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 Rv1921c/lppF:

update plot	correlation	link to info on gene
Rv3538/-	(cc=0.489)	info on Rv3538/-
Rv1866/-	(cc=0.4783)	info on Rv1866/-
Rv1182/papA3	(cc=0.469)	info on Rv1182/papA3
Rv1676/-	(cc=0.4609)	info on Rv1676/-
Rv1632c/-	(cc=0.4435)	info on Rv1632c/-
Rv2105/-	(cc=0.4316)	info on Rv2105/-
Rv1115/-	(cc=0.4269)	info on Rv1115/-
Rv3335c/-	(cc=0.4265)	info on Rv3335c/-
Rv1394c/cyp132	(cc=0.4197)	info on Rv1394c/cyp132
Rv2015c/-	(cc=0.4174)	info on Rv2015c/-

Correlation of Rv1921c/lppF with Rv3335c/-

Normalized LFCs for Rv1921c/lppF:
(description and provenance of datasets)

	Rv1921c/lppF	Rv3335c/-
Fe_supp_jason_reseq	-0.055	-1.986
low_pH_jason_reseq	1.548	-0.249
NO_jason_reseq	-0.11	-0.462
B6_jason_reseq	0.649	1.534
MHCII_jason_reseq	0.378	-0.724
Isoniazid02	0.457	0.313
Rifampicin4	0.1	0.0
Ethambutol3	1.023	0.04
Meropenem3	0.158	0.152
Vancomycin16	-0.241	0.493
Rv2680_day32	0.438	-0.067
H37Rv_KO_MarP	0.298	-0.375
hypoxia_3wks	0.14	-1.623
hypoxia_6wks	0.459	-1.142
glycerol	0.086	0.774
cholesterol	-0.269	0.221
AJ	0.308	0.413
Bibs02	0.017	0.829
Bibs02c	0.303	-0.411
BL6	0.036	0.726
BL6a	-0.029	-0.218
BXD01	0.161	0.164
BXD010	-0.363	-0.783
BXD011	-0.267	-0.25
BXD03	-0.291	-2.177
BXD04	-0.1	-1.184
BXD05	0.039	-0.289
BXD06	-0.019	-0.125
BXD07	0.281	-0.458
BXD08	-0.08	-0.413
BXD09	-0.159	-0.859
CAST	0.152	-0.37
CCcont	-0.044	0.41
DS01	0.332	-0.984
DS02	0.306	-0.72
DS04	0.028	-1.858
DS0c	0.36	-2.624
GP01	0.374	0.085
GP02	0.016	-1.089
GP0c	0.289	-0.255
NOD	0.278	0.742
NZO	0.23	0.764
PWK	0.571	0.963
H37Rv_KO_CtpC	-0.14	-0.538
H37Rv_KO_CtpD	0.886	2.842
H37Rv_KO_Rv1272	0.911	0.434
H37Rv_KO_SugABC	-0.429	-0.481
H37Rv_KO_MbtN	1.082	1.923
Trans05	0.168	-0.06
macrophage_unactivated	-0.543	-1.37
IL1	-0.383	-1.777
Rapamycin	-0.193	-2.262
Tcell	-0.339	-0.821
GMCSF	0.771	2.445
IFNab	-0.571	-0.762
IFNg	-0.529	-0.406
IFNg_GMCSF1	-0.999	-1.364
Rv1432_day32	0.289	-0.213
Rv1565c_day32	-0.071	-2.671
secA2_input	0.083	0.371
delta_Rv3594	0.17	0.33
delta_Rv3717	0.624	0.832
delta_Rv3811	0.109	1.487
delta_Rv0954	-0.536	0.199
PonA1	-0.008	1.482
EccD1_KO	0.155	-0.776
EspI_KO	0.456	-0.174
PE35_KO	0.484	1.24
PPE68_KO	0.435	0.422
glycerol2	0.57	3.013
lignocerate	0.609	2.934
oleate	0.586	-0.961
phosphatidylcholine	0.668	2.178
acetate	0.078	3.769
glucAc	0.163	3.181
Rv0950ko	0.0	-0.274
Rv1096ko	0.06	0.733
Rv3684ko	-0.023	-0.455
delta_otsA_trehalose	-0.038	-1.175