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 Rv2135c/-:

update plot	correlation	link to info on gene
Rv2904c/rplS	(cc=0.6217)	info on Rv2904c/rplS
Rv2051c/ppm1	(cc=0.558)	info on Rv2051c/ppm1
Rv0736/rslA	(cc=0.5513)	info on Rv0736/rslA
Rv2869c/rip	(cc=0.5271)	info on Rv2869c/rip
Rv2603c/-	(cc=0.4946)	info on Rv2603c/-
Rv0410c/pknG	(cc=0.4935)	info on Rv0410c/pknG
Rv0324/-	(cc=0.4924)	info on Rv0324/-
Rv3715c/recR	(cc=0.4668)	info on Rv3715c/recR
Rv3245c/mtrB	(cc=0.466)	info on Rv3245c/mtrB
Rv2241/aceE	(cc=0.4644)	info on Rv2241/aceE

Correlation of Rv2135c/- with Rv2869c/rip

Normalized LFCs for Rv2135c/-:
(description and provenance of datasets)

	Rv2135c/-	Rv2869c/rip
Fe_supp_jason_reseq	2.559	2.823
low_pH_jason_reseq	-0.634	-0.231
NO_jason_reseq	-0.995	-0.362
B6_jason_reseq	-0.421	-0.153
MHCII_jason_reseq	-0.37	-0.135
Isoniazid02	-2.187	-0.361
Rifampicin4	-0.49	-2.507
Ethambutol3	2.38	0.482
Meropenem3	-0.399	-0.528
Vancomycin16	0.424	-2.09
Rv2680_day32	0.0	-1.078
H37Rv_KO_MarP	-3.718	-4.082
hypoxia_3wks	-1.511	-2.504
hypoxia_6wks	-0.791	-1.599
glycerol	1.758	0.0
cholesterol	0.0	0.614
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.127
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	2.382	2.313
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.37
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.998
H37Rv_KO_CtpD	0.0	0.445
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.42
H37Rv_KO_MbtN	0.196	1.07
Trans05	0.0	0.0
macrophage_unactivated	-0.761	0.0
IL1	-1.124	-0.374
Rapamycin	-1.163	0.0
Tcell	-1.235	-0.411
GMCSF	-1.001	-0.333
IFNab	0.0	1.255
IFNg	-1.013	0.593
IFNg_GMCSF1	-1.191	-0.396
Rv1432_day32	0.0	-0.884
Rv1565c_day32	0.0	0.0
secA2_input	4.169	2.826
delta_Rv3594	-1.158	0.783
delta_Rv3717	-2.555	0.824
delta_Rv3811	-2.149	0.376
delta_Rv0954	1.49	1.569
PonA1	2.001	0.069
EccD1_KO	-2.375	-0.549
EspI_KO	-2.059	-0.827
PE35_KO	0.067	0.435
PPE68_KO	0.889	0.912
glycerol2	-0.82	-0.193
lignocerate	-1.033	-0.168
oleate	-1.202	-0.196
phosphatidylcholine	-1.188	-0.193
acetate	0.69	0.0
glucAc	0.229	-0.143
Rv0950ko	1.658	-1.538
Rv1096ko	0.344	-0.703
Rv3684ko	1.346	-0.943
delta_otsA_trehalose	1.021	-0.041