Add new EFO terms for non-cancer NCIT entries

[paolaroncaglia]

We need to add the following new EFO terms to represent non-cancer NCIT entries: (remember to add NCIT and ICD10 xrefs)

• [x] Under 'injury': abdominal injury caustic injury crush injury head injury heart injury knee injury leg injury limb injury peripheral nerve injury

EFO:0009502 abdominal injury EFO:0009503 caustic injury EFO:0009504 crush injury EFO:0009505 head injury EFO:0009506 heart injury EFO:0009507 knee injury EFO:0009508 leg injury EFO:0009509 limb injury EFO:0009510 peripheral nerve injury

• [x] Under 'bone fracture': lower extremity fracture (then check if some children of 'bone fracture' should be classified under it) multiple fractures upper extremity fracture (then check if some children of 'bone fracture' should be classified under it) wrist fracture

EFO:0009512 lower extremity fracture EFO:0009513 multiple bone fractures EFO:0009514 upper extremity fracture EFO:0009515 wrist fracture

For the following, placement needs to be evaluated:

• [x] burn subclass of injury "A traumatic injury involving interruption of tissue cohesiveness that results from exposure to caustic chemicals, extreme heat, extreme cold or excessive radiation. [ NCI ]" (then classify 'eye burns' and 'sunburn' under it)

EFO:0009516 burn

• [x] checkup subclass of medical procedure "A general examination or inspection, especially one carried out by a doctor or dentist. [ NCI ]"

EFO:0009517 checkup

• [x] complication subclass of disease (based on the NCIT definition; NCIT has it under 'finding') "Any disease or disorder that occurs during the course of, or because of, another disease, treatment, or procedure. [ NCI ]"

EFO:0009518 complication

• [x] device complication subclass of complication "Any problem arising from the use of a medical device. [ NCI ]"

EFO:0009519 device complication

• [x] contraception subclass of 'medical procedure' "The prevention of conception or impregnation by the use of devices or drugs or surgery. [ NCI ]"

EFO:0009520 contraception

• [x] dislocation subclass of injury "A displacement of a part (especially a bone) from its normal position. [ NCI ]"

EFO:0009521 dislocation

• [x] disturbance of skin sensation subclass of 'sensory system disease' and 'peripheral nervous system disease' "Disruption of the normal functioning of the sensory nerves in the skin. [ NCI ]"

EFO:0009522 disturbance of skin sensation

• [ ] fall NCIT has it under 'event' "A sudden movement downward, usually resulting in injury. [ NCI ]"

• [x] fecal incontinence subclass of 'intestinal disease' "Involuntary passage of stool from the rectum. [ NCI ]"

EFO:0009523 fecal incontinence

• [x] female genital tract fistula subclass of 'reproductive system disease' "An abnormal communication between a female reproductive system organ and another organ or cavity. [ NCI ]"

EFO:0009524 female genital tract fistula

• [x] foreign body subclass of 'test result' (NCIT has it under 'finding') "Extraneous material within the body. [ NCI ]"

EFO:0009525 foreign body

• [x] foreign body in gastrointestinal tract subclass of 'foreign body' "Extraneous material located within the gastrointestinal tract. [ NCI ]"

EFO:0009526 foreign body in gastrointestinal tract

• [x] frostbite subclass of injury "An injury to the skin and/or its underlying tissues that results from exposure of the affected area to extreme cold. [ NCI ]"

EFO:0009527 frostbite

• [ ] high-risk pregnancy subclass of 'complication' "A fetal/maternal condition that is risky and portends complications for the mother and/or fetus, when compared to a normal pregnancy. [ NCI ]"

• [ ] intoxication (but first check if 'poisoning' could do)

• [ ] mosquito-borne hemorragic fever (with synonym '...haemorragic...')

• [ ] multiple gestation

• [ ] orthopedic nursing

• [ ] placental retention

• [ ] postpartum hemorrhage subclass of 'complication' "Hemorrhage defined as a blood loss in excess of 500 mL after vaginal delivery or more than 1000 mL after a cesarean delivery. [ NCI ]"

• [ ] prophylactic surgery

• [ ] rehabilitation

• [ ] sprain subclass of injury "A stretching or tearing of a ligament. [ NCI ]"

[zoependlington]

Foreign body could be added under "role", but "test result" is okay for now - may need to revisit this.

[paolaroncaglia]

For ease of editing comment, I'm copying here what's left to do from the comment above: We need to add the following new EFO terms to represent non-cancer NCIT entries: (remember to add NCIT and ICD10 xrefs)

• [ ] fall MARK THIS ONE AS PROBLEMATIC NCIT has it under 'event'; we could have it as subclass of 'physical activity' (as suggested by Simon); or consider and implement more recent suggestions made offline. "A sudden movement downward, usually resulting in injury. [ NCI ]"

• [x] high-risk pregnancy subclass of 'female reproductive system disease' "A fetal/maternal condition that is risky and portends complications for the mother and/or fetus, when compared to a normal pregnancy. [ NCI ]"

EFO:00009573 high-risk pregnancy

• [x] intoxication Subclass of 'poisoning' "Disturbances in psychophysiological functions and responses as a result of administration or ingestion of a psychoactive substance. [ NCI ]"

EFO:0009574 intoxication

• [x] mosquito-borne hemorragic fever subclass of 'viral disease' A group of viral illnesses that are vectored by mosquitoes, and that are characterized by increased susceptibility to bleeding diatheses. [ NCI ]

EFO:0009575 mosquito-borne hemorragic fever

• [x] multiple gestation subclass of 'pregnancy' "A pregnancy involving twins or higher-order multiple fetuses (e.g., triplets, quadruplets). [ NCI ]"

EFO:0009576 multiple gestation

• [x] orthopedic nursing subclass of 'medical procedure' "Nursing care with a special emphasis on the care of individuals with orthopaedic-related injuries, diseases, and diagnoses. [ NCI ]"

EFO:0009577 orthopedic nursing

• [x] placental retention subclass of 'placenta disease' "After delivery of neonate, placental retention that requires clinical intervention such as manual extraction, curettage or uterotonic medications. [ NCI ]"

EFO:0009578 placental retention

• [x] postpartum hemorrhage subclass of 'hemorrhage' "Hemorrhage defined as a blood loss in excess of 500 mL after vaginal delivery or more than 1000 mL after a cesarean delivery. [ NCI ]"

EFO:0009579 postpartum hemorrhage

• [x] prophylactic surgery subclass of 'medical procedure' "Any surgical procedure untaken prior to the occurrence of a disease/disorder, the goal of which is to prevent the disease/disorder from developing. [ NCI ]"

EFO:0009580 prophylactic surgery

• [x] rehabilitation subclass of 'medical procedure' "Restoration of the ability to function in a normal or near normal manner following disease, illness, or injury. [ NCI ]"

EFO:0009581 rehabilitation

• [x] sprain subclass of injury "A stretching or tearing of a ligament. [ NCI ]"

EFO:0009582 sprain

• [x] Add extra ICD10 xrefs for multiple mappings