TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1141c/echA11:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.5088)	info on Rv1526c/-
Rv2425c/-	(cc=0.488)	info on Rv2425c/-
Rv3016/lpqA	(cc=0.4866)	info on Rv3016/lpqA
Rv1787/PPE25	(cc=0.4835)	info on Rv1787/PPE25
Rv2147c/-	(cc=0.4766)	info on Rv2147c/-
Rv2345/-	(cc=0.4695)	info on Rv2345/-
Rv3190A/-	(cc=0.4649)	info on Rv3190A/-
Rv1000c/-	(cc=0.4537)	info on Rv1000c/-
Rv1981c/nrdF1	(cc=0.4511)	info on Rv1981c/nrdF1
Rv2300c/-	(cc=0.4476)	info on Rv2300c/-

Correlation of Rv1141c/echA11 with Rv1000c/-

Normalized LFCs for Rv1141c/echA11:
(description and provenance of datasets)

	Rv1141c/echA11	Rv1000c/-
Fe_supp_jason_reseq	-1.143	-1.361
low_pH_jason_reseq	-1.589	-2.546
NO_jason_reseq	0.365	-0.197
B6_jason_reseq	-0.567	-0.576
MHCII_jason_reseq	-0.357	-0.576
Isoniazid02	-0.201	-1.963
Rifampicin4	0.872	0.384
Ethambutol3	-0.078	-1.688
Meropenem3	0.399	-1.517
Vancomycin16	-0.151	-0.584
Rv2680_day32	-0.615	-1.602
H37Rv_KO_MarP	0.072	0.138
hypoxia_3wks	-0.148	0.06
hypoxia_6wks	0.104	0.566
glycerol	0.478	0.127
cholesterol	-0.485	0.507
AJ	0.121	0.45
Bibs02	-0.152	-0.091
Bibs02c	1.144	0.073
BL6	0.694	0.353
BL6a	1.115	-0.324
BXD01	0.577	-0.594
BXD010	0.13	0.196
BXD011	2.406	0.672
BXD03	0.515	0.287
BXD04	0.477	-0.76
BXD05	-0.083	-0.145
BXD06	0.221	-0.125
BXD07	0.805	0.244
BXD08	0.228	-0.345
BXD09	0.496	-0.379
CAST	0.582	-0.229
CCcont	0.401	-0.888
DS01	-0.031	0.542
DS02	-0.244	0.569
DS04	0.013	0.52
DS0c	0.057	0.608
GP01	1.232	0.172
GP02	0.471	0.497
GP0c	0.902	-0.196
NOD	0.496	0.477
NZO	-0.361	0.458
PWK	0.423	-0.345
H37Rv_KO_CtpC	0.81	0.211
H37Rv_KO_CtpD	1.174	0.678
H37Rv_KO_Rv1272	0.686	-0.644
H37Rv_KO_SugABC	1.109	1.463
H37Rv_KO_MbtN	0.806	0.647
Trans05	0.467	-0.157
macrophage_unactivated	0.363	-0.199
IL1	0.163	0.789
Rapamycin	0.129	0.657
Tcell	0.837	0.235
GMCSF	0.977	1.751
IFNab	0.021	0.323
IFNg	-0.115	1.475
IFNg_GMCSF1	0.955	1.335
Rv1432_day32	-0.292	1.551
Rv1565c_day32	0.325	0.607
secA2_input	-0.063	-1.032
delta_Rv3594	0.285	-0.413
delta_Rv3717	0.159	-0.417
delta_Rv3811	0.7	-0.587
delta_Rv0954	0.424	-0.115
PonA1	-0.504	-0.262
EccD1_KO	1.5	1.447
EspI_KO	1.483	1.805
PE35_KO	0.718	0.732
PPE68_KO	1.488	1.113
glycerol2	0.921	-0.147
lignocerate	1.108	-0.136
oleate	1.231	0.405
phosphatidylcholine	1.325	0.21
acetate	0.545	-0.82
glucAc	0.461	-0.624
Rv0950ko	-0.353	0.22
Rv1096ko	0.103	0.715
Rv3684ko	-0.508	-0.639
delta_otsA_trehalose	1.225	-0.104