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 Rv0592/mce2D:

update plot	correlation	link to info on gene
Rv3839/-	(cc=0.6059)	info on Rv3839/-
Rv0551c/fadD8	(cc=0.5984)	info on Rv0551c/fadD8
Rv0303/-	(cc=0.5553)	info on Rv0303/-
Rv3294c/-	(cc=0.5103)	info on Rv3294c/-
Rv1761c/-	(cc=0.5029)	info on Rv1761c/-
Rv3714c/-	(cc=0.4955)	info on Rv3714c/-
Rv3363c/-	(cc=0.4948)	info on Rv3363c/-
Rv0443/-	(cc=0.4587)	info on Rv0443/-
Rv3532/PPE61	(cc=0.4437)	info on Rv3532/PPE61
Rv1262c/-	(cc=0.4415)	info on Rv1262c/-

Correlation of Rv0592/mce2D with Rv0551c/fadD8

Normalized LFCs for Rv0592/mce2D:
(description and provenance of datasets)

	Rv0592/mce2D	Rv0551c/fadD8
Fe_supp_jason_reseq	0.622	-0.404
low_pH_jason_reseq	-0.049	-0.704
NO_jason_reseq	0.144	0.417
B6_jason_reseq	0.552	0.214
MHCII_jason_reseq	0.342	0.397
Isoniazid02	0.06	-0.506
Rifampicin4	-0.68	-0.441
Ethambutol3	-0.43	-0.303
Meropenem3	0.497	0.243
Vancomycin16	0.109	0.0
Rv2680_day32	-0.357	0.37
H37Rv_KO_MarP	-0.135	0.202
hypoxia_3wks	-0.124	0.502
hypoxia_6wks	0.217	0.798
glycerol	-0.298	-0.097
cholesterol	-0.358	-0.025
AJ	0.299	0.615
Bibs02	0.323	0.258
Bibs02c	0.488	-0.23
BL6	0.835	-0.17
BL6a	0.08	-0.106
BXD01	0.599	0.116
BXD010	0.212	0.219
BXD011	-0.054	0.249
BXD03	0.56	0.091
BXD04	0.261	0.07
BXD05	0.072	0.098
BXD06	-0.134	0.395
BXD07	0.127	0.416
BXD08	0.171	0.329
BXD09	-0.142	0.288
CAST	0.889	0.217
CCcont	-0.173	-0.285
DS01	0.577	0.272
DS02	0.227	0.403
DS04	0.943	0.777
DS0c	0.732	0.536
GP01	0.521	0.765
GP02	0.055	-0.081
GP0c	-0.255	0.122
NOD	0.473	0.212
NZO	0.257	-0.035
PWK	0.347	0.277
H37Rv_KO_CtpC	0.517	-0.067
H37Rv_KO_CtpD	0.525	-0.351
H37Rv_KO_Rv1272	-0.122	-0.016
H37Rv_KO_SugABC	-1.55	-0.023
H37Rv_KO_MbtN	-0.273	-0.385
Trans05	-0.716	-0.844
macrophage_unactivated	0.48	0.256
IL1	-0.122	-0.151
Rapamycin	0.239	-0.344
Tcell	0.375	-0.515
GMCSF	0.401	-0.135
IFNab	-0.06	-0.447
IFNg	0.259	-0.422
IFNg_GMCSF1	0.126	-0.613
Rv1432_day32	1.352	-0.241
Rv1565c_day32	0.377	0.569
secA2_input	-0.081	0.667
delta_Rv3594	0.121	0.476
delta_Rv3717	-0.247	0.547
delta_Rv3811	-0.223	-0.23
delta_Rv0954	-0.654	0.43
PonA1	0.069	0.716
EccD1_KO	-0.664	-0.109
EspI_KO	-0.359	-0.422
PE35_KO	-0.89	0.0
PPE68_KO	-0.586	-0.362
glycerol2	-0.021	-0.098
lignocerate	-0.253	-0.151
oleate	-0.223	0.162
phosphatidylcholine	-0.085	0.043
acetate	-0.374	-0.419
glucAc	-0.529	-0.664
Rv0950ko	0.89	0.0
Rv1096ko	0.983	0.495
Rv3684ko	-0.193	0.239
delta_otsA_trehalose	3.282	4.154