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 Rv1424c/-:

update plot	correlation	link to info on gene
Rv2083/-	(cc=0.5161)	info on Rv2083/-
Rv0011c/-	(cc=0.5133)	info on Rv0011c/-
Rv2136c/-	(cc=0.5107)	info on Rv2136c/-
Rv3475/-	(cc=0.4888)	info on Rv3475/-
Rv3022A/PE29	(cc=0.4808)	info on Rv3022A/PE29
Rv2355/-	(cc=0.4798)	info on Rv2355/-
Rv2270/lppN	(cc=0.4734)	info on Rv2270/lppN
Rv1554/frdC	(cc=0.4731)	info on Rv1554/frdC
Rv1984c/cfp21	(cc=0.4666)	info on Rv1984c/cfp21
Rv2649/-	(cc=0.4647)	info on Rv2649/-

Correlation of Rv1424c/- with Rv3022A/PE29

Normalized LFCs for Rv1424c/-:
(description and provenance of datasets)

	Rv1424c/-	Rv3022A/PE29
Fe_supp_jason_reseq	0.554	0.275
low_pH_jason_reseq	0.035	-0.381
NO_jason_reseq	0.108	-0.709
B6_jason_reseq	0.256	-0.585
MHCII_jason_reseq	0.154	-0.709
Isoniazid02	0.226	0.994
Rifampicin4	0.726	0.967
Ethambutol3	0.039	0.434
Meropenem3	0.255	0.291
Vancomycin16	0.602	0.594
Rv2680_day32	-0.576	-0.826
H37Rv_KO_MarP	-0.044	0.165
hypoxia_3wks	-0.722	0.347
hypoxia_6wks	0.777	-0.81
glycerol	-0.434	0.73
cholesterol	-0.054	1.146
AJ	0.413	2.274
Bibs02	0.128	0.167
Bibs02c	0.373	0.893
BL6	-0.111	0.569
BL6a	0.528	0.641
BXD01	-0.36	0.898
BXD010	0.594	0.456
BXD011	0.784	0.286
BXD03	-0.231	0.216
BXD04	0.073	0.063
BXD05	0.281	0.775
BXD06	0.168	0.593
BXD07	-0.051	0.93
BXD08	0.574	0.28
BXD09	0.375	0.383
CAST	0.055	1.099
CCcont	-0.389	1.022
DS01	0.084	0.883
DS02	-0.027	0.745
DS04	0.915	0.748
DS0c	0.883	-0.019
GP01	0.641	0.72
GP02	1.001	0.311
GP0c	0.672	0.208
NOD	0.054	0.919
NZO	0.532	-0.088
PWK	0.31	0.494
H37Rv_KO_CtpC	0.753	1.553
H37Rv_KO_CtpD	0.728	1.287
H37Rv_KO_Rv1272	1.669	2.221
H37Rv_KO_SugABC	1.084	0.898
H37Rv_KO_MbtN	0.682	0.687
Trans05	0.714	1.378
macrophage_unactivated	0.0	0.767
IL1	-0.629	0.039
Rapamycin	0.531	0.264
Tcell	-0.355	0.525
GMCSF	0.169	1.333
IFNab	-0.46	0.768
IFNg	1.066	0.083
IFNg_GMCSF1	0.0	0.289
Rv1432_day32	1.701	0.85
Rv1565c_day32	0.782	2.139
secA2_input	1.071	0.182
delta_Rv3594	0.408	0.34
delta_Rv3717	0.239	0.145
delta_Rv3811	0.253	0.427
delta_Rv0954	0.27	-0.225
PonA1	0.173	0.516
EccD1_KO	0.395	0.947
EspI_KO	1.184	1.178
PE35_KO	1.345	0.84
PPE68_KO	1.123	0.579
glycerol2	-0.789	-1.302
lignocerate	-0.66	-0.961
oleate	-0.196	-1.032
phosphatidylcholine	-0.508	-0.819
acetate	-1.122	-1.248
glucAc	-0.931	-0.722
Rv0950ko	-0.703	0.555
Rv1096ko	-0.703	-0.347
Rv3684ko	-0.963	-0.354
delta_otsA_trehalose	-0.303	-1.531