From 010b41176c1796c4ff6b4ccc23af7363f608c81c Mon Sep 17 00:00:00 2001 From: Alejandra Gonzalez-Beltran Date: Wed, 28 Jun 2017 14:40:19 +0100 Subject: [PATCH] Adding ISA-tab configurations corresponding to each version --- .../cellmigration_imagingMIACME.xml | 220 +++++++++ .../investigation-MIACME.xml | 420 +++++++++++++++++ .../studySample-MIACME.xml | 318 +++++++++++++ ...ellmigration_imagingMIACMEv02-in-vitro.xml | 228 ++++++++++ .../investigation-MIACMEv02-in-vitro.xml | 420 +++++++++++++++++ .../studySample-MIACMEv02-in-vitro.xml | 317 +++++++++++++ ...cellmigration_imagingMIACMEv02-in-vivo.xml | 241 ++++++++++ .../investigation-MIACMEv02-in-vivo.xml | 421 ++++++++++++++++++ .../studySample-MIACMEv02-in-vivo.xml | 304 +++++++++++++ 9 files changed, 2889 insertions(+) create mode 100755 v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/cellmigration_imagingMIACME.xml create mode 100755 v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/investigation-MIACME.xml create mode 100755 v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/studySample-MIACME.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/cellmigration_imagingMIACMEv02-in-vitro.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/investigation-MIACMEv02-in-vitro.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/studySample-MIACMEv02-in-vitro.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/cellmigration_imagingMIACMEv02-in-vivo.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/investigation-MIACMEv02-in-vivo.xml create mode 100755 v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/studySample-MIACMEv02-in-vivo.xml diff --git a/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/cellmigration_imagingMIACME.xml b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/cellmigration_imagingMIACME.xml new file mode 100755 index 0000000..1b13b5c --- /dev/null +++ b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/cellmigration_imagingMIACME.xml @@ -0,0 +1,220 @@ + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT] + + + + + + + + + + none,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + volume" + + + + + + + + + + + + + + + + + concentration" + + + + + + + + + gradient + n/a,gradient,batch application + + + + + + bright-field microscopy,super resolution bright field microscopy,phase-contrast microscopy,fluorescence microscopy,confocal microscopy,other + + + + + endpoint,dynamic + + + + + + + + concentration" + + + + + + + + + + + + + concentration" + + + + + + + + + + + + + + + + + + + + + + + + + + + + + dye,labelled antibody,tag,other + + + + + + + + concentration" + + + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT].Extract-[EXTRACT_COUNT].LE-[LABEL_COUNT].MSASSAY-[HYB_COUNT] + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/investigation-MIACME.xml b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/investigation-MIACME.xml new file mode 100755 index 0000000..ddcdc60 --- /dev/null +++ b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/investigation-MIACME.xml @@ -0,0 +1,420 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + planned,ongoing,completed + + + + + cell culture multiwell plate,microplate,transwell assay plate,chemotaxis assay device + + + + + 6-well plate,24-well plate,48-well plate,96-well plate,384-well plate,1536-well plate + + + + + Sigma-Aldrich,Corning,ibidi,calbiotech,other + + + + + secondary antibody,anti-GST,avidin,biotin,collagen,fibronectin,matrigel,neutrAvidin,glutathione,nickel,copper,polylysinestreptavidin, + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + No units available + + + + + No units available + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + objective type,objective magnification,objective numerical aperture,voxel size,voxel conversion factor,manufacturer + + + + + + + + + transmission microscope,epifluorescence microscope,confocal microscope + + + + \ No newline at end of file diff --git a/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/studySample-MIACME.xml b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/studySample-MIACME.xml new file mode 100755 index 0000000..de913d1 --- /dev/null +++ b/v0.1/ISATab-configurations/isaconfig-MIACME_v2017-04-29-alpha/studySample-MIACME.xml @@ -0,0 +1,318 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + primary cell,immortalized cell + + + + + + + + + + + + + + ,flask,uncoated microplate,coated microplate,petri dish + + + + + ,monolayer,double layer,sandwich,spheroids + + + + + + + + + + + + + ,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + + + + + temperature" + + + + + + + + + + + + + + + + + percentage" + + + + + + + + + + + + + + + + + + + + + + + + + + + 1 + + + + + siRNA,chemical compound,microRNA,gene construct + + + + + + + + + electroporation,viral delivery,liposome,calcium chloride + + + + + + + + + + + + indication concentration unit associated with concentration" + + + + + + + + + + no dose,low dose,medium dose,high dose,no observed adverse effect dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + + + + + GFP,mCherry,c-Myc,HisTag,other + + + + + transient expression, stable cell line, transduced cell line, doxycyclin induced expression,other + + + + + + + + + + + + + + + + + + no dose,low dose,medium dose,high dose,NOAEL dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/cellmigration_imagingMIACMEv02-in-vitro.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/cellmigration_imagingMIACMEv02-in-vitro.xml new file mode 100755 index 0000000..af4e773 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/cellmigration_imagingMIACMEv02-in-vitro.xml @@ -0,0 +1,228 @@ + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT] + + + + + + + + + + none,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + volume" + + + + + + + + + + + + + + + + + concentration" + + + + + + + + + gradient + n/a,gradient,batch application + + + + + + + spinning disk microscopy, wide-field microscopy, multi-photon microscopy, light-sheet microscopy, super-resolution microscopy, phase-contrast microscopy, + bright-field microscopy,super resolution bright field microscopy,phase-contrast microscopy,fluorescence microscopy,confocal microscopy,other + + + + + endpoint,time-lapse + + + + + + + + concentration" + + + + + + + + + + + + + concentration" + + + + + + + + + + + + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT].Extract-[EXTRACT_COUNT].LE-[LABEL_COUNT].MSASSAY-[HYB_COUNT] + + + + + + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/investigation-MIACMEv02-in-vitro.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/investigation-MIACMEv02-in-vitro.xml new file mode 100755 index 0000000..55f24f9 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/investigation-MIACMEv02-in-vitro.xml @@ -0,0 +1,420 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + planned,ongoing,completed + + + + + cell culture multiwell plate,microplate,transwell assay plate,chemotaxis assay device + + + + + 6-well plate,24-well plate,48-well plate,96-well plate,384-well plate,1536-well plate + + + + + Sigma-Aldrich,Corning,ibidi,calbiotech,other + + + + + secondary antibody,anti-GST,avidin,biotin,collagen,fibronectin,matrigel,neutrAvidin,glutathione,nickel,copper,polylysinestreptavidin, + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + No units available + + + + + No units available + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + objective type,objective magnification,objective numerical aperture,voxel size,voxel conversion factor,manufacturer + + + + + + + + + transmission microscope,epifluorescence microscope,confocal microscope + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/studySample-MIACMEv02-in-vitro.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/studySample-MIACMEv02-in-vitro.xml new file mode 100755 index 0000000..9c62e27 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vitro_v2017-06-20/studySample-MIACMEv02-in-vitro.xml @@ -0,0 +1,317 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + primary cell,immortalized cell + + + + + + + + + + + + + + ,flask,uncoated microplate,coated microplate,petri dish + + + + + ,monolayer,double layer,sandwich,spheroids + + + + + + + + + + + + + ,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + + + + + temperature" + + + + + + + + + + + + + + + + + percentage" + + + + + + + + + + + + + + + + + + + + + + + + + + 1 + + + + + siRNA,chemical compound,microRNA,gene construct + + + + + + + + + electroporation,viral delivery,liposome,calcium chloride + + + + + + + + + + + + indication concentration unit associated with concentration" + + + + + + + + + + no dose,low dose,medium dose,high dose,no observed adverse effect dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + + + + + GFP,mCherry,c-Myc,HisTag,other + + + + + transient expression, stable cell line, transduced cell line, doxycyclin induced expression,other + + + + + + + + + + + + + + + + + + no dose,low dose,medium dose,high dose,NOAEL dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/cellmigration_imagingMIACMEv02-in-vivo.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/cellmigration_imagingMIACMEv02-in-vivo.xml new file mode 100755 index 0000000..19f60b6 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/cellmigration_imagingMIACMEv02-in-vivo.xml @@ -0,0 +1,241 @@ + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT] + + + + + + + + + + none,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + volume" + + + + + + + + + + + + + + + + + concentration" + + + + + + + + + gradient + n/a,gradient,batch application + + + + + + + spinning disk microscopy, wide-field microscopy, multi-photon microscopy, light-sheet microscopy, super-resolution microscopy, phase-contrast microscopy, + bright-field microscopy,super resolution bright field microscopy,phase-contrast microscopy,fluorescence microscopy,confocal microscopy,other + + + + + + endpoint,time-lapse + + + + + + + + concentration" + + + + + + + + + + + + + concentration" + + + + + + + + + + + + + + + + + + + [INSTITUTION].Group-[GROUP_NO].Subject-[SUBJECT_NO].[SAMPLE_EXTRACT].Extract-[EXTRACT_COUNT].LE-[LABEL_COUNT].MSASSAY-[HYB_COUNT] + + + + + + + + + + + + + + + + + + + + + + + + + + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/investigation-MIACMEv02-in-vivo.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/investigation-MIACMEv02-in-vivo.xml new file mode 100755 index 0000000..770a7c1 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/investigation-MIACMEv02-in-vivo.xml @@ -0,0 +1,421 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + planned,ongoing,completed + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + No units available + + + + + No units available + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + objective type,objective magnification,objective numerical aperture,voxel size,voxel conversion factor,manufacturer + + + + + + + + + transmission microscope,epifluorescence microscope,confocal microscope + + + + \ No newline at end of file diff --git a/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/studySample-MIACMEv02-in-vivo.xml b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/studySample-MIACMEv02-in-vivo.xml new file mode 100755 index 0000000..22bc156 --- /dev/null +++ b/v0.2/ISATab-configurations/isaconfig-MIACME-in-vivo_v2017-06-20/studySample-MIACMEv02-in-vivo.xml @@ -0,0 +1,304 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + primary cell,immortalized cell + + + + + + + + + + ,flask,uncoated microplate,coated microplate,petri dish + + + + + + + + + ,bovine calf serum,fetal calf serum + + + + + + + + concentration" + + + + + + + + + + + + + + + + + temperature" + + + + + + + + + + + + + + percentage" + + + + + + + + + + + 1 + + + + + siRNA,chemical compound,microRNA,gene construct + + + + + + + + + electroporation,viral delivery,liposome,calcium chloride + + + + + + + + + + + + indication concentration unit associated with concentration" + + + + + + + + + + no dose,low dose,medium dose,high dose,no observed adverse effect dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + + + + + GFP,mCherry,c-Myc,HisTag,other + + + + + transient expression, stable cell line, transduced cell line, doxycyclin induced expression,other + + + + + + + + + + + + + + + + + + no dose,low dose,medium dose,high dose,NOAEL dose,lethal dose + + + + + + + + indication time unit associated with exposure time" + + + + + + + + + + \ No newline at end of file