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 Rv2454c/-:

update plot	correlation	link to info on gene
Rv2455c/-	(cc=0.9569)	info on Rv2455c/-
Rv2461c/clpP1	(cc=0.7951)	info on Rv2461c/clpP1
Rv1540/-	(cc=0.6768)	info on Rv1540/-
Rv3215/entC	(cc=0.6468)	info on Rv3215/entC
Rv2393/che1	(cc=0.5337)	info on Rv2393/che1
Rv2434c/-	(cc=0.4947)	info on Rv2434c/-
Rv3490/otsA	(cc=0.4767)	info on Rv3490/otsA
Rv2847c/cysG	(cc=0.4747)	info on Rv2847c/cysG
Rv3603c/-	(cc=0.4609)	info on Rv3603c/-
Rv1324/-	(cc=0.4318)	info on Rv1324/-

Correlation of Rv2454c/- with Rv2434c/-

Normalized LFCs for Rv2454c/-:
(description and provenance of datasets)

	Rv2454c/-	Rv2434c/-
Fe_supp_jason_reseq	0.0	-0.598
low_pH_jason_reseq	0.0	0.463
NO_jason_reseq	0.0	-0.302
B6_jason_reseq	0.0	0.586
MHCII_jason_reseq	0.0	0.399
Isoniazid02	0.851	1.336
Rifampicin4	0.0	0.087
Ethambutol3	0.0	-0.122
Meropenem3	0.0	0.147
Vancomycin16	0.0	0.247
Rv2680_day32	0.0	-0.5
H37Rv_KO_MarP	1.081	0.291
hypoxia_3wks	0.0	-0.259
hypoxia_6wks	0.0	0.213
glycerol	0.0	-0.512
cholesterol	0.0	-1.026
AJ	0.0	-0.839
Bibs02	0.0	0.579
Bibs02c	0.0	0.561
BL6	0.0	0.758
BL6a	0.0	0.063
BXD01	0.0	0.265
BXD010	0.0	0.294
BXD011	0.0	0.079
BXD03	0.0	-0.52
BXD04	0.0	-0.476
BXD05	0.0	0.238
BXD06	0.0	0.219
BXD07	0.0	-0.295
BXD08	0.0	0.18
BXD09	0.0	0.69
CAST	0.0	0.037
CCcont	0.0	0.4
DS01	0.0	0.775
DS02	0.0	1.744
DS04	0.0	1.244
DS0c	0.0	0.859
GP01	0.099	0.358
GP02	0.0	0.089
GP0c	0.0	-0.47
NOD	0.0	0.036
NZO	0.0	-0.273
PWK	0.0	-0.199
H37Rv_KO_CtpC	0.0	0.552
H37Rv_KO_CtpD	0.445	0.0
H37Rv_KO_Rv1272	0.0	-0.791
H37Rv_KO_SugABC	0.0	-0.583
H37Rv_KO_MbtN	0.0	-0.326
Trans05	0.0	-0.386
macrophage_unactivated	0.0	0.126
IL1	0.0	0.231
Rapamycin	0.0	0.0
Tcell	0.0	0.495
GMCSF	0.0	0.206
IFNab	0.0	-0.314
IFNg	0.0	0.775
IFNg_GMCSF1	0.0	0.361
Rv1432_day32	0.0	-0.679
Rv1565c_day32	0.0	0.051
secA2_input	-2.955	-1.99
delta_Rv3594	0.0	-0.953
delta_Rv3717	0.0	-0.598
delta_Rv3811	0.0	-0.706
delta_Rv0954	0.178	-0.482
PonA1	0.159	0.457
EccD1_KO	0.0	0.329
EspI_KO	0.0	1.258
PE35_KO	0.767	1.569
PPE68_KO	0.442	1.568
glycerol2	0.0	0.137
lignocerate	0.0	0.357
oleate	0.0	-0.213
phosphatidylcholine	0.0	-0.028
acetate	0.229	0.346
glucAc	0.143	0.141
Rv0950ko	-0.38	-0.522
Rv1096ko	-0.793	-0.217
Rv3684ko	-0.413	-0.075
delta_otsA_trehalose	-0.027	-0.214