POC Conf. Call 6-23-10 - Revision history

Cooperl: /* hypodermis and endodermis */

2010-06-28T20:54:00Z

hypodermis and endodermis

Cooperl: /* hypodermis and endodermis */

2010-06-28T20:53:19Z

hypodermis and endodermis

Cooperl: /* hypodermis and endodermis */

2010-06-28T20:51:49Z

hypodermis and endodermis

Cooperl: /* hypodermis and endodermis */

2010-06-28T20:46:47Z

hypodermis and endodermis

Cooperl: /* hypodermis and endodermis */

2010-06-28T20:37:26Z

hypodermis and endodermis

Cooperl: /* Tuber PO:0004543 (tuber is a what?) */

2010-06-28T18:57:19Z

Tuber PO:0004543 (tuber is a what?)

Cooperl: /* Tuber PO:0004543 (tuber is a what?) */

2010-06-28T18:57:00Z

Tuber PO:0004543 (tuber is a what?)

Cooperl: /* hypodermis and endodermis */

2010-06-28T18:55:52Z

hypodermis and endodermis

Cooperl: /* Tuber PO:0004543 (tuber is a what?) */

2010-06-28T18:53:49Z

Tuber PO:0004543 (tuber is a what?)

Cooperl: /* Tuber PO:0004543 (tuber is a what?) */

2010-06-28T18:53:34Z

Tuber PO:0004543 (tuber is a what?)

@@ Line 192: / Line 192: @@
 definition of cortex to allow this.''
-The proposed new def'n will be:
+'''[https://sourceforge.net/tracker/index.php?func=detail&aid=3011071&group_id=76834&atid=835555 cortex] (PO:0005708):'''
-'''[https://sourceforge.net/tracker/index.php?func=detail&aid=3011071&group_id=76834&atid=835555 cortex] (PO:0005708):''' A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
+The proposed new def'n will be: A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
 ''For hypodermis, endodermis, and similar terms (like perimedullary zone), Barry suggested that we define the parent terms as the maximal portion of a tissue, then the child terms can be part of.''

@@ Line 193: / Line 193: @@
 The proposed new def'n will be:
-cortex (PO:0005708): A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
+'''[https://sourceforge.net/tracker/index.php?func=detail&aid=3011071&group_id=76834&atid=835555 cortex] (PO:0005708):''' A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
 ''For hypodermis, endodermis, and similar terms (like perimedullary zone), Barry suggested that we define the parent terms as the maximal portion of a tissue, then the child terms can be part of.''

@@ Line 189: / Line 189: @@
 RW suggests that both of these terms should be is_a 'cortex', rather than part_of 'cortex' (see SF tracker item for explanation).
-Proposed definitions:
+''During the POC conference call on 6-23-10, it was decided that endodermis and hypodermis should be part_of cortex, but we will need to change the
-'''hypodermis:''' The outermost layer of a portion of cortex. A layer or layers of cells beneath the epidermis that is distinct in appearance from adjacent tissues.
+The proposed new def'n will be:
-'''endodermis:''' The innermost layer of a portion of cortex. The layer of tissue forming a sheath around the vascular region and often having a casparian strip in its anticlinal walls; it may have secondary walls later.
+''For hypodermis, endodermis, and similar terms (like perimedullary zone), Barry suggested that we define the parent terms as the maximal portion of a tissue, then the child terms can be part of.''
-''During the POC conference call on 6-23-10, it was decided that endodermis and hypodermis should be part_of cortex, but we will need to change the
+'''hypodermis (PO:0005051):'''
-definition of cortex to allow this.''
+Current def'n: The outermost layer of a portion of cortex. A layer or layers of cells beneath the epidermis that is distinct in appearance from adjacent tissues.
-''For hypodermis, endodermis, and similar terms (like perimedullary zone), Barry suggested that we define the parent terms as the maximal portion of a tissue, then the child terms can be part of.''
+Proposed def'n: A portion of ground tissue that is the outermost layer of a portion of cortex.
-The proposed new def'ns will be:
+'''endodermis: (PO:0000252)'''
-cortex (PO:0005708): A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
+Current def'n: The innermost layer of a portion of cortex. The layer of tissue forming a sheath around the vascular region and often having a casparian strip in its anticlinal walls; it may have secondary walls later.
-'''endodermis:''' A portion of ground tissue that is the inner most layer of a cortex and has a casparian strip in its anticlinal cell walls.
+Proposed def'n: A portion of ground tissue that is the inner most layer of a cortex and has a casparian strip in its anticlinal cell walls.
 Comment: Forms a sheath around the vascular system. It may have secondary walls later, part_of cortex
-'''hypodermis:''' A portion of ground tissue that is the outermost layer of a portion of cortex.
 ''Other types of cortex, like stem cortex, then must also be defined as is_a ground tissue that is part_of cortex.''

@@ Line 201: / Line 201: @@
 The proposed new def'ns will be:
-cortex: A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
+cortex (PO:0005708): A maximal portion of ground tissue between the vascular system and the epidermis in a plant.
 '''endodermis:''' A portion of ground tissue that is the inner most layer of a cortex and has a casparian strip in its anticlinal cell walls.
 Comment: Forms a sheath around the vascular system. It may have secondary walls later, part_of cortex
-'''hypodermis:''' A portion of ground tissue that is the outermost layer of a portion of cortex. A layer or layers of cells beneath the epidermis that is
+'''hypodermis:''' A portion of ground tissue that is the outermost layer of a portion of cortex.
-distinct in appearance from adjacent tissues.
+comment:A layer or layers of cells beneath the epidermis that is distinct in appearance from adjacent tissues.
-Other types of cortex, like stem cortex, then must also be defined as is_a ground tissue that is part_of cortex.''
+''Other types of cortex, like stem cortex, then must also be defined as is_a ground tissue that is part_of cortex.''
 ===[https://sourceforge.net/tracker/?func=detail&aid=2813017&group_id=76834&atid=835555 new term for root tuber]===

@@ Line 195: / Line 195: @@
 '''endodermis:''' The innermost layer of a portion of cortex. The layer of tissue forming a sheath around the vascular region and often having a casparian strip in its anticlinal walls; it may have secondary walls later.
-''For hypodermis, endodermis, and similar terms (like perimedullary zone), Barry suggested that we define the parent terms as the maximal portion of a tissue, then the child terms can be part of. For example, cortex will be: A maximal portion of ground tissue between the vascular system and the epidermis in a plant. Then endodermis will be: A portion of ground tissue that forms the inner most layer of a cortex, etc. and it will be part_of cortex. Other types of cortex, like stem cortex, then must also be defined as is_a ground tissue that is part_of cortex.''
+The proposed new def'ns will be:
 ===[https://sourceforge.net/tracker/?func=detail&aid=2813017&group_id=76834&atid=835555 new term for root tuber]===

@@ Line 166: / Line 166: @@
 ''We agreed to obsolete dermal tissue and accept the new definitions of epidermis and periderm. A comment will be added to periderm that periderm may contain secondary phloem''
-''We will also add a comment to periderm that it is , derived from lateral meristerm. This can also be formalized in a relation but does not be in the definition.''
+''We will also add a comment to periderm that it is derived from lateral meristerm. This can also be formalized in a relation but does not be in the definition.''
 Also discussed:

← Older revision		Revision as of 18:57, 28 June 2010
Line 165:		Line 165:

	''We agreed to obsolete dermal tissue and accept the new definitions of epidermis and periderm. A comment will be added to periderm that periderm may contain secondary phloem''		''We agreed to obsolete dermal tissue and accept the new definitions of epidermis and periderm. A comment will be added to periderm that periderm may contain secondary phloem''
		+
		+	''We will also add a comment to periderm that it is , derived from lateral meristerm. This can also be formalized in a relation but does not be in the definition.''

	Also discussed:		Also discussed:

← Older revision		Revision as of 18:55, 28 June 2010
Line 192:		Line 192:

	'''endodermis:''' The innermost layer of a portion of cortex. The layer of tissue forming a sheath around the vascular region and often having a casparian strip in its anticlinal walls; it may have secondary walls later.		'''endodermis:''' The innermost layer of a portion of cortex. The layer of tissue forming a sheath around the vascular region and often having a casparian strip in its anticlinal walls; it may have secondary walls later.
−
−
−	~~. We will also add a comment to periderm that it is derived from lateral meristerm. This can also be formalized in a relation but does not be in the definition.''~~

← Older revision		Revision as of 18:53, 28 June 2010
Line 147:		Line 147:


−	C.1. Also updated term names and definitions of relevant parent terms and related terms:	+	'''C.1. Also updated term names and definitions of relevant parent terms and related terms:'''

	*[https://sourceforge.net/tracker/?func=detail&aid=3008008&group_id=76834&atid=835555 dermal tissue] (PO:0009014)		*[https://sourceforge.net/tracker/?func=detail&aid=3008008&group_id=76834&atid=835555 dermal tissue] (PO:0009014)

@@ Line 152: / Line 152: @@
 This term is redundant with epidermis. We will obsolete it, with note to move annotations to epidermis.
 *[https://sourceforge.net/tracker/?func=detail&aid=3008011&group_id=76834&atid=835555 epidermis] (PO:0005679)
@@ Line 158: / Line 157: @@
 Proposed def: A portion of plant tissue composed of epidermal cells that develops from the protoderm and covers the surface of a plant structure.
 Comment: The epidermis can be composed of one or more layers of cells. In some species, the epidermis is replaced by periderm.
 *[https://sourceforge.net/tracker/?func=detail&aid=3008013&group_id=76834&atid=835555 periderm] (PO:0005046)