo4 NRGI n66e558t Nea et NNI nea VNN1 nmeoo5og LEPR 112058062 cacops3 caruvav a LRP2 168585 ARPF2 31004 HFEZL2 10183914 u ITGAS 188147 a CASR 12485716 a SLC10A4 41565217 SLOTOAS RPS23P2 90841127 HMGCS1 37710717 a Nt 25990499 VNN 1 990500 VNN1 53395038 SLC22A2 0316024 o m N w a uw es a i Fig 24 Move the EIN matrix view bubble by dragging on the blue frame region of the bubble The EIN matrix view has the same color scheme as in the EIN tree ring view ay A s ay LJ ee 430170 LRP2831004 NFE212 m101830914 ITGA4 m155147 mQU756262 LRP LRP2 no ONG OO ENOOG n2200944 M COLSAT 6511069 LC22A2 w31 6024 ABCB11 812613034 CYP27 1 mr603709 SLC IDAA 99907088 NRG3 m7800474 NAGS n12763225 PPPIRSC 3781228 EGFR nB 5D THADA m1 0 166004 MLXIPX mBOR7C SPATSZL mo20240 SLCIDAA 15652 17 RPS23P2 west t WMGCS1 a7 10717 MLAIPL mb DO INPP5D m10193017 NAGA 910851885 CASR 124857 18 WN mna3sagan Neat mA DCO0 n10733836 IF
12. Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Nodes File Choose File Edges File 8 Choose File i 1 Start Rendering Demo gt SLC22A2 mG 16024 PIK3SC2A m7946010 UCP2 n2735572 EGFR sB45550 5 MUUPL 6097028 MLXIPL 6480045 NNT n0000 VNMH ni0500 VNN1 na3909038 MTPN 1488004 Node Color Bar Diverging RdYIB Edge Color Bar Diverging RdYIB v Edge Number E Edge Bundle l Font tJ 7 Node Name Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Fig 28 Click the Choose File button under the Edges File label to load a new Edges file Nodes File Choose File Edges File Choose File 284554 of mF 208091 SLC22A2 3160024 EGFR mBA5550 MiMemtn273747
13. Edge Color Bar Diverging RdYIG v diii Edge Number Edge Bundle Font Size 7 Node Name Highlight amp Any Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node Black Background All View Rank C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information i i APR S11208662 ITGAA4 5155147 CYP27A1 57603709 INP POD 10193017 CASA 1Z4BSTIC HA j i 1 VNN1 25890699 MNT 09299028 SLC22A2 316024 5 COBNXI2ES43003 EGFR nB4555B MLXIPL 89567028 MLXIPL 5450045 MTPN n14t6004 R2 n24p5553 LAP2 n2075252 n16956530 3 LAP2 mete d KS 8 r gt NFE2L2 mtO 103014 IT GAS 9155147 LEPR 11 120608 n since the edges with light color will become invisible under the white background INPP5D 810193017 CASA 12485716 i2 https Hier case edu Nodes File Choose File Edges File Choose File Start Rendering Demo Node Color Bar Diverging Rd VIG Edge Color Bar Diverging Rd YIG min max Edge Number Edge Bundle Font Size 7Node Name v Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click d Oi
14. Google Chrome Frame Terms of Service These Terms of Service apply to the executable code version of Google Chrome and Google Chrome Frame referred to collectively as Google Chrome in this document Source code for Google Chrome is available free of charge under open source software license agreements at http code google com chromium terms html 1 Your relationship with Google 1 1 Your use of Google s products software services and web sites referred to collectively as the Services in this document and excluding any services provided to you by Google under a separate written agreement is subject to the terms of a legal agreement between you and Google Google means Google Inc whose principal place of business is at 1600 Amphitheatre Parkway Printer friendi F Optional Help make Google Chrome Frame better by automatically sending usage statistics and crash reports to Google Accept and Install Cancel 2012 Google Home About Google Privacy Policy Web developers Google Chrome Help Fig 5 Click Accept and Install to continue the installment of Google Chrome Frame 3 A P http filer case edu yow07 einvis run D cCx Nodes File Edges File Start Rendering Demo The contro panel will appear after user loads data files and starts rendering Fig 6 The initial bubbles interface of EINVis Nodes File Choose File Edges File x MERMERRAWE CS Choose Fi
15. T68 9552241 NN neri WN nir0500 MT PN mt4mogo4 PROCIA n79 amp nRP25831004 ee il a tm NFEDL2 510153814 3 1 i PEE rn 7 a z 33 B a ITGAS 915514 R SPATSIL 1320249 a l cecorss fecaravava i CYP27A1 57602708 R 4 a x n PPSD 41019301 CASR n124B5718 SLC10A4 51565217 5 RP 23P2 5641127 17710717 a j HIE a D p VNN 1 5980500 VNN1 53395038 8LC22A2 5315024 j EGFR 845559 s MLXIPL 6987021 MLXIPL 6400045 a m a a COLSA1 153811153 NRG nTeeseTs a NAGI 912783225 PPT1R3C 53781228 PSK3C2A 47365010 E UCP2 2735572 n OCD 10783836 8 ill FL244968 n4895568 Fig 25 Pan the EIN matrix view by dragging inside the EIN matrix view bubble Since there maybe too many SNPs to show in the EIN matrix view we provide the pan function to view different part of the matrix amp l EN Lt U J e 129 22 150 16 1 LEINVisRun4GE Nodes File Choose File No file chosen Edges File Choose File No file chosen LD Edges File Choose File No file chosen rs6534310 156119946 0 287864 Start Rendenng Demo Node Color Bar Dwerging RdYIG v Edge Color Bar Dwerging RdYIG min on max Edge Number Edge Bundle Font Size 7 Node Name M Black Background Highight Any All View Rank E wol Search eh 65730 SERPI User Interaction Help 1 Expand Node Mouse Left Button Click 22Nea be 2 Collapse Node C
16. file and you will see two txt file 0 1 NodesFile txt and O2EdgesFile txt 3 2 Prepare Your Own Data Files About the data file format please refer to Documents http filer case edu yxw407 einvis docs html webpage or the PDF version of user manual document which can be found in Documents webpage 3 3 Load Data Files EINVis needs two input files Nodes file and Edges file You can select the demo data files downloaded in previous section The user can also load his her own data files and visualize them Fig 26 shows that the user clicks Choose File button under the Nodes File label to load a new nodes file Fig 27 shows that the user clicks the Choose File button under the Edges File label to load a new edges file And Fig 28 shows that the user clicks Start Rendering button to start rendering the views for the new dataset In conclusion this document gives an example to show how to use EINVis software It shows how to link to run EINVis online It gives some screenshots to show how to interact with EINVis to visualize and explore the epistatic interaction network It also shows how to input data files and visualize new datasets EINVis A Visualization Tool for Exploring Epistatic Interactions Networks in Genetic Association Studies Yubao Wu Xiaofeng Zhu Jian Chen Xiang Zhang Tutorials Publication Run EINVis Description Epistasis gene gene interaction is fundamentally im
17. 6 INPP D 10183017 User Interaction Help amm CASR 512485716 1 Expand Node 7 41885553772817 m8B5oxTS2838 Mouse Left Button Click POCB 1728875 2 Collapse Node pa C Key Pressed Click n c 1 ANXAS nB534310 3 Select Node 25 RPSZ23P2 15841127 S Key Pressed Click HMGCS 1357710717 GPR98 n588556 4 Unselect Node MTHEDILSTSI7R343 4 m MTHFDILA12608898 U Key Pressed Click STESIA4 7703643 5 Look up Gene SNP in NCBI DB PPARGCIB n10721 4 se L Key Pressed Click E Please follow the the Docs link on the EINVis homepage for more detailed help information OEUt CENE aS EGFR 13845559 MLXIPL ne a MLXIPL re 5 a ABCET 210256690 MTPN 91488004 EPHK2 6891407 NROTn970956 CUOSEFABATISSTSIB O WLDLER A2242104 BNaart 438314 EDG2n10817128 1 ENDOG n2220844 3 COL5A1 33811153 gt MAPKE 13827850 5 WCbass748172 p NRG3 37889474 4 N T 8 a Fig 21 When user search one gene name or SNP ID the matching gene name or SNP ID will be highlighted with colors The above screenshot shows that user search for nrg and three gene names NRGI NRG3 and NRG4 are highlighted with colors Z Reference SNP refSNP Clus NCBI Short Genetic Variations Nucleobd Protein enome structure PopSet Takor Search for SNP on NCBI Reference Assembl Search Entrez SNP for Go Reference SNP refSNP Cluster Repo
18. APHE n3R27050 2 C O 7WCLMT48172 N mae M NRG3 57889474 H NRG3 12703225 PPPIRSC 3781228 CSORCSt1 10534401 m Li c C GAKS r517098857 oo KONO 2412068 PIK3C2A G37846010 P2n273 572 Fig 17 Click to expand the chromosome node 1 The user can re expand the collapsed nodes zx X EE SK fh tt J S https filer caseedu D acx rm Nodes File gt Hd Shoo B FF w SAE E Choose File HE Sgp E HEE z Edges File Rea H E egi JBE t i p A 2 ego z Choose File FH eee E 5 8 REE EE 858882 E ARETE a Start Rendering Demo LEFR 11208662 EE PI ABCA4 1516283 S Node Color Bar Diverging RdYIB x TSHB 11221107 w GJASm8703824 G E E E mmm NOSTAP 517428733 ES m n n SOAT1 52250477 Edge Color Bar Diverging RdYIG PLAZG4A 1511570330 min max HADA tO Ane Edge Number Face ntie9e08 2 BCLTTA S T2463024 c CZeTeBnttt286435 Edge Bundle O 1L1An1854338 STA n1800887 ABCB 11312613034 Font Size MSRERP2 SD 0 MAP PD z A e NFE2L2 9 7 Node Name 7 Black Background AAAI SPATS2L r5820249 Highlight Any All View Rank CCUUORNTRAISSIZ CYF274A1 70023709 Search UUUGPRSEWIEGSSIB EI a INPPSD 510193017 User Interaction Help O TGFBR2 3773644 CASR 12438716 1 Expand Node 1 TGB5 553772817 c UTGES AST32932 Mouse Left Button Click POCBISIT2OSOTA a SLCI0A4 51268217 2 Collapse Node SLC 10A4 59933058 C Key P
19. Assembly SNP to Chr Chr Chr position Contig Contig position Allele GRCh37 p5 Fwd S 149202268 NT 029239 11 10365195 c RefSeqGene Mapping RefSeqGene Gene 10 SNP to RefSeqGene Position Allele Function class 131078324 is located in the intron region of NMI 001172698 1 2 NC 000005 8 149M 149M 3 0Kbp Find on Sequence e c m amp Toob gt o Configure e 49 200 K 149 200 S00 149201 K 149 201 50 1 2K 151078324 IEE x eee ee eo SNP D x iw x Fig 22 L Click to look up one SNP rs1078324 in the NCBI database website If the user wants more detailed information about one SNP he she can click the node and link to the NCBI website E 3 O x p 8cx gt Z ir nih gov gene te AR Z PPARGCIB Gene NCBI Lm s NCBI Resources How To v Sign in to NCBI Gene Gene z PPARGC1B Search Save search Limits Advanced Help Display Settings Summary 20 per page Sorted by Relevance Send to Filter your results All 45 Results 1 to 20 of 45 Page of Next gt Last PPARGC16 peroxisome proliferator activated receptor gamma coactivator 1 beta Homo sapiens 1 peroxisome proliferator activated receptor gamma coactivator 1 beta Official Symbol PPARGC1B Other Aliases ERRL1 PERC PGC 1 beta PGC 1B Other Designations PGC 1 related estrogen receptor alpha coactivator PPAR gamma coactivator 1 beta PPARGC 1 beta peroxisome prolterato
20. E i r Edge Bundle Font Size 7 Node Name F Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Dike M tB slick Mouse Left Button Click r16530 SERPO eg S zi 2 Collapse Node 156007220 22Neart C Key Pressed Click 721120866 3 Select Node rs515263 S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepag for more detailed help information highlighted with color while unrelated ones become gray EPR amp 11209850602 P27A 7ED3708 AEP Rey1 1208662 1 THADA mt0 60994 LRP2 nq075252 CASA 12485716 rd nm E 8 E E 2 g 3 a NFE2L2 mto 102014 NPP5 D 10103017 AYR nc cv H D LAP 25831004 WFEZ 10183814 m D D CYP21A1 87603708 CASR 512485716 SLCIOAS 1585217 RPS23P2 56841127 Z2 i 22 EE E E HT ii TS FI B EGFR n f MLXIPL nest MLXIPL 9840 oy e n M 3 D a a 2 gt 2 4 af JE S H ty di um 3 OCPAEmitSSTSIS MLDLR 52242104 Shear 5439314 EDO210817128 UNDOGO 2280844 COLEA n34811152 MAP N3E17880 o 0 NCLn4748172 N3G357883474 WRG3n12783225 Fig 14 S Click to select another node rs10851885 All related nodes a
21. EINVis Software Tutorial This document describes how to use EINVis software through one example process It will give some screenshots to describe how to use EINVis We recorded two video tutorials and uploaded them to Youtube EINVis Tutorial Part 1 http youtu be XUnBA1w8 uU EINVis Tutorial Part 2 http youtu be UvScGCubwDM You can visit EINVis Tutorial webpage to watch them http filer case edu yxw407 einvis tutorial html You can watch them in 1080p HD resolution 1 Link to Run EINVis Online This section is about how to link to EINVis webpage by use of a web browser You can click this link https filer case edu yxw407 einvis run and directly link to run EINVis online Or you can go to the homepage of EINVis http filer case edu yxw407 einvis as shown in Fig 1 click the Run tab to go to the Run webpage as shown in Fig 2 Click on the Run EINVis link in the Run webpage as shown in Fig 3 to run EINVis online IE browser may require the installation of Google Chrome Frame as shown in Fig 4 Since EINVis uses many new HTML S features which are not supported very well by IE so please install this plugin Google Chrome Frame is free to install If you are using Google Chrome web browser EINVis will not prompt this dialog When it requires to install Google Chrome Frame click on Get Google Chrome Frame button in Fig 4 Then you can see the dialog shown in Fig 5 Click on Accept and Ins
22. earch Bae mom Annotation Chromosome 18 NC 005117 3 55857439 55880651 complement 2d i Recent activity ppargc1b peroxisome proliferative activated receptor gamma coactivator 1 beta Danio rerio umos Clear 4 peroxisome proliferative activated receptor gamma coactivator 1 beta Y i PARGC1B 45 Official Symbol ppargctb Q PPARGCIB 4 Other Aliases b21D10 4 001 PERC f055c08 perctb b cb520 si bz1d10 4 wu 155008 Other Designations peroxsome prolferator activated receptor gamma coactvator 1 beta See more Annotation Chromosome 14 NC 007125 5 26065653 26076297 ID le JO PPARGC1B peroxisome proliferator activated receptor gamma Co 1 beta Gallus gallus 5 peroxisome proliferator activated receptor gamma coactivator 1 beta Official Symbol PPARGC1B Annotation Chromosome 13 NC 006100 3 7720993 7733161 complement PPARGC1B peroxisome proiferator activated receptor gamma coactivator 1 beta Canis lupus familiaris 6 neroxisoame n Pra ua oceni amma roactivato h Fig 23 L Click to look up one Gene PPARGCI1B in NCBI database website GHENNROC ja os case edu yrad07 D C X evi git ENV Z Reference SNP refSNP Cluster PPARGCIB Gene NCBI acl cr e aer Ce co Mit Hl 2s GA4 m15514 WFE212 s 10188914 4 SPATSZL mi2024d9 LEPR 112086062 eama 0 BOOST ET 26 osz o a188565630 LRP2 031004 ILEA mH ILEA mi
23. els 1 e SNP SNP SNP gene and gene gene interactions Therefore collapsing and expanding are useful functions to explore the network The user can change the color bar of nodes and edges by use of the drop down menu after the labels Node Color Bar and Edge Color Bar respectively Fig 18 shows that the user changes the node color bar and Fig 19 shows that the edge color bar is changed We provide 13 different color bars most of which are selected from ColorBrewer These color bars are optimal for user to distinguish the color differences Node color bar and edge color bar can be configured independently EINVis provide the View Rank button When user clicks on this button EINVis will open a new webpage and show the rank of SNPs based on the degree of each SNP The binomial distribution p value will also be calculated by EINVis The screenshot of rank of SNPs is shown in Figure 20 If user want to see a specified gene or SNP he she can search for this gene or SNP through the Search box For example in Figure 21 user inputs a gene name nrg and all matched genes NRGI NRG3 and NRG4 are highlighted with colors If the user wants more detailed information about one SNP or gene he she can link to NCBI website by use of L Click operation Then EINVis will open a new NCBI webpage for the selected SNP or gene Fig 22 shows that the user looks up one SNP rs1078324 in NCBI database website and Fig 23 shows
24. he parameters for Binomial Distribution are z Number of Independent Experiments 80 Number of Edges in EIN Probability to Yield Success 0 0194 2 Number of Nodes in EIN uU 33 es wmm 99 1 7 T acm n ES 1 2 o m 3 38 umen T an 5 7 mm ass m 3 1 9 3 2 mem wamar 9 1 23 9 Fig 20 Click on the View Rank button EINVis will open a new webpage and show the rank of SNPs The screenshot above show the table of rank of SNPs M 3 t 3 i ry C2 5 EH 1 4 s v ETE TES K E https file ease edu x ro EXON Nodes File _ i 3 WEE Choose File g AE PIR BE RA LE Edges File H HEB FHE a g E b g E ame Spez2gl 2 3 Choose File E HE ia ce JAH E E JE EEEH HBH IE Start Rendering Demo LepRwtizosee2 sum FT ABCAAmB18263 s E Node Color Bar Diverging RdYIG w FS n1221107 E GJASm8703324 n TAR mam NOSTAP 1174287233 Edge Color Bar Diverging RdYIG PLAZGAA n1 1578330 RYRZ 2485 3 Uo ACPne44TE35 min max 1 ir Edge Number x __ THADA 10166894 COBCUt tA 812460024 COCIHB eat 1928435 Edge Bundle O L4Ant894399 1 1A551800587 g _ ABCB11 812613024 Font Size t 4 Node Name 7 Black Background ITGA4 6185747 SPATS2L 920249 Highlight amp Any All View Rank 11 ENTAaITES2230 Search nrg _ CYP27A1 57603708 a wg GPRSSn728B91
25. le Start Rendering Demo Node Color Bar Diverging RdYIG x E Edge Color Bar Diverging RdYIG v min max Edge Number LEPR s112080600 THADA m O0 9669004 LRP2mOQ075252 LRP n16950530 CYP2TA1 7003709 RPS23F2 m6041127 VNN1 n660dqua VNNI nes Edge Bundle Font Size 7i Node Name v Black Background Highlight amp Any All View Rank Search RPS23P2 58541127 User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information VNN1 9950489 WINNT 830500 MMN1 58290028 SLC22A2 5310024 EGFR 5845 I o LJ MTPN 1455004 i 3347893474 PIK3C2A 7945010 UCP2 52735572 OCD 10783636 NAG4 10851555 FOXC2 7204385 C17extS4 7208031 Wiesel n27374Y GATAD2A m2060275 FLJ44958 4506965 RDH13 510424568 COMMD7 2981158460 EDEM2511908318 IFNGR2 2284554 SERPFIND 155730 22Neer 6097220 Fig 7 Click red Demo button we can see initial render results of two views The left bubble is the EIN tree ring view While the right bubble is the EIN matrix view Nodes File Choose File Edges File Choose File YR2 2485553 LEPR sii20G000 THADA m
26. lp information LEFR 511205662 TSHBn1321107 GJA8 18703824 NOS1AP 17428733 OAT1 n2250477 PLAZGAA n11576330 RYR2 32485583 EO ACPTn4 447838 THADA 10166894 t VNN1 358395038 SLC22A2 5316024 F B 2 zz a g 22 Seas i 8 E 3 v Li 22239 MLXIP ML PN 1488004 l Lj T g 3 d E PIK3C2A n7948010 J j P Fig 15 Switch to highlight All radio we can see that only one SNP rs884401 the two selected SNPs rs1078324 and rs10851885 RPS23P2 n6841127 z z z ip g 5 EE iu eiu VNN1 598398038 SLC22A2 5310024 q ki u gt gt D ret MLXIPL Nr TPN 151488004 ul NRG3 657899474 PIK3C2A m7846010 CP2 327355 Fig 16 C Click to collapse some nodes which are unrelated to the two selected SNPs LEPR 11208662 55147 RYR2 n248 THADA m10166004 ABCE11 128013034 LRP2 80075252 LRP2 m16856530 TS LRP2 0855831004 NFE212 10183014 TGA4 n1 8i CYP27A1 7603709 LEPR 11208562 TSHB1323107 THADA m10 166904 ABCB1112613034 LRP2 2075252 LRP n169565530 LRP 5831004 CYPO7A m7B03700 NFE212 m10183914 ITG AA 155147 CASR m12465716 LC10A4 51565217 teracts with both of Erik n CASR s12485718 SLC10A4 m1565217
27. nd induced edges will be highlighted with color while unrelated ones become gray rs3773644 TGFBR2 asadu1 r0 6 To Te 2199 19143466 3 https hier case edu Nodes File Choose File Edges File Choose File Start Rendering Demo Node Color Bar Diverging RdYIG w Edge Color Bar Diverging RdYIG min Edge Number max Edge Bundle Font Size 4 Node Name 7 Black Background Highlight Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information Nodes File Choose File Edges File Choose File Start Rendering Demo Node Color Bar Diverging RdYIG EV i Sum Edge Color Bar Diverging RdYIG lags Edge Number MA Edge Bundle Font Size 4 Node Name 7 Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed he
28. portant to understand the genetic architecture of complex traits The goal of epistasis detection is to identify interacting single nucleotide polymorphisms SNPs that have strong associations with the phenotype of interest Various methods have been developed to find epistatic interactions in large scale genetic association studies Representing the detected epistatic interactions visually by networks is an effective way to demonstrate the interplay between different SNPs and genes EINVis is ONLINE FREE software that allows users to visualize and explore the epistatic interaction networks EINVis provides two different views Tree Ring View and Matrix View Tree Ring View uses the circular layout to visualize the hierarchical SNP gene chromosome structure and network structure simultaneously Matrix View visualizes the SNP pair adjacency matrix representing the SNP SNP interactions EINVis exerts the VisBubbles and Code Bubbles ideas for user interface design Each view is rendered as a bubble The bubbles can be moved and overlapped with each other One screenshot of the Tree Ring View is shown as follows EINVis A Visualization Tool for Exploring Epistatic Interactions Networks in Genetic Association Studies Yubao Wu Xiaofeng Zhu Jian Chen Xiang Zhang Home Documents Tutorials Publication 1 Web Browser Requirement EINVis uses HTML the fifth revision of the HTML standard canvas 2D element to render the 2D graphics and it also exerts man
29. r Manage Filters actwated receptor gamma coactivator 1 beta amp Location 5032 w Top Organisms Tree Annotation Chromosome 5 NC 000005 9 149109815 149234585 MIM 608385 Homo sapiens 2 n 1122 Mus musculus Danio rerio 7 Pan paniscus Pparge1b peroxisome proliferative or gamma coactivator 1 beta Mus musculus ll other taxa 75 2 peroxisome proliferative activated receptor gamma coactivator 1 beta USA 9 fore Official Symbol Ppargcib Other Aliases 4631412G21Rik Perc Other Designations ERR igand 1 PGC 1 beta PGC 1beta PGC Tbeta ERRL1 PPAR gamma coactivator 1beta protein PPAR gamma coactivator 1 beta Find related data PPARGC 1 beta peroxisome proliferator activated receptor gamma coactivator beta peroxisome prolfferator activated receptor gamma coactvator 1 beta Location 18 Database Select m Annotation Chromosome 18 NC 000084 6 61298136 61400431 complement Ppargc1b peroxisome proliferator activated receptor gamma coactivator 1 beta Rattus norvegicus Search detaits i 3 peroxisome proliferator activated receptor gamma coactivator 1 beta PP Fields Official Symbol Ppargctb Other Aliases PGC beta Perc Other Designations PGC 1 Deta PPAR gamma coactvator 1 Deta PPARGC 1 Deta peroxisome prolferabve activated receptor gamma coactivator 1 bela peroxisome proliferator acbyated receptor gamma coactivator 1 beta peroxisome proliferator activated receptor gamma coactivator 15beta 2a Location 18912 1 S
30. rease the font size of node name as shown in Fig 9 When the font size of the node name is decreased the width of the three levels in the ring will also decrease correspondingly Sometimes the edges are crossing and overlapping with each other so it is not quite clear about which nodes are interacting with each other The user can adjust the Edge Bundle strength slider to bundle adjacent edges together to reduce the clutter and enhance visualization Fig 10 shows that when the user moves the slider to the minimum position the edge lines become straighter If there are too many nodes shown in the EIN tree ring view and the node name may affect the user to observe the node color So we provide one function that the user can uncheck the Node Name checkbox to hide all the node names as shown in Fig 11 Then the user can focus on the color patterns When the user observes one interested pattern and wants to see what the node name 1s the user can check the Node Name checkbox to show the node name again The user can uncheck Black Background checkbox to show the white background as shown in Fig 12 We recommend black background since the edge curve lines with light color will become invisible under the white background If the user wants to see how other SNPs interact with an interested SNP he she can use the operation S Click to select one node Then all related nodes and induced edges will be highlighted with color a
31. ressed Click EDRs 1841430 PGDSn 24260 3 Select Node i RPB239220041127 S Key Pressed Click HMGCS137710717 GPR98 088956 4 Unselect Node MTHFDIL 15158383 m U Key Pressed Click TBSIA4 7703643 H re n OER PPARGCIB 4705382 5 Look up Gene SNP in NCBI DB ARORA E m sm L Key Pressed Click m a FIBATABESSSR2 Please follow the the Docs link on the ZNN 320425 EINVis homepage for more detailed VNN 6990500 Ki V 19399038 help information 3 2202 m2 a a a N S E wo N uje u a x C SORCSt 510584401 GRK5517098857 KCNQ1 n2412068 PIK3C2A n7846010 E Fig 18 Change the node color bar We provide 13 different color bars most of which are selected from ColorBrewer These color bars are optimal for the user to distinguish the color differences amp nttes filer caseeduy yew einvis d awi x fox d i 1 Nodes File Choose File Edges File Choose File LEPR amp 11208562 PLAIGAA m11576330 m10193017 RYR2 92485663 THADA m10 166904 ABCB11 612613004 LRP2 2075252 LRP n16956530 LRP2N831D04 NFE212 10183914 ITGAA amp 155147 SPATS2L 9020249 CYP27A1 n76037 CASR m124957 16 SLC10A4 m1565217 SLC1DAA nfxo3068 TSHB 1321107 INPPSO Start Rendering Demo LEPR 11208662 Node Color Bar Diverging RdYIB TSHB 551321107 2m GJAS 8703824 m o wm NOSTAP 517428733 Col dviB
32. rt rs1078324 RefSNP Allele HGVS Names Organism human Homo sapens iati _SNV NC_000005 9 9 149202268C gt A Molecule Type Genomic Hanui bise single nucleotide variation NG 016747 1 9 97454C gt A Created Updated in build 86 137 RefSNP Alleles A C NM 001172698 4 252 2099C gt A Map to Genome Build 37 3 Allele Origin NM 001172699 1 c 177 2099C gt A Validation Status lt Ancestral Allele C NM 133263 3 c 252 2099C A Clinical Channel unknown NT 029289 11 9 10365195C A Clinical Significance NA NW 001838953 2 9 5933019G gt T MAF MinorAlleleCount A 0 086 187 MAF Source 1000 Genomes NP Details are organized in the following sections submit Batch Data seneView Map Submission Fasta Resource Dwersit Vahdatio ith Clinical Impact tributes for F integrated Maps Hint click on Chr Pos or Contig Pos column value to see variation in NCBI sequence viewer t Filtering 2 n Sup Contig ariation MEW Genome Contig Contig Neighbor Map A ssembly s Build Chr Chr Pos Contig Pos to allele to SHP Method Chr Chr GRCh37 p5 373 5 Fwd C Fwd view remap reference 3 Fwd c Fwd view blest Cera Fwd C Fwd view blest HuRef 36 3 S Fwd G Re oew blest UGeneView t eneView via analysis of contig annotation PPARGC1B peroxisome proliferator activafed receptor gamma coactivator 1 beta View more vanation on this gene click to hide Climcal Source in gene region cSNP has frequency double hit Go Primary Assembly Mapping
33. s shown in Fig 13 The user may also want to observe how other SNPs interact with a set of interested SNPs We also provide the function to select multiple nodes and track interacting nodes In Fig 14 two nodes are selected The user can use U Click operation to unselect one node If we unselect node r 10851885 the EIN tree ring view will become Fig 13 again Previously we highlight all the nodes related to any of the selected nodes We can also change to highlight all the nodes related to all selected nodes by switching to the highlight All from Any radio button as shown in Fig 15 We can see only one SNP rs884401 interacts with both of the two selected SNPs rs1078324 and rs10851885 When there are too many nodes in the EIN tree ring view each node space becomes narrow In this case we need to collapse some uninterested nodes to save space in order to show more important nodes Fig 16 shows that we collapse many nodes We can also expand the chromosome node 1 again as shown in Fig 17 In Fig 17 many nodes that are unrelated to the selected SNPs rs1078324 and rs10851885 are collapsed So we can focus on the interactions related to these two selected SNPs We can also see the SNP gene or gene gene interactions by expanding or collapsing other nodes further From this example we can see that not only we can focus on the interested nodes but also we can observe the interactions at different lev
34. se File Edges File Choose File Start Rendering Demo Node Color Bar Diverging RdYIG v Edge Color Bar Diverging RdYIG Edge Number E Edge Bundle Font Size Node Name v Black Background Highlight amp Any All View Rank Search User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click Please follow the the Docs link on the EINVis homepage for more detailed help information A i AEP Rey 1208062 O ABGAS 9518203 Lea 2078282 LRPZ 16856530 amp RP2 5831004 WFEZC2 510183814 TGA amp 155147 CYP21A1 57603708 INPPSO 510193017 CASRAIZ485716 f g S VNN1 299904699 MINN 9299038 __ SLC22A2 5316024 EGFR nB45565 MLXIPL 08967028 MLXIPL 6460045 MTPN n14t6004 5 16956590 NFE2L2 mtO103014 11GA4 155147 xy n eke hi c E x f a au x LRP2 mg075252 LAP INP PSD 810193017 SLO MAS 15652 f Fig 11 Uncheck Nodes Name checkbox to hide the node name Then the color pattern will become much clear Fig 12 Uncheck Black Background checkbox to show white background Black background is better Nodes File Choose File Edges File Choose File Start Rendering Demo Node Color Bar Diverging RdYIG v
35. t0 60994 LRP2 n2075252 LRP2 n16956530 LRP2m831004 NFE2L2 mtOtO3 14 CYPZTA m7BD3708 SLCTOAA4 mi565217 Start Rendering Demo Node Color Bar Diverging RdYIG v AEPR S11208662 Edge Color Bar Diverging RdYIG RYR2 2405583 min max Edge Number TMADA 10162994 Edge Bundle 0 ARP2 32075252 LRPZ 316856590 VXRP2 5831004 WFE2C2 510183814 ITGA4 15155147 Font Size j X CM j t A gt man vNode Name v Black Background 3 gt Highlight amp Any All View Rank Search CYP27A1 87603708 INPPED 1019301 User Interaction Help 1 Expand Node Mouse Left Button Click 2 Collapse Node C Key Pressed Click 3 Select Node S Key Pressed Click 4 Unselect Node U Key Pressed Click 5 Look up Gene SNP in NCBI DB L Key Pressed Click 5 d 3 5 S 8 SLC10A4 81585217 1 i S i 1 Please follow the the Docs link on the EINVis homepage for more detailed help information VNN 9990699 WINNT 28880500 MINN n9299038 ___ SLO22A2 15316024 EGFR 1845555 MLXIPL 89567028 MLXIPL 88400065 MTPN 1488004 PIK3CZA 7940010 UCPZ 2735572 Fig 8 Adjust the Edge Number slider to increase the number of edges and induced nodes Nodes File Choose File Edges File Choose File Start Rendering Node Color Bar Edge Color Bar min Demo Diverging RdYIG Divergin g RdYIG
36. tall button to continue It may take some time to install Google Chrome Frame Please wait until it prompts the dialog that says Thanks for installing Google Chrome Frame It represents that Google Chrome Frame is successfully installed on your computer Then it will go to run EINVis webpage automatically so we can get the initial interface of EINVis as shown in Fig 6 2 User Interactions in EINVis This section shows how to use EINVis to visualize and explore the epistatic interaction network It will describe the user interactions in EINVis through an example while it will also give some screenshots to show the interactions effect 2 1 Run Demo In the initial interface of EINVis as shown in Fig 6 click the red Demo button to begin rendering one demo dataset The demo dataset can be downloaded from EINVis Demo Data Files link on the Run webpage EINVis will read these files from server automatically after user clicks the Demo button The initial render result is shown in Fig 7 The initial result includes two different views The left bubble is the EIN tree ring view and the right bubble is the EIN matrix view 2 2 Interact with EINVis EINVis provides user mouse interactions as well as controls to let the user interact with the visualizing process The user can adjust the Edge Number slider to increase the number of edges as shown in Fig 8 The user can also adjust the Font Size slider to dec
37. y HTML controls e g sliders to provide friendly user interactions The following table shows the support of HTML from different browsers Data Source http html5test com mmus Chrome TES WinXP Gnwer Gneowes ees Yes File Reader API Ye From the above table we can see IE 9 browser does not provide full support for HTML Therefore we suggest use Google Chrome to run EINVis If you are using IE to visit EINVis it will prompt a dialog to install Google Chrome Frame You can also click this link Google Chrome Frame in the IE browser and install Google Chrome Frame first then use EINVis You only need to install for one time Google Chrome Frame is free and only take several seconds to install The webpage interface to install Google Chrome Frame is shown as follows Fig 2 Run tab webpage f gt P1 https fier case edu yxv407 einvis run html lows x y Google Chrome Frame is a free plug in for Internet Explorer Some advanced web apps use Google Chrome Frame to prowde you with additional features and better performance It ts free and is installed in seconds For Intemet Explorer 6 7 8 and 9 on Windows 7 Vista XP SP2 or greater You will need administrative rights on your computer to install Google Chrome Frame i igi Unronme NE Download Google Chrome Frame to Speed up your web experience Sites that utilise Google Chrome Frame become more responsive
Download Pdf Manuals
Related Search