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

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

@@ Line 1: / Line 1: @@
 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]
-== Other links: ==
+= 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.embl.org/ EMBL]
 * [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/Projects/Microbes/ Sanger Microbial Genomes]
-* CBCB NCBI complete genomes: /fs/szdata//ncbi/genomes/Bacteria/  (*.fna)
-== Projects: ==
+* [http://www.thearkdb.org/arkdb/index.jsp ARKDB] genetic maps - cow, chicken ...
+= Projects =
-=== DHS genomes ===
+'''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
+* [[Clostridium_botulinum|Clostridium botulinum]] (Hall strain A str. ATCC 3502) ; uploaded to Insignia ; (other) ; some uploaded to Insignia
-* [[Clostridium_botulinum_other_strains|Clostridium botulinum]] (other) ; some uploaded to Insignia
 * [[Clostridium_perfringens|Clostridium perfringens]] ; some uploaded to Insignia
 * [[Cryptosporidium_hominis|Cryptosporidium hominis]] (test)
-* [[Francisella_tularensis|Francisella tularensis]] ; some uploaded to Insignia
+* [[Francisella_tularensis_holarctica_OSU18|Francisella tularensis OSU18]] in Insignia
+* [[Francisella_tularensis|Francisella tularensis]] some uploaded to Insignia
 * [[Salmonella|Salmonella]] (Washington Univ in St Louis)
-* [[Salmonella_other|Salmonella]] (other)
 * [[Yersinia_enterocolitica|Yersinia enterocolitica]]
 * [[Yersinia_pestis|Yersinia pestis]]
-=== Other genomes ===
+<!--
+'''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_mitochondrion|Culex pipiens wolbachia mitochondrion]]
+* [[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]]
-* [[Xanthomonas_oryzae|Xanthomonas oryzae]]
+* [[Sea_urchin|Sea urchin]]
+* [[Turkey|Turkey]]
-=== Other projects ===
+* [[Xanthomonas_oryzae|Xanthomonas oryzae]] XOO
+* [[Xanthomonas_campestris_pv_raphani|Xanthomonas campestris pv. raphani]] XCR
+* [[Strawberry|Strawberry]]
+* [[Ecoli_germany|Ecoli Germany]]
+-->
-* [[Assembly_formatting|Assembly formatting]]
+= Other =
-* [[Assembly_merge|Assembly merge]]
+* [[Trace_formatting|Sequencing]]
+* [[dpuiu_CA|CA]] ; [[Assembly_merge|Assembly]]
 * [[Comparative_assemblies|Comparative assemblies]]
-* [[Metagenoms|Metagenoms]]
+* [[Metagenoms|Metagenomics]]
 * [[NCBI_submission|NCBI submission]]
-* [[Sequence_manipulation|Sequence manipulation]]
+* [[Repeat_search|Repeat search]]
-* [[Trace_formatting|Trace formatting]]
+* [[Vector_trimming|Vector trimming]]
+* [[Data_formats|Data formats]]
+<!--
+* [[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]]
+-->

User:Dpuiu: Difference between revisions

Latest revision as of 15:34, 27 December 2011

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