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 Rv0572c/-:

update plot	correlation	link to info on gene
Rv0443/-	(cc=0.5626)	info on Rv0443/-
Rv3742c/-	(cc=0.5123)	info on Rv3742c/-
Rv2777c/-	(cc=0.5088)	info on Rv2777c/-
Rv2689c/-	(cc=0.5066)	info on Rv2689c/-
Rv3555c/-	(cc=0.4841)	info on Rv3555c/-
Rv1087/PE_PGRS21	(cc=0.4734)	info on Rv1087/PE_PGRS21
Rv3738c/PPE66	(cc=0.4718)	info on Rv3738c/PPE66
Rv1604/impA	(cc=0.4639)	info on Rv1604/impA
Rv3287c/rsbW	(cc=0.4552)	info on Rv3287c/rsbW
Rv2892c/PPE45	(cc=0.4528)	info on Rv2892c/PPE45

Correlation of Rv0572c/- with Rv2689c/-

Normalized LFCs for Rv0572c/-:
(description and provenance of datasets)

	Rv0572c/-	Rv2689c/-
Fe_supp_jason_reseq	-0.704	-1.129
low_pH_jason_reseq	-0.642	-1.012
NO_jason_reseq	-0.113	0.559
B6_jason_reseq	-0.323	-0.512
MHCII_jason_reseq	-0.164	-1.4
Isoniazid02	-0.442	-1.215
Rifampicin4	0.195	0.357
Ethambutol3	0.112	0.664
Meropenem3	-0.071	-0.204
Vancomycin16	0.082	0.263
Rv2680_day32	-0.024	-0.353
H37Rv_KO_MarP	-0.349	-0.014
hypoxia_3wks	0.02	-0.59
hypoxia_6wks	0.52	-0.019
glycerol	0.786	0.69
cholesterol	0.303	0.132
AJ	-0.501	0.274
Bibs02	1.257	-0.154
Bibs02c	0.668	-0.811
BL6	0.552	0.373
BL6a	0.402	-0.151
BXD01	-0.145	0.596
BXD010	0.242	0.713
BXD011	0.82	1.253
BXD03	0.888	0.133
BXD04	0.015	-0.028
BXD05	0.184	0.696
BXD06	0.319	0.54
BXD07	0.434	0.818
BXD08	0.233	0.427
BXD09	0.017	0.525
CAST	0.047	0.662
CCcont	0.799	0.308
DS01	-0.284	-0.335
DS02	-0.08	-0.049
DS04	0.055	0.978
DS0c	-0.036	-1.273
GP01	0.362	0.084
GP02	2.156	0.453
GP0c	0.117	0.366
NOD	0.063	0.236
NZO	0.032	0.756
PWK	0.047	1.159
H37Rv_KO_CtpC	1.011	0.856
H37Rv_KO_CtpD	0.638	-0.387
H37Rv_KO_Rv1272	0.674	0.203
H37Rv_KO_SugABC	0.184	0.59
H37Rv_KO_MbtN	-0.143	-0.164
Trans05	0.783	0.084
macrophage_unactivated	0.338	0.104
IL1	-0.255	-0.021
Rapamycin	-0.071	-0.424
Tcell	-0.046	0.371
GMCSF	-0.074	-0.726
IFNab	-0.348	-0.245
IFNg	-0.216	-0.735
IFNg_GMCSF1	-0.27	-0.669
Rv1432_day32	-0.229	0.188
Rv1565c_day32	0.662	-0.194
secA2_input	0.008	0.626
delta_Rv3594	-0.184	-0.171
delta_Rv3717	-0.034	0.518
delta_Rv3811	0.039	0.018
delta_Rv0954	-0.421	-0.229
PonA1	-0.517	-0.774
EccD1_KO	-0.056	0.441
EspI_KO	0.482	0.844
PE35_KO	-0.23	0.233
PPE68_KO	-0.237	0.464
glycerol2	0.902	0.593
lignocerate	1.179	0.928
oleate	0.103	0.373
phosphatidylcholine	0.852	0.723
acetate	0.071	1.082
glucAc	0.395	0.601
Rv0950ko	0.063	-0.16
Rv1096ko	0.763	-0.712
Rv3684ko	0.331	0.783
delta_otsA_trehalose	2.429	2.741