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 Rv2177c/-:

update plot	correlation	link to info on gene
Rv2424c/-	(cc=0.5495)	info on Rv2424c/-
Rv1263/amiB2	(cc=0.5175)	info on Rv1263/amiB2
Rv2786c/ribF	(cc=0.5033)	info on Rv2786c/ribF
Rv1527c/pks5	(cc=0.4975)	info on Rv1527c/pks5
Rv1531/-	(cc=0.4577)	info on Rv1531/-
Rv0359/-	(cc=0.4498)	info on Rv0359/-
Rv3691/-	(cc=0.4479)	info on Rv3691/-
Rv1004c/-	(cc=0.4475)	info on Rv1004c/-
Rv2016/-	(cc=0.4425)	info on Rv2016/-
Rv2464c/-	(cc=0.4376)	info on Rv2464c/-

Correlation of Rv2177c/- with Rv1527c/pks5

Normalized LFCs for Rv2177c/-:
(description and provenance of datasets)

	Rv2177c/-	Rv1527c/pks5
Fe_supp_jason_reseq	0.011	0.175
low_pH_jason_reseq	-1.226	-0.587
NO_jason_reseq	0.302	-0.155
B6_jason_reseq	0.386	0.181
MHCII_jason_reseq	-0.305	0.229
Isoniazid02	-0.054	-0.015
Rifampicin4	1.162	-0.057
Ethambutol3	0.672	0.225
Meropenem3	0.639	0.915
Vancomycin16	0.504	-0.056
Rv2680_day32	-0.169	-0.199
H37Rv_KO_MarP	-0.174	0.189
hypoxia_3wks	0.271	0.159
hypoxia_6wks	0.336	0.294
glycerol	-0.312	0.196
cholesterol	-0.143	0.013
AJ	0.948	0.622
Bibs02	-0.38	0.15
Bibs02c	-0.394	0.477
BL6	-0.158	0.251
BL6a	-0.205	0.066
BXD01	-0.61	-0.215
BXD010	-0.632	0.021
BXD011	-0.555	-0.262
BXD03	-0.386	-0.108
BXD04	-0.057	-0.508
BXD05	-0.039	0.022
BXD06	-0.068	-0.39
BXD07	-0.227	-0.036
BXD08	-0.352	0.022
BXD09	0.067	-0.304
CAST	0.494	-0.12
CCcont	-0.651	0.025
DS01	0.417	0.554
DS02	0.384	0.126
DS04	1.362	0.455
DS0c	-0.506	0.325
GP01	1.28	1.712
GP02	0.324	0.477
GP0c	1.16	0.555
NOD	-0.028	0.304
NZO	0.88	0.314
PWK	0.861	-0.017
H37Rv_KO_CtpC	-0.189	0.314
H37Rv_KO_CtpD	-0.601	0.143
H37Rv_KO_Rv1272	0.397	0.415
H37Rv_KO_SugABC	0.481	0.611
H37Rv_KO_MbtN	-1.489	-0.13
Trans05	1.047	0.289
macrophage_unactivated	-0.887	-0.158
IL1	-0.736	-0.074
Rapamycin	-0.126	-0.114
Tcell	-0.365	-0.081
GMCSF	0.29	0.19
IFNab	-0.538	-0.151
IFNg	-0.997	-0.134
IFNg_GMCSF1	-0.352	0.189
Rv1432_day32	0.245	0.216
Rv1565c_day32	-0.283	-0.104
secA2_input	1.116	0.523
delta_Rv3594	-0.433	0.021
delta_Rv3717	-0.233	-0.374
delta_Rv3811	-0.312	0.312
delta_Rv0954	-0.59	-0.172
PonA1	-0.087	0.492
EccD1_KO	-0.253	0.089
EspI_KO	0.225	0.262
PE35_KO	-0.761	0.23
PPE68_KO	-0.646	0.378
glycerol2	-0.017	0.46
lignocerate	-0.029	0.673
oleate	0.301	0.373
phosphatidylcholine	0.283	0.696
acetate	0.735	0.845
glucAc	0.176	0.441
Rv0950ko	-0.19	0.422
Rv1096ko	-0.166	0.311
Rv3684ko	-0.449	0.498
delta_otsA_trehalose	-0.662	0.551