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 Rv3785/-:

update plot	correlation	link to info on gene
Rv1021/-	(cc=0.4517)	info on Rv1021/-
Rv0220/lipC	(cc=0.4427)	info on Rv0220/lipC
Rv3886c/mycP2	(cc=0.4317)	info on Rv3886c/mycP2
Rv1724c/-	(cc=0.4176)	info on Rv1724c/-
Rv3426/PPE58	(cc=0.4161)	info on Rv3426/PPE58
Rv0989c/grcC2	(cc=0.4148)	info on Rv0989c/grcC2
Rv2665/-	(cc=0.409)	info on Rv2665/-
Rv1418/lprH	(cc=0.4079)	info on Rv1418/lprH
Rv3831/-	(cc=0.4051)	info on Rv3831/-
Rv0072/-	(cc=0.3964)	info on Rv0072/-

Correlation of Rv3785/- with Rv1724c/-

Normalized LFCs for Rv3785/-:
(description and provenance of datasets)

	Rv3785/-	Rv1724c/-
Fe_supp_jason_reseq	0.008	0.971
low_pH_jason_reseq	0.36	0.069
NO_jason_reseq	-0.816	0.252
B6_jason_reseq	-0.353	0.292
MHCII_jason_reseq	0.401	0.452
Isoniazid02	-0.33	-0.189
Rifampicin4	-0.579	-0.282
Ethambutol3	0.347	-0.203
Meropenem3	0.096	-0.369
Vancomycin16	-0.175	-0.276
Rv2680_day32	0.383	-0.018
H37Rv_KO_MarP	0.515	0.031
hypoxia_3wks	-0.786	0.199
hypoxia_6wks	0.056	-0.34
glycerol	0.344	-0.834
cholesterol	-0.128	-0.048
AJ	0.103	1.045
Bibs02	0.461	0.764
Bibs02c	-0.74	-0.023
BL6	0.613	0.085
BL6a	0.069	0.561
BXD01	0.094	0.442
BXD010	0.694	1.103
BXD011	0.385	0.485
BXD03	0.548	0.496
BXD04	0.129	0.38
BXD05	0.123	0.946
BXD06	0.513	0.705
BXD07	0.717	0.709
BXD08	0.402	0.835
BXD09	0.482	0.682
CAST	-0.599	0.464
CCcont	0.512	0.294
DS01	0.775	0.455
DS02	0.745	0.408
DS04	0.838	0.142
DS0c	0.256	0.058
GP01	0.814	1.668
GP02	0.306	1.07
GP0c	0.265	0.586
NOD	0.011	0.199
NZO	0.669	0.419
PWK	-0.523	-0.385
H37Rv_KO_CtpC	-0.292	1.1
H37Rv_KO_CtpD	1.364	0.086
H37Rv_KO_Rv1272	0.333	0.923
H37Rv_KO_SugABC	0.624	0.87
H37Rv_KO_MbtN	0.099	0.803
Trans05	0.149	0.69
macrophage_unactivated	-0.088	-0.271
IL1	0.053	-0.089
Rapamycin	-0.086	-0.199
Tcell	-0.622	-0.049
GMCSF	0.716	0.407
IFNab	-0.142	0.133
IFNg	-0.037	-0.16
IFNg_GMCSF1	1.027	0.255
Rv1432_day32	0.171	0.057
Rv1565c_day32	0.185	0.479
secA2_input	-0.158	0.141
delta_Rv3594	-0.263	0.228
delta_Rv3717	-0.408	0.525
delta_Rv3811	-0.256	0.128
delta_Rv0954	-0.463	0.208
PonA1	0.477	-0.097
EccD1_KO	-0.421	-0.73
EspI_KO	-0.513	-0.242
PE35_KO	-0.088	0.219
PPE68_KO	-0.058	0.093
glycerol2	0.245	0.247
lignocerate	0.191	0.33
oleate	0.055	0.391
phosphatidylcholine	0.046	0.517
acetate	0.14	-0.11
glucAc	-0.122	0.779
Rv0950ko	0.905	1.158
Rv1096ko	0.223	-0.229
Rv3684ko	-0.305	0.121
delta_otsA_trehalose	-1.304	-1.162