resolve spelling errors

Author: obigriffith

06-knowledgebases.Rmd

@@ -40,4 +40,4 @@ My Cancer Genome gives information on cancer variant oncogenicity, therapeutic i
 
 ### Foundation One
 
-Foundation One provides tests for solid tumor as well as a liquid tumors. These tests take a tissue sample or a blood draw and search a panel of 300+ genes for cancer-relevant mutations. The tests are FDA-approved for discovery of relevant variants for targeted therapy, immunotherapy, or clinical trial options for the patient. An internal knowledgebase is curated and maintained in order to provide variant intepretations along with generated reports.
+Foundation One provides tests for solid tumor as well as a liquid tumors. These tests take a tissue sample or a blood draw and search a panel of 300+ genes for cancer-relevant mutations. The tests are FDA-approved for discovery of relevant variants for targeted therapy, immunotherapy, or clinical trial options for the patient. An internal knowledgebase is curated and maintained in order to provide variant interpretations along with generated reports.

07-civic_overview.Rmd

@@ -33,7 +33,7 @@ ottrpal::include_slide("https://docs.google.com/presentation/d/1zwvAVLWpN2mKrJLg
 
 ## Introduction to the CIViC web interface
 
-The CIViC web interface provides an interactive portal for browsing and searching exising cancer variants, evidence and assertions. It also provides a sophisticated curation interface for submitting new evidence or assertions, revisions to exising content, or comments. A brief tour of the [CIViC v2](https://civicdb.org){target="_blank"} interface is available here:
+The CIViC web interface provides an interactive portal for browsing and searching existing cancer variants, evidence and assertions. It also provides a sophisticated curation interface for submitting new evidence or assertions, revisions to exising content, or comments. A brief tour of the [CIViC v2](https://civicdb.org){target="_blank"} interface is available here:
 
 ```{r, echo=FALSE}
 knitr::include_url("https://www.youtube.com/embed/bpVkSP7qvgc")

resources/dictionary.txt

@@ -1,234 +1,172 @@
+AACR
+ABL
+ACMG
+actionability
+actionablilty
+afatinib
+AKT
+al
+Albracht
+allelic
+allignment
+amorphic
 AnVIL
 ASCO
+BAC
+Barnell
+BCR
+bioinformatics
+biomarker
 BIPOC
 Bloomberg
 Bookdown
+Bouk
+bp
+Catalogue
+CCG
 CGC
 CIViC
 civicdb
 ClinGen
 ClinVar
+CML
+CNLOH
+CNVs
+Coffman
+colorectal
+counterindication
 Coursera
 css
 curation
-Datatrail
+Danos
 DataTrail
+Datatrail
+de
+disregulated
 Dockerfile
 Dockerhub
 dropdown
+duplications
+EGFR
+erlotinib
+ESMO
+et
 favicon
+FFPE
+FGFR
+frameshift
 fyi
 GDSCN
 GenBank
+germline
+GH
 GitHub
 Github
-GH
 gnomAD
-impactful
-ITCR
-itcrtraining
-ITN
-knowledgebases
-knowledgebase
-Leanpub
-rmarkdown
-Markua
-mentorship
-NCI
-NHGRI
-oncogenicity
-oncoKB
-OncoKB
-ottrpal
-Pandoc
-pathogenicity
-UE
-UE5
-RefSeq
-reproducibility
-SOPs
-SOP
-underserved
-VICC
-www
-ACMG
-AKT
-Albracht
-BAC
-Barnell
-Bouk
-Coffman
-Danos
-EGFR
-FFPE
 GRC
 GRCh
 Grisdale
-HGVS
 Hanahan
-Hypomorphic
-Hypermorphic
-IGV
-KRAS
-Kitts
-Kiwala
-Krysiak
-Kujan
-LOF
-McMichael
-NGS
-Neomorphic
-Nissen
-Oncogenic
-Pema
-Ph
-PubMed
-Raca
-Rao
-Ritter
-SBS
-Sheta
-Sonkin
-Thibaud
-Wollam
-actionability
-al
-allelic
-bp
-colorectal
-counterindication
-de
-et
-germline
+heterozygosity
 hg
-hypomorphic
-kb
-kilobase
-kinases
-novo
-nucleotides
-oncogenic
-phenotypes
-segmentally
-siloed
-subtypes
-tyrosine
-vitro
-word
-ACMG
-AKT
-Albracht
-BAC
-Barnell
-Bouk
-Coffman
-Danos
-EGFR
-FFPE
-GRC
-GRCh
-Grisdale
 HGVS
-Hanahan
 Hyopmorphic
 Hypermorphic
+Hypomorphic
+hypomorphic
+ICGC
 IGV
-KRAS
+imatinib
+immunotherapy
+impactful
+Indels
+indels
+independant
+ITCR
+itcrtraining
+ITN
+kb
+kilobase
+kinases
 Kitts
 Kiwala
+KMS
+knowledgebase
+knowledgebases
+KRAS
 Krysiak
 Kujan
+Leanpub
 LOF
+Markua
 McMichael
-NGS
+mentorship
+Missense
+missense
+MSK
+MyCancerGenome
+myeloid
+NCI
 Neomorphic
+NGS
+NHGRI
 Nissen
+novo
+NTRK
+nucleotides
 Oncogenic
+oncogenic
+oncogenicity
+OncoKB
+oncoKB
+OnkoKB
+ottrpal
+Pandoc
+Parimony
+pathogenicity
 Pema
 Ph
+phenotypes
+preclinical
+Proline
 PubMed
 Raca
 Rao
+RefSeq
+reproducibility
 Ritter
+rmarkdown
 SBS
-Sheta
-Sonkin
-Thibaud
-Wollam
-actionability
-al
-allelic
-bp
-colorectal
-counterindication
-de
-et
-germline
-hg
-hypomorphic
-independant
-kb
-kilobase
-kinases
-novo
-nucleotides
-oncogenic
-phenotypes
 segmentally
+Sheta
 siloed
-subtypes
-theeffect
-tyrosine
-vitro
-word
-AACR
-ABL
-BCR
-CCG
-CML
-CNLOH
-CNVs
-Catalogue
-ESMO
-FGFR
-ICGC
-Indels
-KMS
-MSK
-Missense
-NTRK
-OnkoKB
-Parimony
-Proline
 SNVs
+Sonkin
+SOP
+SOPs
 Submitters
+submitters
+subtypes
+targetable
 TCGA
+tetramer
 TGA
 TGC
+th
+theeffect
+Thibaud
+tiering
 Translocations
+tyrosine
+UE
+UE5
+underserved
 VCEP
 VCEPs
 VCF
+VICC
+vitro
 VUS
-actionablilty
-afatinib
-allignment
-amorphic
-bioinformatics
-biomarker
-disregulated
-duplications
-erlotinib
-frameshift
-imatinib
-immunotherapy
-indels
-missense
-myeloid
-preclinical
-submitters
-targetable
-tetramer
-th
-tiering
+Wollam
 word
+www