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 Rv0365c/-:

update plot	correlation	link to info on gene
Rv3138/pflA	(cc=0.4881)	info on Rv3138/pflA
Rv3675/-	(cc=0.4735)	info on Rv3675/-
Rv0145/-	(cc=0.468)	info on Rv0145/-
Rv0971c/echA7	(cc=0.4593)	info on Rv0971c/echA7
Rv1981c/nrdF1	(cc=0.4332)	info on Rv1981c/nrdF1
Rv3008/-	(cc=0.4268)	info on Rv3008/-
Rv2390c/-	(cc=0.4256)	info on Rv2390c/-
Rv2891/-	(cc=0.4252)	info on Rv2891/-
Rv0874c/-	(cc=0.4176)	info on Rv0874c/-
Rv0897c/-	(cc=0.4155)	info on Rv0897c/-

Correlation of Rv0365c/- with Rv0145/-

Normalized LFCs for Rv0365c/-:
(description and provenance of datasets)

	Rv0365c/-	Rv0145/-
Fe_supp_jason_reseq	-0.158	-1.405
low_pH_jason_reseq	-0.793	-0.268
NO_jason_reseq	0.339	0.016
B6_jason_reseq	-0.393	-0.405
MHCII_jason_reseq	-0.159	-0.553
Isoniazid02	0.042	-0.777
Rifampicin4	0.436	0.0
Ethambutol3	0.306	-0.986
Meropenem3	-0.999	-1.487
Vancomycin16	-0.358	-1.26
Rv2680_day32	0.061	-0.324
H37Rv_KO_MarP	-0.095	0.267
hypoxia_3wks	-0.494	-0.706
hypoxia_6wks	-1.038	-1.685
glycerol	0.844	0.214
cholesterol	0.129	-0.691
AJ	-0.254	-0.491
Bibs02	0.234	-0.046
Bibs02c	0.338	0.076
BL6	0.314	-0.481
BL6a	0.176	-0.05
BXD01	0.361	0.257
BXD010	0.344	0.114
BXD011	2.593	0.091
BXD03	0.441	0.581
BXD04	-0.383	-0.369
BXD05	0.523	0.345
BXD06	0.278	0.016
BXD07	0.418	0.433
BXD08	0.202	0.08
BXD09	-0.188	-0.117
CAST	0.182	0.042
CCcont	0.283	0.174
DS01	0.175	0.0
DS02	1.093	-0.759
DS04	0.114	-0.711
DS0c	0.149	0.556
GP01	0.842	0.517
GP02	0.915	0.378
GP0c	0.377	0.893
NOD	-0.288	-0.823
NZO	-0.045	-0.714
PWK	0.271	-0.024
H37Rv_KO_CtpC	0.044	-0.147
H37Rv_KO_CtpD	0.511	0.79
H37Rv_KO_Rv1272	0.097	-0.457
H37Rv_KO_SugABC	0.742	0.777
H37Rv_KO_MbtN	0.381	0.505
Trans05	-0.143	-0.587
macrophage_unactivated	0.297	0.256
IL1	0.338	-0.463
Rapamycin	0.657	-0.706
Tcell	0.212	0.293
GMCSF	0.581	-0.412
IFNab	0.608	0.082
IFNg	0.468	0.024
IFNg_GMCSF1	0.273	-0.396
Rv1432_day32	-0.103	-1.562
Rv1565c_day32	-0.377	0.813
secA2_input	0.155	-0.445
delta_Rv3594	-0.497	-0.655
delta_Rv3717	-0.653	-0.369
delta_Rv3811	-0.228	-0.858
delta_Rv0954	-0.411	-0.019
PonA1	0.22	0.139
EccD1_KO	0.342	-0.654
EspI_KO	-0.268	-0.873
PE35_KO	-0.292	-1.129
PPE68_KO	-0.378	-0.598
glycerol2	-0.087	-0.518
lignocerate	0.287	-0.921
oleate	0.102	-0.081
phosphatidylcholine	0.146	-0.801
acetate	0.012	-1.094
glucAc	0.133	-1.024
Rv0950ko	0.657	0.145
Rv1096ko	0.262	0.437
Rv3684ko	0.134	0.069
delta_otsA_trehalose	-0.284	-0.605