User:Dpuiu: Difference between revisions
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Daniela Puiu's page | Daniela Puiu's page | ||
== | = NCBI = | ||
* [http://www.ncbi.nlm.nih.gov/ NCBI] ; [http://www.ncbi.nlm.nih.gov/Traces/assembly/assmbrowser.cgi?cmd=browse&f=&m=main&s=browse AA] ; [http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=on&BLAST_PROGRAMS=megaBlast&PAGE_TYPE=BlastSearch&SHOW_DEFAULTS=on BLAST] ; [http://www.ncbi.nlm.nih.gov/genomes/lproks.cgi Microbial_Genomes] ; [http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi? SRA] [ftp://ftp.ncbi.nih.gov/pub/TraceDB/ShortRead/ SRA_FTP] ; [http://www.ncbi.nlm.nih.gov/Traces/trace.cgi? TA] ; [ftp://ftp.ncbi.nih.gov/pub/TraceDB/ TA_FTP] ; [ftp://ftp.ncbi.nih.gov/genomes/ Genomes_FTP] ; [ftp://ftp.ncbi.nih.gov/genomes/Bacteria Bacterial Genomes FTP] ; [http://www.ncbi.nlm.nih.gov/Taxonomy/CommonTree/wwwcmt.cgi Taxonomy CommonTree] | |||
* [http://www.ncbi.nlm.nih.gov/genomes/genlist.cgi?taxid=2&type=0&name=Complete%20Bacteria Complete Bacteria] | |||
= Links = | |||
* [http://www.hgsc.bcm.tmc.edu/ Baylor] | * [http://www.hgsc.bcm.tmc.edu/ Baylor] | ||
* [http://www.embl.org/ EMBL] | * [http://www.embl.org/ EMBL] | ||
* [http://emboss.sourceforge.net/apps/#Overview EMBOSS] | * [http://emboss.sourceforge.net/apps/#Overview EMBOSS] | ||
* [http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=search&term=homo%20sapiens Homo Sapiens Genome Projects] | |||
* [http://genome.jgi-psf.org/mic_home.html JGI Microbial Genomes] | |||
* [http://www.genomesonline.org/ JGI Genomes Online (GOLD)] | |||
* [http://img.jgi.doe.gov/cgi-bin/pub/main.cgi JGI Integrated Microbial Genomes (IMG)] | |||
* [http://www.sanger.ac.uk/ Sanger] | * [http://www.sanger.ac.uk/ Sanger] | ||
* [http://www.sanger.ac.uk/Projects/Microbes/ Sanger Microbial Genomes] | * [http://www.sanger.ac.uk/Projects/Microbes/ Sanger Microbial Genomes] | ||
* [http://www.thearkdb.org/arkdb/index.jsp ARKDB] genetic maps - cow, chicken ... | |||
= Projects = | |||
'''DHS genomes''' | |||
* [[Bioterrorism|Bioterrorism]] | |||
* [[Bacillus_anthracis|Bacillus anthracis]] | |||
* [[Burkholderia_mallei|Burkholderia mallei]] | |||
* [[Burkholderia_pseudomallei|Burkholderia pseudomallei]] | |||
* [[Clostridium_botulinum|Clostridium botulinum]] (Hall strain A str. ATCC 3502) ; uploaded to Insignia ; (other) ; some uploaded to Insignia | |||
* [[Clostridium_perfringens|Clostridium perfringens]] ; some uploaded to Insignia | |||
* [[Cryptosporidium_hominis|Cryptosporidium hominis]] (test) | |||
* [[Francisella_tularensis_holarctica_OSU18|Francisella tularensis OSU18]] in Insignia | |||
* [[Francisella_tularensis|Francisella tularensis]] some uploaded to Insignia | |||
* [[Salmonella|Salmonella]] (Washington Univ in St Louis) | |||
* [[Yersinia_enterocolitica|Yersinia enterocolitica]] | |||
* [[Yersinia_pestis|Yersinia pestis]] | |||
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* [[ | '''Other genomes''' | ||
* [[Bumblebee|Bombus impatiens]] | |||
* [[Brugia_malayi|Brugia malayi]] | |||
* [[Bos_taurus|Bos taurus]] , [[Bos_taurus_redo|Bos taurus redo]] , [[Bos_taurus_3.0|Bos taurus 3.0]] | |||
* [[dpuiu_cat|Cat]] | |||
* [[Coffee_bacs|Coffee BACs]] | |||
* [[Culex_pipiens_symbiont|Culex pipiens wolbachia symbiont]] | * [[Culex_pipiens_symbiont|Culex pipiens wolbachia symbiont]] | ||
* [[ | * [[Culex_pipiens_mitochondrion|Culex pipiens wolbachia mitochondrion]] | ||
* [[Xanthomonas_oryzae|Xanthomonas oryzae]] | * [[Helicobacter_pylori|Helicobacter pylori]] | ||
* [[Homo_sapiens|Homo sapiens]] | |||
* [[Kalanchoe|Kalanchoe]] | |||
* [[Megachile_rotundata|Megachile rotundata]] | |||
* [[Methanobrevibacter_smithii|Methanobrevibacter smithii]] | |||
* [[Pine_tree|Pine tree]] | |||
* [[Pseudomonas_aeruginosa|Pseudomonas aeruginosa]] | |||
* [[Pseudodomonas_syringae|Pseudomonas syringae]] | |||
* [[Sea_urchin|Sea urchin]] | |||
* [[Turkey|Turkey]] | |||
* [[Xanthomonas_oryzae|Xanthomonas oryzae]] XOO | |||
* [[Xanthomonas_campestris_pv_raphani|Xanthomonas campestris pv. raphani]] XCR | |||
* [[Strawberry|Strawberry]] | |||
* [[Ecoli_germany|Ecoli Germany]] | |||
--> | |||
= Other = | |||
* [[Trace_formatting|Sequencing]] | |||
* [[dpuiu_CA|CA]] ; [[Assembly_merge|Assembly]] | |||
* [[Comparative_assemblies|Comparative assemblies]] | |||
* [[Metagenoms|Metagenomics]] | |||
* [[NCBI_submission|NCBI submission]] | * [[NCBI_submission|NCBI submission]] | ||
* [[Repeat_search|Repeat search]] | |||
* [[Vector_trimming|Vector trimming]] | |||
* [[Data_formats|Data formats]] | |||
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* [[dpuiu_Assemblathon|Assemblathon]] | |||
* [[dpuiu_HTS|HTS]] | |||
* [[dpuiu_definitions|Definitions]] | |||
* [[dpuiu_meeting_notes|Meeting notes]] | |||
* [[dpuiu_articles|My articles]] | |||
* [[dpuiu_CS|CS]] ; [[dpuiu_Perl|Perl]] ; [[dpuiu_C|C]] ; [[dpuiu_Linux|Linux]] ; [[dpuiu_DOS|DOS]] ; [[douiu_wiki|wiki]] ; [[dpuiu_thunderbird|thunderbird]] | |||
* [[Pop_group_meeting|Pop group meeting]] (Monday 's 3pm) | |||
* [[dpuiu_snp|Snp calling]] | |||
* [[dpuiu_todo|ToDo]] | |||
* [[dpuiu_JHU|JHU]] | |||
--> | |||
Latest revision as of 15:34, 27 December 2011
Daniela Puiu's page
NCBI
- NCBI ; AA ; BLAST ; Microbial_Genomes ; SRA SRA_FTP ; TA ; TA_FTP ; Genomes_FTP ; Bacterial Genomes FTP ; Taxonomy CommonTree
- Complete Bacteria
Links
- Baylor
- EMBL
- EMBOSS
- Homo Sapiens Genome Projects
- JGI Microbial Genomes
- JGI Genomes Online (GOLD)
- JGI Integrated Microbial Genomes (IMG)
- Sanger
- Sanger Microbial Genomes
- ARKDB genetic maps - cow, chicken ...
Projects
DHS genomes
- Bioterrorism
- Bacillus anthracis
- Burkholderia mallei
- Burkholderia pseudomallei
- Clostridium botulinum (Hall strain A str. ATCC 3502) ; uploaded to Insignia ; (other) ; some uploaded to Insignia
- Clostridium perfringens ; some uploaded to Insignia
- Cryptosporidium hominis (test)
- Francisella tularensis OSU18 in Insignia
- Francisella tularensis some uploaded to Insignia
- Salmonella (Washington Univ in St Louis)
- Yersinia enterocolitica
- Yersinia pestis