Team:Paris Bettencourt/Project/Target/FBA

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Revision as of 09:43, 28 October 2013

PROJECT
- OVERVIEW
- DETECT
- TARGET
- INFILTRATE
- SABOTAGE
ACHIEVEMENTS
HUMAN PRACTICE
SAFETY
COLLABORATION
- COLLABORATION
- SENSIGEM
NOTEBOOK
TEAM

@iGEM_Paris

E coli essential genes

Browse E. coli essential genes in EcoCyc here

List of predicted complementary knockouts

M Tuberculosis essential gene(s)	BioCyc Link	E coli knockout(s)	BioCyc Link	Cellular Process
accD3 accD5 Rv3281	browse	accA accD accB accC	browse	fatty acid biosynthesis
argB	browse	argB	browse	arginine biosynthesis
ilvG ilvN ilvB ilvB2 ilvX	browse	ilvI ilvH ilvN ilvB ilvG_1 ilvG_2 ilvM	browse	valine biosynthesis
argD	browse	argD	browse	arginine biosynthesis
cysD cysN	browse	cysC	browse	phosphorylation
purB	browse	purB	browse	purine nucleotide biosynthesis
purB	browse	purB	browse	purine nucleotide biosynthesis
purA	browse	purA	browse	purine nucleotide biosynthesis
argC	browse	argC	browse	arginine biosynthesis
ddlA	browse	ddlB ddlA	browse	peptidoglycan biosynthesis
trpD	browse	trpD	browse	tryptophan biosynthesis
trpE Rv2859c	browse	trpD trpE	browse	tryptophan biosynthesis
asd	browse	asd	browse	homoserine biosynthesis
pyrB	browse	pyrI pyrB	browse	pyrimidine nucleotide biosynthesis
ask	browse	thrA metL lysC	browse	homoserine biosynthesis
aspC aspB	browse	aspC	browse	L-phenylalanine biosynthesis
hisG	browse	hisG	browse	histidine biosynthesis
fabG2 inhA fas pks15	browse	fabZ fabA fabG fabF fabI fabB	browse	fatty acid biosynthesis
Rv1885c	browse	pheA tyrA	browse	L-phenylalanine biosynthesis
aroF	browse	aroC	browse	chorismate biosynthesis
cysM3 cysM cysK	browse	cysK cysM	browse	cysteine biosynthesis
metC	browse	malY metC	browse	transcription, DNA-dependent
lysA	browse	lysA	browse	cellular amino acid biosynthesis
dapF	browse	dapF	browse	cellular amino acid biosynthesis
aroG	browse	aroG aroH aroF	browse	L-phenylalanine biosynthesis
ilvD	browse	ilvD	browse	valine biosynthesis
dapB	browse	dapB	browse	diaminopimelate biosynthesis
dapA	browse	dapA	browse	diaminopimelate biosynthesis
dfrA	browse	folA	browse	10-formyltetrahydrofolate biosynthesis
pyrC	browse	pyrC	browse	pyrimidine nucleotide biosynthesis
aroD	browse	aroD	browse	chorismate biosynthesis
aroB	browse	aroB	browse	chorismate biosynthesis
glmU	browse	glmU	browse	UDP-N-acetylglucosamine biosynthesis
glmS	browse	glmS	browse	UDP-N-acetylglucosamine biosynthesis
gmk	browse	gmk	browse	purine nucleotide biosynthesis
glnA3 glnA glnA1 glnA2 glnA4	browse	puuA glnA	browse	putrescine catabolism
purF hisH	browse	purF	browse	purine nucleotide biosynthesis
murI	browse	murI	browse	peptidoglycan biosynthesis
guaA	browse	guaA	browse	GMP biosynthesis
Rv3273 Rv3588c	browse	\|can\| cynT	browse	cyanate catabolism
hisD	browse	hisD	browse	histidine biosynthesis
hisC cobC hisC2	browse	hisC	browse	histidine biosynthesis
hisF	browse	hisH hisF	browse	histidine biosynthesis
hisB	browse	hisB	browse	histidine biosynthesis
trpC	browse	trpC	browse	tryptophan biosynthesis
ilvE	browse	ilvE	browse	valine biosynthesis
purH	browse	purH	browse	purine nucleotide biosynthesis
guaB1 guaB3 guaB2	browse	guaB	browse	purine nucleotide biosynthesis
leuB	browse	leuB	browse	leucine biosynthesis
leuD leuC	browse	leuD leuC	browse	leucine biosynthesis
leuD leuC	browse	leuD leuC	browse	leucine biosynthesis
leuA	browse	leuA	browse	leucine biosynthesis
ilvC	browse	ilvC	browse	valine biosynthesis
ilvC	browse	ilvC	browse	valine biosynthesis
ilvE	browse	ilvE tyrB	browse	valine biosynthesis
fadD37 fabD	browse	fabD	browse	fatty acid biosynthesis
metK	browse	metK	browse	S-adenosylmethionine biosynthesis
metH	browse	metE metH	browse	methionine biosynthesis
ndkA	browse	ndk	browse	purine nucleotide biosynthesis
ndkA	browse	ndk	browse	purine nucleotide biosynthesis
argF	browse	argF argI	browse	arginine biosynthesis
pyrF	browse	pyrF	browse	purine nucleotide biosynthesis
umpA	browse	pyrE	browse	pyrimidine nucleotide biosynthesis
murX	browse	mraY	browse	peptidoglycan biosynthesis
cysH	browse	cysH	browse	sulfur compound metabolism
Rv0728c serA	browse	serA	browse	L-serine biosynthesis
pgmA	browse	pgm yqaB	browse	glucose metabolism
ppa	browse	ppa	browse	phosphate-containing compound metabolism
tyrA	browse	tyrA	browse	L-phenylalanine biosynthesis
pheA	browse	pheA	browse	L-phenylalanine biosynthesis
purD	browse	purD	browse	purine nucleotide biosynthesis
purM	browse	purM	browse	purine nucleotide biosynthesis
hisA	browse	trpC	browse	tryptophan biosynthesis
hisI2	browse	hisI	browse	histidine biosynthesis
purC	browse	purC	browse	purine nucleotide biosynthesis
hisI	browse	hisI	browse	histidine biosynthesis
purQ purL	browse	purL	browse	purine nucleotide biosynthesis
hisA	browse	hisA	browse	histidine biosynthesis
prsA	browse	prs	browse	nucleotide biosynthesis
aroA	browse	aroA	browse	chorismate biosynthesis
serC	browse	serC	browse	L-serine biosynthesis
serB serB2	browse	serB	browse	L-serine biosynthesis
rpi	browse	rpiA rpiB	browse	D-ribose metabolism
dapE	browse	dapE	browse	cellular amino acid biosynthesis
cysE	browse	cysE	browse	cysteine biosynthesis
aroE	browse	ydiB aroE	browse	chorismate biosynthesis
aroK	browse	aroL aroK	browse	chorismate biosynthesis
metZ metB	browse	metB	browse	methionine biosynthesis
Rv1739c cysA cysW cysT subI	browse	cysZ cysA cysW cysU cysP sbp	browse	sulfur compound metabolism
Rv1201c	browse	dapD	browse	lysine biosynthesis
Rv2754c thyA	browse	thyA	browse	10-formyltetrahydrofolate biosynthesis
trxB2	browse	trxB	browse	oxidation-reduction process
murE	browse	murE	browse	peptidoglycan biosynthesis
murA	browse	murA	browse	peptidoglycan biosynthesis
glmU	browse	glmU	browse	UDP-N-acetylglucosamine biosynthesis
murG	browse	murG	browse	peptidoglycan biosynthesis
murD	browse	murD	browse	peptidoglycan biosynthesis
murC	browse	murC	browse	peptidoglycan biosynthesis
murB	browse	murB	browse	peptidoglycan biosynthesis
murF	browse	murF	browse	peptidoglycan biosynthesis

Table style from the HTML Table Generator

Centre for Research and Interdisciplinarity (CRI)
Faculty of Medicine Cochin Port-Royal, South wing, 2nd floor
Paris Descartes University
24, rue du Faubourg Saint Jacques
75014 Paris, France

+33 1 44 41 25 22/25

team2013@igem-paris.org

@@ Line 191: / Line 191: @@
          <td>cysK cysM </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=cysK,cysM" target="_blank">browse</a></td>
-         <td>cysteine biosynthesis from serine</td>
+         <td>cysteine biosynthesis </td>
        </tr>
        <tr>
@@ Line 289: / Line 289: @@
          <td>gmk </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=gmk" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 296: / Line 296: @@
          <td>puuA glnA </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=puuA,glnA" target="_blank">browse</a></td>
-         <td>putrescine catabolic process</td>
+         <td>putrescine catabolism</td>
        </tr>
        <tr>
@@ Line 324: / Line 324: @@
          <td>|can| cynT </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=|can|,cynT" target="_blank">browse</a></td>
-         <td>cyanate catabolic process</td>
+         <td>cyanate catabolism</td>
        </tr>
        <tr>
@@ Line 373: / Line 373: @@
          <td>purH </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=purH" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 380: / Line 380: @@
          <td>guaB </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=guaB" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 457: / Line 457: @@
          <td>ndk </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=ndk" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 464: / Line 464: @@
          <td>ndk </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=ndk" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 478: / Line 478: @@
          <td>pyrF </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=pyrF" target="_blank">browse</a></td>
-         <td>nucleobase-containing small molecule interconversion</td>
+         <td>purine nucleotide biosynthesis</td>
        </tr>
        <tr>
@@ Line 499: / Line 499: @@
          <td>cysH </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=cysH" target="_blank">browse</a></td>
-         <td>sulfur compound metabolic process</td>
+         <td>sulfur compound metabolism</td>
        </tr>
        <tr>
@@ Line 513: / Line 513: @@
          <td>pgm yqaB </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=pgm,yqaB" target="_blank">browse</a></td>
-         <td>glucose metabolic process</td>
+         <td>glucose metabolism</td>
        </tr>
        <tr>
@@ Line 520: / Line 520: @@
          <td>ppa </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=ppa" target="_blank">browse</a></td>
-         <td>phosphate-containing compound metabolic process</td>
+         <td>phosphate-containing compound metabolism</td>
        </tr>
        <tr>
@@ Line 625: / Line 625: @@
          <td>rpiA rpiB </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=rpiA,rpiB" target="_blank">browse</a></td>
-         <td>D-ribose metabolic process</td>
+         <td>D-ribose metabolism</td>
        </tr>
        <tr>
@@ Line 639: / Line 639: @@
          <td>cysE </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=cysE" target="_blank">browse</a></td>
-         <td>cysteine biosynthesis from serine</td>
+         <td>cysteine biosynthesis </td>
        </tr>
        <tr>
@@ Line 667: / Line 667: @@
          <td>cysZ cysA cysW cysU cysP sbp </td>
          <td><a href="http://www.ecocyc.org/overviewsWeb/celOv.shtml?zoomlevel=0&lon=600&lat=29765&orgid=ECOLI&gnids=cysZ,cysA,cysW,cysU,cysP,sbp" target="_blank">browse</a></td>
-         <td>sulfur compound metabolic process</td>
+         <td>sulfur compound metabolism</td>
        </tr>
        <tr>