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 Rv3765c/tcrX:

update plot	correlation	link to info on gene
Rv0267/narU	(cc=0.5266)	info on Rv0267/narU
Rv0264c/-	(cc=0.5252)	info on Rv0264c/-
Rv1927/-	(cc=0.4678)	info on Rv1927/-
Rv0166/fadD5	(cc=0.4672)	info on Rv0166/fadD5
Rv3532/PPE61	(cc=0.4604)	info on Rv3532/PPE61
Rv3858c/gltD	(cc=0.4463)	info on Rv3858c/gltD
Rv0536/galE3	(cc=0.4357)	info on Rv0536/galE3
Rv2402/-	(cc=0.4308)	info on Rv2402/-
Rv1350/fabG2	(cc=0.4306)	info on Rv1350/fabG2
Rv3435c/-	(cc=0.4302)	info on Rv3435c/-

Correlation of Rv3765c/tcrX with Rv3858c/gltD

Normalized LFCs for Rv3765c/tcrX:
(description and provenance of datasets)

	Rv3765c/tcrX	Rv3858c/gltD
Fe_supp_jason_reseq	0.309	0.0
low_pH_jason_reseq	-0.256	0.44
NO_jason_reseq	-0.276	0.0
B6_jason_reseq	0.547	0.0
MHCII_jason_reseq	0.536	0.0
Isoniazid02	0.166	0.0
Rifampicin4	-0.108	0.0
Ethambutol3	0.463	0.0
Meropenem3	0.056	0.0
Vancomycin16	0.674	0.0
Rv2680_day32	-0.121	0.0
H37Rv_KO_MarP	0.282	0.0
hypoxia_3wks	0.247	0.0
hypoxia_6wks	0.875	0.0
glycerol	0.372	0.0
cholesterol	0.151	0.0
AJ	0.776	0.0
Bibs02	-0.287	0.0
Bibs02c	0.84	0.0
BL6	0.725	0.0
BL6a	0.327	0.0
BXD01	-0.104	0.0
BXD010	0.636	0.0
BXD011	-0.211	0.0
BXD03	0.176	0.0
BXD04	-0.185	0.0
BXD05	-0.118	0.0
BXD06	0.278	0.0
BXD07	0.233	0.0
BXD08	-0.436	0.0
BXD09	0.09	0.0
CAST	0.315	0.0
CCcont	-0.072	0.0
DS01	0.785	0.0
DS02	0.857	0.0
DS04	0.533	0.0
DS0c	0.668	0.0
GP01	1.007	0.0
GP02	1.229	0.0
GP0c	-0.772	0.0
NOD	0.264	0.0
NZO	1.123	0.0
PWK	0.698	0.0
H37Rv_KO_CtpC	-0.591	0.0
H37Rv_KO_CtpD	0.573	0.0
H37Rv_KO_Rv1272	0.237	0.0
H37Rv_KO_SugABC	0.324	0.0
H37Rv_KO_MbtN	-1.647	0.0
Trans05	0.789	0.0
macrophage_unactivated	-0.489	0.0
IL1	-0.104	0.0
Rapamycin	0.015	0.0
Tcell	-0.557	0.0
GMCSF	0.214	0.0
IFNab	-0.26	0.0
IFNg	0.925	0.0
IFNg_GMCSF1	-0.336	0.0
Rv1432_day32	0.49	0.0
Rv1565c_day32	-0.338	0.0
secA2_input	-1.263	-1.45
delta_Rv3594	-0.115	0.0
delta_Rv3717	-0.398	0.0
delta_Rv3811	0.064	0.0
delta_Rv0954	-0.019	0.178
PonA1	0.335	0.0
EccD1_KO	-0.71	-2.592
EspI_KO	-0.85	-2.247
PE35_KO	-0.449	-1.934
PPE68_KO	-0.953	-2.963
glycerol2	0.44	0.0
lignocerate	0.852	0.0
oleate	0.363	0.0
phosphatidylcholine	0.517	0.0
acetate	1.39	0.0
glucAc	1.109	0.0
Rv0950ko	-0.277	-0.669
Rv1096ko	-0.262	-1.463
Rv3684ko	-0.301	-0.35
delta_otsA_trehalose	0.911	0.0